--
--

\restrict yzOyuHLpfHSOwSC60PqHYmu4QYBeHR8QmrsFSZDkdC8lc3ITbIvRuiOEqeUepfY


SELECT pg_catalog.set_config('search_path', '', false);

--
-- Name: fuzzystrmatch; Type: EXTENSION; Schema: -; Owner: -
--

CREATE EXTENSION IF NOT EXISTS fuzzystrmatch WITH SCHEMA public;


--
-- Name: pg_trgm; Type: EXTENSION; Schema: -; Owner: -
--

CREATE EXTENSION IF NOT EXISTS pg_trgm WITH SCHEMA public;


--
-- Name: tablefunc; Type: EXTENSION; Schema: -; Owner: -
--

CREATE EXTENSION IF NOT EXISTS tablefunc WITH SCHEMA public;


--
-- Name: pg_schema_size(text); Type: FUNCTION; Schema: public; Owner: -
--

CREATE FUNCTION public.pg_schema_size(text) RETURNS bigint
    LANGUAGE sql
    AS $_$
SELECT SUM(pg_total_relation_size(quote_ident(schemaname) || '.' || quote_ident(tablename)))::BIGINT FROM pg_tables WHERE schemaname = $1
$_$;




--
-- Name: analysis; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.analysis (
    analysis_id integer NOT NULL,
    name character varying(255),
    description text,
    program character varying(255) NOT NULL,
    programversion character varying(255) NOT NULL,
    algorithm character varying(255),
    sourcename character varying(255),
    sourceversion character varying(255),
    sourceuri text,
    timeexecuted timestamp without time zone DEFAULT now() NOT NULL
);


--
-- Name: analysis_analysis_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.analysis_analysis_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: analysis_analysis_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.analysis_analysis_id_seq OWNED BY public.analysis.analysis_id;


--
-- Name: analysisfeature; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.analysisfeature (
    analysisfeature_id integer NOT NULL,
    feature_id integer NOT NULL,
    analysis_id integer NOT NULL,
    rawscore double precision,
    normscore double precision,
    significance double precision,
    identity double precision
);


--
-- Name: analysisfeature_analysisfeature_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.analysisfeature_analysisfeature_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: analysisfeature_analysisfeature_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.analysisfeature_analysisfeature_id_seq OWNED BY public.analysisfeature.analysisfeature_id;


--
-- Name: chadoprop; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.chadoprop (
    chadoprop_id integer NOT NULL,
    type_id integer NOT NULL,
    value text,
    rank integer DEFAULT 0 NOT NULL
);


--
-- Name: chadoprop_chadoprop_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.chadoprop_chadoprop_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: chadoprop_chadoprop_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.chadoprop_chadoprop_id_seq OWNED BY public.chadoprop.chadoprop_id;


--
-- Name: cv; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.cv (
    cv_id integer NOT NULL,
    name character varying(255) NOT NULL,
    definition text
);


--
-- Name: cv_cv_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.cv_cv_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: cv_cv_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.cv_cv_id_seq OWNED BY public.cv.cv_id;


--
-- Name: cvprop; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.cvprop (
    cvprop_id integer NOT NULL,
    cv_id integer NOT NULL,
    type_id integer NOT NULL,
    value text,
    rank integer DEFAULT 0 NOT NULL
);


--
-- Name: cvprop_cvprop_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.cvprop_cvprop_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: cvprop_cvprop_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.cvprop_cvprop_id_seq OWNED BY public.cvprop.cvprop_id;


--
-- Name: cvterm; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.cvterm (
    cvterm_id integer NOT NULL,
    cv_id integer NOT NULL,
    name character varying(1024) NOT NULL,
    definition text,
    dbxref_id integer NOT NULL,
    is_obsolete integer DEFAULT 0 NOT NULL,
    is_relationshiptype integer DEFAULT 0 NOT NULL
);


--
-- Name: cvterm_cvterm_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.cvterm_cvterm_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: cvterm_cvterm_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.cvterm_cvterm_id_seq OWNED BY public.cvterm.cvterm_id;


--
-- Name: cvterm_dbxref; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.cvterm_dbxref (
    cvterm_dbxref_id integer NOT NULL,
    cvterm_id integer NOT NULL,
    dbxref_id integer NOT NULL,
    is_for_definition integer DEFAULT 0 NOT NULL
);


--
-- Name: cvterm_dbxref_cvterm_dbxref_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.cvterm_dbxref_cvterm_dbxref_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: cvterm_dbxref_cvterm_dbxref_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.cvterm_dbxref_cvterm_dbxref_id_seq OWNED BY public.cvterm_dbxref.cvterm_dbxref_id;


--
-- Name: cvterm_relationship; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.cvterm_relationship (
    cvterm_relationship_id integer NOT NULL,
    type_id integer NOT NULL,
    subject_id integer NOT NULL,
    object_id integer NOT NULL
);


--
-- Name: cvterm_relationship_cvterm_relationship_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.cvterm_relationship_cvterm_relationship_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: cvterm_relationship_cvterm_relationship_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.cvterm_relationship_cvterm_relationship_id_seq OWNED BY public.cvterm_relationship.cvterm_relationship_id;


--
-- Name: cvtermpath; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.cvtermpath (
    cvtermpath_id integer NOT NULL,
    type_id integer,
    subject_id integer NOT NULL,
    object_id integer NOT NULL,
    cv_id integer NOT NULL,
    pathdistance integer
);


--
-- Name: cvtermpath_cvtermpath_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.cvtermpath_cvtermpath_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: cvtermpath_cvtermpath_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.cvtermpath_cvtermpath_id_seq OWNED BY public.cvtermpath.cvtermpath_id;


--
-- Name: cvtermprop; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.cvtermprop (
    cvtermprop_id integer NOT NULL,
    cvterm_id integer NOT NULL,
    type_id integer NOT NULL,
    value text DEFAULT ''::text NOT NULL,
    rank integer DEFAULT 0 NOT NULL
);


--
-- Name: cvtermprop_cvtermprop_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.cvtermprop_cvtermprop_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: cvtermprop_cvtermprop_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.cvtermprop_cvtermprop_id_seq OWNED BY public.cvtermprop.cvtermprop_id;


--
-- Name: cvtermsynonym; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.cvtermsynonym (
    cvtermsynonym_id integer NOT NULL,
    cvterm_id integer NOT NULL,
    synonym character varying(1024) NOT NULL,
    type_id integer
);


--
-- Name: cvtermsynonym_cvtermsynonym_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.cvtermsynonym_cvtermsynonym_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: cvtermsynonym_cvtermsynonym_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.cvtermsynonym_cvtermsynonym_id_seq OWNED BY public.cvtermsynonym.cvtermsynonym_id;


--
-- Name: db; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.db (
    db_id integer NOT NULL,
    name character varying(255) NOT NULL,
    description text,
    urlprefix character varying(255),
    url character varying(255)
);


--
-- Name: db_db_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.db_db_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: db_db_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.db_db_id_seq OWNED BY public.db.db_id;


--
-- Name: dbxref; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.dbxref (
    dbxref_id integer NOT NULL,
    db_id integer NOT NULL,
    accession character varying(255) NOT NULL,
    version character varying(255) DEFAULT ''::character varying NOT NULL,
    description text
);


--
-- Name: dbxref_dbxref_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.dbxref_dbxref_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: dbxref_dbxref_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.dbxref_dbxref_id_seq OWNED BY public.dbxref.dbxref_id;


--
-- Name: dbxrefprop; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.dbxrefprop (
    dbxrefprop_id integer NOT NULL,
    dbxref_id integer NOT NULL,
    type_id integer NOT NULL,
    value text DEFAULT ''::text NOT NULL,
    rank integer DEFAULT 0 NOT NULL
);


--
-- Name: dbxrefprop_dbxrefprop_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.dbxrefprop_dbxrefprop_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: dbxrefprop_dbxrefprop_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.dbxrefprop_dbxrefprop_id_seq OWNED BY public.dbxrefprop.dbxrefprop_id;


--
-- Name: feature; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.feature (
    feature_id integer NOT NULL,
    dbxref_id integer,
    organism_id integer NOT NULL,
    name character varying(255),
    uniquename text NOT NULL,
    residues text,
    seqlen integer,
    md5checksum character(32),
    type_id integer NOT NULL,
    is_analysis boolean DEFAULT false NOT NULL,
    is_obsolete boolean DEFAULT false NOT NULL,
    timeaccessioned timestamp without time zone DEFAULT now() NOT NULL,
    timelastmodified timestamp without time zone DEFAULT now() NOT NULL
);
ALTER TABLE ONLY public.feature ALTER COLUMN residues SET STORAGE EXTERNAL;


--
-- Name: feature_cvterm; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.feature_cvterm (
    feature_cvterm_id integer NOT NULL,
    feature_id integer NOT NULL,
    cvterm_id integer NOT NULL,
    pub_id integer NOT NULL,
    is_not boolean DEFAULT false NOT NULL,
    rank integer DEFAULT 0 NOT NULL
);


--
-- Name: feature_cvterm_dbxref; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.feature_cvterm_dbxref (
    feature_cvterm_dbxref_id integer NOT NULL,
    feature_cvterm_id integer NOT NULL,
    dbxref_id integer NOT NULL
);


--
-- Name: feature_cvterm_dbxref_feature_cvterm_dbxref_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.feature_cvterm_dbxref_feature_cvterm_dbxref_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: feature_cvterm_dbxref_feature_cvterm_dbxref_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.feature_cvterm_dbxref_feature_cvterm_dbxref_id_seq OWNED BY public.feature_cvterm_dbxref.feature_cvterm_dbxref_id;


--
-- Name: feature_cvterm_feature_cvterm_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.feature_cvterm_feature_cvterm_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: feature_cvterm_feature_cvterm_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.feature_cvterm_feature_cvterm_id_seq OWNED BY public.feature_cvterm.feature_cvterm_id;


--
-- Name: feature_cvterm_pub; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.feature_cvterm_pub (
    feature_cvterm_pub_id integer NOT NULL,
    feature_cvterm_id integer NOT NULL,
    pub_id integer NOT NULL
);


--
-- Name: feature_cvterm_pub_feature_cvterm_pub_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.feature_cvterm_pub_feature_cvterm_pub_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: feature_cvterm_pub_feature_cvterm_pub_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.feature_cvterm_pub_feature_cvterm_pub_id_seq OWNED BY public.feature_cvterm_pub.feature_cvterm_pub_id;


--
-- Name: feature_cvtermprop; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.feature_cvtermprop (
    feature_cvtermprop_id integer NOT NULL,
    feature_cvterm_id integer NOT NULL,
    type_id integer NOT NULL,
    value text,
    rank integer DEFAULT 0 NOT NULL
);


--
-- Name: feature_cvtermprop_feature_cvtermprop_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.feature_cvtermprop_feature_cvtermprop_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: feature_cvtermprop_feature_cvtermprop_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.feature_cvtermprop_feature_cvtermprop_id_seq OWNED BY public.feature_cvtermprop.feature_cvtermprop_id;


--
-- Name: feature_dbxref; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.feature_dbxref (
    feature_dbxref_id integer NOT NULL,
    feature_id integer NOT NULL,
    dbxref_id integer NOT NULL,
    is_current boolean DEFAULT true NOT NULL
);


--
-- Name: feature_dbxref_feature_dbxref_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.feature_dbxref_feature_dbxref_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: feature_dbxref_feature_dbxref_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.feature_dbxref_feature_dbxref_id_seq OWNED BY public.feature_dbxref.feature_dbxref_id;


--
-- Name: feature_expression; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.feature_expression (
    feature_expression_id integer NOT NULL,
    expression_id integer NOT NULL,
    feature_id integer NOT NULL,
    pub_id integer NOT NULL
);


--
-- Name: feature_expression_feature_expression_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.feature_expression_feature_expression_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: feature_expression_feature_expression_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.feature_expression_feature_expression_id_seq OWNED BY public.feature_expression.feature_expression_id;


--
-- Name: feature_expressionprop; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.feature_expressionprop (
    feature_expressionprop_id integer NOT NULL,
    feature_expression_id integer NOT NULL,
    type_id integer NOT NULL,
    value text,
    rank integer DEFAULT 0 NOT NULL
);


--
-- Name: feature_expressionprop_feature_expressionprop_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.feature_expressionprop_feature_expressionprop_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: feature_expressionprop_feature_expressionprop_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.feature_expressionprop_feature_expressionprop_id_seq OWNED BY public.feature_expressionprop.feature_expressionprop_id;


--
-- Name: feature_feature_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.feature_feature_id_seq
    START WITH 7651244
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: feature_feature_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.feature_feature_id_seq OWNED BY public.feature.feature_id;


--
-- Name: feature_genotype; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.feature_genotype (
    feature_genotype_id integer NOT NULL,
    feature_id integer NOT NULL,
    genotype_id integer NOT NULL,
    chromosome_id integer,
    rank integer NOT NULL,
    cgroup integer NOT NULL,
    cvterm_id integer NOT NULL
);


--
-- Name: feature_genotype_feature_genotype_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.feature_genotype_feature_genotype_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: feature_genotype_feature_genotype_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.feature_genotype_feature_genotype_id_seq OWNED BY public.feature_genotype.feature_genotype_id;


--
-- Name: feature_phenotype; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.feature_phenotype (
    feature_phenotype_id integer NOT NULL,
    feature_id integer NOT NULL,
    phenotype_id integer NOT NULL
);


--
-- Name: feature_phenotype_feature_phenotype_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.feature_phenotype_feature_phenotype_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: feature_phenotype_feature_phenotype_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.feature_phenotype_feature_phenotype_id_seq OWNED BY public.feature_phenotype.feature_phenotype_id;


--
-- Name: feature_pub; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.feature_pub (
    feature_pub_id integer NOT NULL,
    feature_id integer NOT NULL,
    pub_id integer NOT NULL
);


--
-- Name: feature_pub_feature_pub_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.feature_pub_feature_pub_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: feature_pub_feature_pub_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.feature_pub_feature_pub_id_seq OWNED BY public.feature_pub.feature_pub_id;


--
-- Name: feature_pubprop; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.feature_pubprop (
    feature_pubprop_id integer NOT NULL,
    feature_pub_id integer NOT NULL,
    type_id integer NOT NULL,
    value text,
    rank integer DEFAULT 0 NOT NULL
);


--
-- Name: feature_pubprop_feature_pubprop_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.feature_pubprop_feature_pubprop_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: feature_pubprop_feature_pubprop_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.feature_pubprop_feature_pubprop_id_seq OWNED BY public.feature_pubprop.feature_pubprop_id;


--
-- Name: feature_relationship; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.feature_relationship (
    feature_relationship_id integer NOT NULL,
    subject_id integer NOT NULL,
    object_id integer NOT NULL,
    type_id integer NOT NULL,
    value text,
    rank integer DEFAULT 0 NOT NULL
);


--
-- Name: feature_relationship_feature_relationship_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.feature_relationship_feature_relationship_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: feature_relationship_feature_relationship_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.feature_relationship_feature_relationship_id_seq OWNED BY public.feature_relationship.feature_relationship_id;


--
-- Name: feature_relationship_pub; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.feature_relationship_pub (
    feature_relationship_pub_id integer NOT NULL,
    feature_relationship_id integer NOT NULL,
    pub_id integer NOT NULL
);


--
-- Name: feature_relationship_pub_feature_relationship_pub_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.feature_relationship_pub_feature_relationship_pub_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: feature_relationship_pub_feature_relationship_pub_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.feature_relationship_pub_feature_relationship_pub_id_seq OWNED BY public.feature_relationship_pub.feature_relationship_pub_id;


--
-- Name: feature_relationshipprop; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.feature_relationshipprop (
    feature_relationshipprop_id integer NOT NULL,
    feature_relationship_id integer NOT NULL,
    type_id integer NOT NULL,
    value text,
    rank integer DEFAULT 0 NOT NULL
);


--
-- Name: feature_relationshipprop_feature_relationshipprop_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.feature_relationshipprop_feature_relationshipprop_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: feature_relationshipprop_feature_relationshipprop_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.feature_relationshipprop_feature_relationshipprop_id_seq OWNED BY public.feature_relationshipprop.feature_relationshipprop_id;


--
-- Name: feature_relationshipprop_pub; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.feature_relationshipprop_pub (
    feature_relationshipprop_pub_id integer NOT NULL,
    feature_relationshipprop_id integer NOT NULL,
    pub_id integer NOT NULL
);


--
-- Name: feature_relationshipprop_pub_feature_relationshipprop_pub_i_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.feature_relationshipprop_pub_feature_relationshipprop_pub_i_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: feature_relationshipprop_pub_feature_relationshipprop_pub_i_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.feature_relationshipprop_pub_feature_relationshipprop_pub_i_seq OWNED BY public.feature_relationshipprop_pub.feature_relationshipprop_pub_id;


--
-- Name: feature_synonym_feature_synonym_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.feature_synonym_feature_synonym_id_seq
    START WITH 456980
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: feature_synonym; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.feature_synonym (
    feature_synonym_id integer DEFAULT nextval('public.feature_synonym_feature_synonym_id_seq'::regclass) NOT NULL,
    synonym_id integer NOT NULL,
    feature_id integer NOT NULL,
    pub_id integer NOT NULL,
    is_current boolean DEFAULT false NOT NULL,
    is_internal boolean DEFAULT false NOT NULL
);


--
-- Name: featureloc; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.featureloc (
    featureloc_id integer NOT NULL,
    feature_id integer NOT NULL,
    srcfeature_id integer,
    fmin integer,
    is_fmin_partial boolean DEFAULT false NOT NULL,
    fmax integer,
    is_fmax_partial boolean DEFAULT false NOT NULL,
    strand smallint,
    phase integer,
    residue_info text,
    locgroup integer DEFAULT 0 NOT NULL,
    rank integer DEFAULT 0 NOT NULL,
    CONSTRAINT featureloc_c2 CHECK ((fmin <= fmax))
);


--
-- Name: featureloc_featureloc_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.featureloc_featureloc_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: featureloc_featureloc_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.featureloc_featureloc_id_seq OWNED BY public.featureloc.featureloc_id;


--
-- Name: featureloc_pub; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.featureloc_pub (
    featureloc_pub_id integer NOT NULL,
    featureloc_id integer NOT NULL,
    pub_id integer NOT NULL
);


--
-- Name: featureloc_pub_featureloc_pub_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.featureloc_pub_featureloc_pub_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: featureloc_pub_featureloc_pub_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.featureloc_pub_featureloc_pub_id_seq OWNED BY public.featureloc_pub.featureloc_pub_id;


--
-- Name: featureprop; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.featureprop (
    featureprop_id integer NOT NULL,
    feature_id integer NOT NULL,
    type_id integer NOT NULL,
    value text,
    rank integer DEFAULT 0 NOT NULL
);


--
-- Name: featureprop_featureprop_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.featureprop_featureprop_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: featureprop_featureprop_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.featureprop_featureprop_id_seq OWNED BY public.featureprop.featureprop_id;


--
-- Name: featureprop_pub; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.featureprop_pub (
    featureprop_pub_id integer NOT NULL,
    featureprop_id integer NOT NULL,
    pub_id integer NOT NULL
);


--
-- Name: featureprop_pub_featureprop_pub_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.featureprop_pub_featureprop_pub_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: featureprop_pub_featureprop_pub_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.featureprop_pub_featureprop_pub_id_seq OWNED BY public.featureprop_pub.featureprop_pub_id;


--
-- Name: gene; Type: VIEW; Schema: public; Owner: -
--

CREATE VIEW public.gene AS
 SELECT feature.feature_id AS gene_id,
    feature.feature_id,
    feature.dbxref_id,
    feature.organism_id,
    feature.name,
    feature.residues,
    feature.seqlen,
    feature.md5checksum,
    feature.type_id,
    feature.is_analysis,
    feature.is_obsolete,
    feature.timeaccessioned,
    feature.timelastmodified,
    feature.uniquename
   FROM (public.feature
     JOIN public.cvterm ON ((feature.type_id = cvterm.cvterm_id)))
  WHERE ((cvterm.name)::text = 'gene'::text);


--
-- Name: genotype_run; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.genotype_run (
    genotype_run_id integer NOT NULL,
    platform_id integer,
    date_performed date,
    data_location character varying(255),
    visible boolean DEFAULT true
);


--
-- Name: genotype_run_genotype_run_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.genotype_run_genotype_run_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: genotype_run_genotype_run_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.genotype_run_genotype_run_id_seq OWNED BY public.genotype_run.genotype_run_id;


--
-- Name: genotyping_run_genotyping_run_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.genotyping_run_genotyping_run_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: gff_meta; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.gff_meta (
    name character varying(100),
    hostname character varying(100),
    starttime timestamp without time zone DEFAULT now() NOT NULL
);


--
-- Name: gff_sort_tmp; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.gff_sort_tmp (
    refseq character varying(4000),
    id character varying(4000),
    parent character varying(4000),
    gffline character varying(8000),
    row_id integer NOT NULL
);


--
-- Name: gff_sort_tmp_row_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.gff_sort_tmp_row_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: gff_sort_tmp_row_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.gff_sort_tmp_row_id_seq OWNED BY public.gff_sort_tmp.row_id;


--
-- Name: gwas_run; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.gwas_run (
    gwas_run_id integer NOT NULL,
    trait_id bigint,
    subpopulation_id bigint
);


--
-- Name: gwas_subpopulation; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.gwas_subpopulation (
    gwas_subpopulation_id integer NOT NULL,
    name character varying(255)
);


--
-- Name: gwas_trait; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.gwas_trait (
    gwas_trait_id bigint NOT NULL,
    name character varying(1024),
    definition character varying(4000),
    phenotype_id integer
);


--
-- Name: indel_feature; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.indel_feature (
    indel_feature_id integer NOT NULL
);


--
-- Name: indel_feature_indel_feature_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.indel_feature_indel_feature_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: indel_feature_indel_feature_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.indel_feature_indel_feature_id_seq OWNED BY public.indel_feature.indel_feature_id;


--
-- Name: indel_featureloc; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.indel_featureloc (
    indel_featureloc_id integer NOT NULL,
    indel_feature_id integer,
    organism_id integer,
    srcfeature_id integer,
    "position" integer,
    refcall character varying,
    altcall character varying,
    max_insert_len integer,
    max_delete_len integer
);


--
-- Name: indel_featureloc_indel_featureloc_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.indel_featureloc_indel_featureloc_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: indel_featureloc_indel_featureloc_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.indel_featureloc_indel_featureloc_id_seq OWNED BY public.indel_featureloc.indel_featureloc_id;


--
-- Name: locus_mapping; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.locus_mapping (
    locus_mapping_id bigint,
    name character varying(255),
    msu7 character varying(255),
    rap_representative character varying(255),
    rap_predicted character varying(255),
    fgenesh character varying(255)
);


--
-- Name: locus_mapping_feature; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.locus_mapping_feature (
    locus_mapping_feature_id bigint,
    locus_mapping_id bigint,
    feature_id bigint,
    db_id bigint
);


--
-- Name: materialized_view; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.materialized_view (
    materialized_view_id integer NOT NULL,
    last_update timestamp without time zone,
    refresh_time integer,
    name character varying(64),
    mv_schema character varying(64),
    mv_table character varying(128),
    mv_specs text,
    indexed text,
    query text,
    special_index text
);


--
-- Name: materialized_view_materialized_view_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.materialized_view_materialized_view_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: materialized_view_materialized_view_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.materialized_view_materialized_view_id_seq OWNED BY public.materialized_view.materialized_view_id;


--
-- Name: mv_convertpos_nb2allrefs; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.mv_convertpos_nb2allrefs (
    mv_convertpos_nb2allrefs_id integer NOT NULL,
    snp_feature_id integer NOT NULL,
    from_organism_id integer NOT NULL,
    from_contig_id integer NOT NULL,
    from_position integer,
    from_refcall character varying(1),
    nb_contig_id integer,
    nb_position integer,
    nb_refcall character varying(1),
    nb_align_count integer,
    ir64_contig_id integer,
    ir64_position integer,
    ir64_refcall character varying(1),
    ir64_align_count integer,
    rice9311_contig_id integer,
    rice9311_position integer,
    rice9311_refcall character varying(1),
    rice9311_align_count integer,
    dj123_contig_id integer,
    dj123_position integer,
    dj123_refcall character varying(1),
    dj123_align_count integer,
    kasalath_contig_id integer,
    kasalath_position integer,
    kasalath_refcall character varying(1),
    kasalath_align_count integer
);


--
-- Name: mv_convertpos_nb2allrefs_mv_convertpos_nb2allrefs_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.mv_convertpos_nb2allrefs_mv_convertpos_nb2allrefs_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: mv_convertpos_nb2allrefs_mv_convertpos_nb2allrefs_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.mv_convertpos_nb2allrefs_mv_convertpos_nb2allrefs_id_seq OWNED BY public.mv_convertpos_nb2allrefs.mv_convertpos_nb2allrefs_id;


--
-- Name: snp_featureloc; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.snp_featureloc (
    snp_featureloc_id integer NOT NULL,
    snp_feature_id integer,
    organism_id integer,
    srcfeature_id integer,
    "position" integer,
    refcall character(1)
);


--
-- Name: variant_variantset; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.variant_variantset (
    variant_variantset_id integer NOT NULL,
    variant_feature_id integer NOT NULL,
    variant_type_id integer,
    variantset_id integer NOT NULL,
    hdf5_index integer
);


--
-- Name: variantset_variantset_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.variantset_variantset_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: variantset; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.variantset (
    variantset_id integer DEFAULT nextval('public.variantset_variantset_id_seq'::regclass) NOT NULL,
    name character varying(255),
    description text,
    variant_type_id integer NOT NULL,
    organism_id integer DEFAULT 9
);


--
-- Name: mv_snp_refposindex; Type: VIEW; Schema: public; Owner: -
--

CREATE VIEW public.mv_snp_refposindex AS
 SELECT sfl.snp_feature_id,
    (srcf.feature_id - 2) AS chromosome,
    sfl."position",
    sfl.refcall,
    ''::character varying(1) AS altcall,
    vvs.hdf5_index AS allele_index,
    v.variantset_id AS type_id,
    v.name AS variantset
   FROM public.snp_featureloc sfl,
    public.feature srcf,
    public.variant_variantset vvs,
    public.variantset v
  WHERE ((sfl.snp_feature_id = vvs.variant_feature_id) AND (sfl.srcfeature_id = srcf.feature_id) AND (vvs.variantset_id = v.variantset_id));


--
-- Name: organism; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.organism (
    organism_id integer NOT NULL,
    abbreviation character varying(255),
    genus character varying(255) NOT NULL,
    species character varying(255) NOT NULL,
    common_name character varying(255),
    comment text
);


--
-- Name: organism_dbxref; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.organism_dbxref (
    organism_dbxref_id integer NOT NULL,
    organism_id integer NOT NULL,
    dbxref_id integer NOT NULL
);


--
-- Name: organism_dbxref_organism_dbxref_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.organism_dbxref_organism_dbxref_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: organism_dbxref_organism_dbxref_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.organism_dbxref_organism_dbxref_id_seq OWNED BY public.organism_dbxref.organism_dbxref_id;


--
-- Name: organism_organism_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.organism_organism_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: organism_organism_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.organism_organism_id_seq OWNED BY public.organism.organism_id;


--
-- Name: organismprop; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.organismprop (
    organismprop_id integer NOT NULL,
    organism_id integer NOT NULL,
    type_id integer NOT NULL,
    value text,
    rank integer DEFAULT 0 NOT NULL
);


--
-- Name: organismprop_organismprop_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.organismprop_organismprop_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: organismprop_organismprop_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.organismprop_organismprop_id_seq OWNED BY public.organismprop.organismprop_id;


--
-- Name: platform; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.platform (
    platform_id integer NOT NULL,
    variantset_id integer,
    db_id integer,
    genotyping_method_id integer
);


--
-- Name: platform_platform_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.platform_platform_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: platform_platform_id_seq1; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.platform_platform_id_seq1
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: platform_platform_id_seq1; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.platform_platform_id_seq1 OWNED BY public.platform.platform_id;


--
-- Name: pub; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.pub (
    pub_id integer NOT NULL,
    title text,
    volumetitle text,
    volume character varying(255),
    series_name character varying(255),
    issue character varying(255),
    pyear character varying(255),
    pages character varying(255),
    miniref character varying(255),
    uniquename text NOT NULL,
    type_id integer NOT NULL,
    is_obsolete boolean DEFAULT false,
    publisher character varying(255),
    pubplace character varying(255)
);


--
-- Name: pub_dbxref; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.pub_dbxref (
    pub_dbxref_id integer NOT NULL,
    pub_id integer NOT NULL,
    dbxref_id integer NOT NULL,
    is_current boolean DEFAULT true NOT NULL
);


--
-- Name: pub_dbxref_pub_dbxref_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.pub_dbxref_pub_dbxref_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: pub_dbxref_pub_dbxref_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.pub_dbxref_pub_dbxref_id_seq OWNED BY public.pub_dbxref.pub_dbxref_id;


--
-- Name: pub_pub_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.pub_pub_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: pub_pub_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.pub_pub_id_seq OWNED BY public.pub.pub_id;


--
-- Name: pub_relationship; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.pub_relationship (
    pub_relationship_id integer NOT NULL,
    subject_id integer NOT NULL,
    object_id integer NOT NULL,
    type_id integer NOT NULL
);


--
-- Name: pub_relationship_pub_relationship_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.pub_relationship_pub_relationship_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: pub_relationship_pub_relationship_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.pub_relationship_pub_relationship_id_seq OWNED BY public.pub_relationship.pub_relationship_id;


--
-- Name: pubauthor; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.pubauthor (
    pubauthor_id integer NOT NULL,
    pub_id integer NOT NULL,
    rank integer NOT NULL,
    editor boolean DEFAULT false,
    surname character varying(100) NOT NULL,
    givennames character varying(100),
    suffix character varying(100)
);


--
-- Name: pubauthor_pubauthor_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.pubauthor_pubauthor_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: pubauthor_pubauthor_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.pubauthor_pubauthor_id_seq OWNED BY public.pubauthor.pubauthor_id;


--
-- Name: pubprop; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.pubprop (
    pubprop_id integer NOT NULL,
    pub_id integer NOT NULL,
    type_id integer NOT NULL,
    value text NOT NULL,
    rank integer
);


--
-- Name: pubprop_pubprop_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.pubprop_pubprop_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: pubprop_pubprop_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.pubprop_pubprop_id_seq OWNED BY public.pubprop.pubprop_id;


--
-- Name: sample_run_sample_run_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.sample_run_sample_run_id_seq
    START WITH 10853
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: sample_varietyset; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.sample_varietyset (
    sample_varietyset_id integer DEFAULT nextval('public.sample_run_sample_run_id_seq'::regclass) NOT NULL,
    stock_sample_id integer,
    db_id integer,
    hdf5_index integer
);


--
-- Name: seed_order; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.seed_order (
    seed_order_id integer NOT NULL,
    requestor_name character varying(255),
    institution character varying(255),
    address1 character varying(1024),
    address2 character varying(1024),
    country character varying(255),
    requestor_email character varying(255),
    requestor_phone character varying(255),
    user_category character varying(16),
    country_category character varying(16),
    smta_acceptance character varying(16),
    authorized_name character varying(255),
    authorized_position character varying(255),
    authorized_email character varying(255),
    authorized_phone character varying(255),
    postal_code character varying(255),
    date_ordered date,
    status character varying(16),
    total_price numeric,
    verify_code character varying(16),
    order_code character varying(16)
);


--
-- Name: seed_order_seed_order_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.seed_order_seed_order_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: seed_order_seed_order_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.seed_order_seed_order_id_seq OWNED BY public.seed_order.seed_order_id;


--
-- Name: snp_feature; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.snp_feature (
    snp_feature_id integer NOT NULL,
    variantset_id integer
);


--
-- Name: snp_feature_snp_feature_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.snp_feature_snp_feature_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: snp_feature_snp_feature_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.snp_feature_snp_feature_id_seq OWNED BY public.snp_feature.snp_feature_id;


--
-- Name: snp_featureloc_snp_featureloc_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.snp_featureloc_snp_featureloc_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: snp_featureloc_snp_featureloc_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.snp_featureloc_snp_featureloc_id_seq OWNED BY public.snp_featureloc.snp_featureloc_id;


--
-- Name: snp_featureprop; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.snp_featureprop (
    snp_featureprop_id integer NOT NULL,
    snp_feature_id integer NOT NULL,
    type_id integer NOT NULL,
    value text,
    rank integer DEFAULT 0 NOT NULL
);


--
-- Name: snp_featureprop_snp_featureprop_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.snp_featureprop_snp_featureprop_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: snp_featureprop_snp_featureprop_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.snp_featureprop_snp_featureprop_id_seq OWNED BY public.snp_featureprop.snp_featureprop_id;


--
-- Name: snp_genotype; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.snp_genotype (
    snp_feature_id integer,
    stock_sample_id integer,
    genotype_run_id integer,
    allele1 bpchar,
    allele2 bpchar
);


--
-- Name: snp_genotype_snp_genotype_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.snp_genotype_snp_genotype_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: snp_genotype_wis9100Mhdra; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public."snp_genotype_wis9100Mhdra" (
    snp_feature_id integer,
    stock_sample_id integer,
    genotype_run_id integer,
    allele1 bpchar,
    allele2 bpchar
);


--
-- Name: stock; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.stock (
    stock_id integer NOT NULL,
    dbxref_id integer,
    organism_id integer,
    name character varying(255),
    uniquename text NOT NULL,
    description text,
    type_id integer NOT NULL,
    is_obsolete boolean DEFAULT false NOT NULL,
    stock_geolocation_id integer,
    tmp_oldstock_id integer
);


--
-- Name: stock_cvterm; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.stock_cvterm (
    stock_cvterm_id integer NOT NULL,
    stock_id integer NOT NULL,
    cvterm_id integer NOT NULL,
    pub_id integer NOT NULL,
    is_not boolean DEFAULT false NOT NULL,
    rank integer DEFAULT 0 NOT NULL
);


--
-- Name: stock_cvterm_stock_cvterm_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.stock_cvterm_stock_cvterm_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: stock_cvterm_stock_cvterm_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.stock_cvterm_stock_cvterm_id_seq OWNED BY public.stock_cvterm.stock_cvterm_id;


--
-- Name: stock_cvtermprop; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.stock_cvtermprop (
    stock_cvtermprop_id integer NOT NULL,
    stock_cvterm_id integer NOT NULL,
    type_id integer NOT NULL,
    value text,
    rank integer DEFAULT 0 NOT NULL
);


--
-- Name: stock_cvtermprop_stock_cvtermprop_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.stock_cvtermprop_stock_cvtermprop_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: stock_cvtermprop_stock_cvtermprop_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.stock_cvtermprop_stock_cvtermprop_id_seq OWNED BY public.stock_cvtermprop.stock_cvtermprop_id;


--
-- Name: stock_dbxref; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.stock_dbxref (
    stock_dbxref_id integer NOT NULL,
    stock_id integer NOT NULL,
    dbxref_id integer NOT NULL,
    is_current boolean DEFAULT true NOT NULL
);


--
-- Name: stock_dbxref_stock_dbxref_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.stock_dbxref_stock_dbxref_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: stock_dbxref_stock_dbxref_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.stock_dbxref_stock_dbxref_id_seq OWNED BY public.stock_dbxref.stock_dbxref_id;


--
-- Name: stock_dbxrefprop; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.stock_dbxrefprop (
    stock_dbxrefprop_id integer NOT NULL,
    stock_dbxref_id integer NOT NULL,
    type_id integer NOT NULL,
    value text,
    rank integer DEFAULT 0 NOT NULL
);


--
-- Name: stock_dbxrefprop_stock_dbxrefprop_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.stock_dbxrefprop_stock_dbxrefprop_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: stock_dbxrefprop_stock_dbxrefprop_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.stock_dbxrefprop_stock_dbxrefprop_id_seq OWNED BY public.stock_dbxrefprop.stock_dbxrefprop_id;


--
-- Name: stock_genotype; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.stock_genotype (
    stock_genotype_id integer NOT NULL,
    stock_id integer NOT NULL,
    genotype_id integer NOT NULL
);


--
-- Name: stock_genotype_stock_genotype_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.stock_genotype_stock_genotype_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: stock_genotype_stock_genotype_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.stock_genotype_stock_genotype_id_seq OWNED BY public.stock_genotype.stock_genotype_id;


--
-- Name: stock_phenotype; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.stock_phenotype (
    stock_phenotype_id integer NOT NULL,
    stock_id integer,
    dbxref_id integer,
    type_id integer,
    quan_value numeric,
    qual_value character varying(255),
    stock_type_id integer
);


--
-- Name: stock_phenotype2; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.stock_phenotype2 (
    stock_phenotype2_id bigint NOT NULL,
    stock_id integer,
    type_id integer,
    quan_value numeric,
    qual_value character varying(255)
);


--
-- Name: stock_phenotype_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.stock_phenotype_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: stock_phenotype_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.stock_phenotype_id_seq OWNED BY public.stock_phenotype.stock_phenotype_id;


--
-- Name: stock_phenotype_stock_phenotype_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.stock_phenotype_stock_phenotype_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: stock_phenotype_stock_phenotype_id_seq1; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.stock_phenotype_stock_phenotype_id_seq1
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: stock_phenotype_stock_phenotype_id_seq1; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.stock_phenotype_stock_phenotype_id_seq1 OWNED BY public.stock_phenotype.stock_phenotype_id;


--
-- Name: stock_pub; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.stock_pub (
    stock_pub_id integer NOT NULL,
    stock_id integer NOT NULL,
    pub_id integer NOT NULL
);


--
-- Name: stock_pub_stock_pub_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.stock_pub_stock_pub_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: stock_pub_stock_pub_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.stock_pub_stock_pub_id_seq OWNED BY public.stock_pub.stock_pub_id;


--
-- Name: stock_relationship; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.stock_relationship (
    stock_relationship_id integer NOT NULL,
    subject_id integer NOT NULL,
    object_id integer NOT NULL,
    type_id integer NOT NULL,
    value text,
    rank integer DEFAULT 0 NOT NULL
);


--
-- Name: stock_relationship_cvterm; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.stock_relationship_cvterm (
    stock_relationship_cvterm_id integer NOT NULL,
    stock_relationship_id integer NOT NULL,
    cvterm_id integer NOT NULL,
    pub_id integer
);


--
-- Name: stock_relationship_cvterm_stock_relationship_cvterm_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.stock_relationship_cvterm_stock_relationship_cvterm_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: stock_relationship_cvterm_stock_relationship_cvterm_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.stock_relationship_cvterm_stock_relationship_cvterm_id_seq OWNED BY public.stock_relationship_cvterm.stock_relationship_cvterm_id;


--
-- Name: stock_relationship_pub; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.stock_relationship_pub (
    stock_relationship_pub_id integer NOT NULL,
    stock_relationship_id integer NOT NULL,
    pub_id integer NOT NULL
);


--
-- Name: stock_relationship_pub_stock_relationship_pub_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.stock_relationship_pub_stock_relationship_pub_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: stock_relationship_pub_stock_relationship_pub_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.stock_relationship_pub_stock_relationship_pub_id_seq OWNED BY public.stock_relationship_pub.stock_relationship_pub_id;


--
-- Name: stock_relationship_stock_relationship_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.stock_relationship_stock_relationship_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: stock_relationship_stock_relationship_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.stock_relationship_stock_relationship_id_seq OWNED BY public.stock_relationship.stock_relationship_id;


--
-- Name: stock_sample; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.stock_sample (
    stock_sample_id integer NOT NULL,
    stock_id integer,
    dbxref_id integer,
    hdf5_index integer,
    tmp_oldstock_id integer
);


--
-- Name: stock_sample_stock_sample_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.stock_sample_stock_sample_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: stock_sample_stock_sample_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.stock_sample_stock_sample_id_seq OWNED BY public.stock_sample.stock_sample_id;


--
-- Name: stock_stock_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.stock_stock_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: stock_stock_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.stock_stock_id_seq OWNED BY public.stock.stock_id;


--
-- Name: stockcollection; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.stockcollection (
    stockcollection_id integer NOT NULL,
    type_id integer NOT NULL,
    contact_id integer,
    name character varying(255),
    uniquename text NOT NULL
);


--
-- Name: stockcollection_stock; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.stockcollection_stock (
    stockcollection_stock_id integer NOT NULL,
    stockcollection_id integer NOT NULL,
    stock_id integer NOT NULL
);


--
-- Name: stockcollection_stock_stockcollection_stock_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.stockcollection_stock_stockcollection_stock_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: stockcollection_stock_stockcollection_stock_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.stockcollection_stock_stockcollection_stock_id_seq OWNED BY public.stockcollection_stock.stockcollection_stock_id;


--
-- Name: stockcollection_stockcollection_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.stockcollection_stockcollection_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: stockcollection_stockcollection_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.stockcollection_stockcollection_id_seq OWNED BY public.stockcollection.stockcollection_id;


--
-- Name: stockcollectionprop; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.stockcollectionprop (
    stockcollectionprop_id integer NOT NULL,
    stockcollection_id integer NOT NULL,
    type_id integer NOT NULL,
    value text,
    rank integer DEFAULT 0 NOT NULL
);


--
-- Name: stockcollectionprop_stockcollectionprop_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.stockcollectionprop_stockcollectionprop_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: stockcollectionprop_stockcollectionprop_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.stockcollectionprop_stockcollectionprop_id_seq OWNED BY public.stockcollectionprop.stockcollectionprop_id;


--
-- Name: stockprop; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.stockprop (
    stockprop_id integer NOT NULL,
    stock_id integer NOT NULL,
    type_id integer NOT NULL,
    value text,
    rank integer DEFAULT 0 NOT NULL
);


--
-- Name: stockprop_pub; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.stockprop_pub (
    stockprop_pub_id integer NOT NULL,
    stockprop_id integer NOT NULL,
    pub_id integer NOT NULL
);


--
-- Name: stockprop_pub_stockprop_pub_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.stockprop_pub_stockprop_pub_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: stockprop_pub_stockprop_pub_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.stockprop_pub_stockprop_pub_id_seq OWNED BY public.stockprop_pub.stockprop_pub_id;


--
-- Name: stockprop_stockprop_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.stockprop_stockprop_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: stockprop_stockprop_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.stockprop_stockprop_id_seq OWNED BY public.stockprop.stockprop_id;


--
-- Name: subscription_types; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.subscription_types (
    subscription_type_id integer NOT NULL,
    type_name character varying(50) NOT NULL,
    price numeric(10,2) NOT NULL,
    duration_months integer NOT NULL,
    features text,
    created_at timestamp without time zone DEFAULT CURRENT_TIMESTAMP
);


--
-- Name: subscription_types_subscription_type_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.subscription_types_subscription_type_id_seq
    AS integer
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: subscription_types_subscription_type_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.subscription_types_subscription_type_id_seq OWNED BY public.subscription_types.subscription_type_id;


--
-- Name: synonym_synonym_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.synonym_synonym_id_seq
    START WITH 211782
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: synonym; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.synonym (
    synonym_id integer DEFAULT nextval('public.synonym_synonym_id_seq'::regclass) NOT NULL,
    name character varying(255) NOT NULL,
    type_id integer NOT NULL,
    synonym_sgml character varying(255) NOT NULL
);


--
-- Name: tmp_cds_handler; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.tmp_cds_handler (
    cds_row_id integer NOT NULL,
    seq_id character varying(1024),
    gff_id character varying(1024),
    type character varying(1024) NOT NULL,
    fmin integer NOT NULL,
    fmax integer NOT NULL,
    object text NOT NULL
);


--
-- Name: tmp_cds_handler_cds_row_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.tmp_cds_handler_cds_row_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: tmp_cds_handler_cds_row_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.tmp_cds_handler_cds_row_id_seq OWNED BY public.tmp_cds_handler.cds_row_id;


--
-- Name: tmp_cds_handler_relationship; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.tmp_cds_handler_relationship (
    rel_row_id integer NOT NULL,
    cds_row_id integer,
    parent_id character varying(1024),
    grandparent_id character varying(1024)
);


--
-- Name: tmp_cds_handler_relationship_rel_row_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.tmp_cds_handler_relationship_rel_row_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: tmp_cds_handler_relationship_rel_row_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.tmp_cds_handler_relationship_rel_row_id_seq OWNED BY public.tmp_cds_handler_relationship.rel_row_id;


--
-- Name: tmp_gff_load_cache; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.tmp_gff_load_cache (
    feature_id integer,
    uniquename character varying(1000),
    type_id integer,
    organism_id integer
);


--
-- Name: tmp_intxn_evidence; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.tmp_intxn_evidence (
    intxn_evidence_id smallint,
    definition character varying(254),
    count bigint,
    max double precision,
    min double precision,
    max_denserank bigint
);


--
-- Name: tmp_intxn_score; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.tmp_intxn_score (
    intxn_score_id bigint,
    gene1_id bigint,
    gene2_id bigint,
    intxn_evidence_id bigint,
    score double precision,
    rank bigint,
    denserank bigint
);


--
-- Name: tmp_locusmapping_fgenesh; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.tmp_locusmapping_fgenesh (
    iric_name character varying(255),
    fgenesh character varying(255)
);


--
-- Name: tmp_locusmapping_msu7; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.tmp_locusmapping_msu7 (
    iric_name character varying(255),
    msu7 character varying(255)
);


--
-- Name: tmp_locusmapping_rap; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.tmp_locusmapping_rap (
    iric_name character varying(255),
    rap character varying(255)
);


--
-- Name: tmp_promoter_1; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.tmp_promoter_1 (
    promoter_id bigint,
    name character varying(250),
    chrstr character varying(50),
    db bigint,
    type_id bigint,
    startpos numeric,
    endpos numeric,
    strand bigint,
    gene character varying(250),
    idstr character varying(250),
    note text,
    parent_id bigint,
    gene_overlaps character varying(1000),
    gene_id bigint
);


--
-- Name: tmp_qtl; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.tmp_qtl (
    name character varying(50),
    chromosome bigint,
    startpos bigint,
    endpos bigint,
    trait_name character varying(254),
    notes character varying(1024),
    db bigint,
    qtl_id bigint
);


--
-- Name: tmp_snpeff_raw_msu7; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.tmp_snpeff_raw_msu7 (
    chrom integer,
    pos bigint,
    ref character varying(5),
    alt character varying(5),
    info character varying(2054),
    format character varying(254),
    sample_dummy character varying(254),
    id numeric NOT NULL
);


--
-- Name: user_subscriptions; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.user_subscriptions (
    user_subscription_id integer NOT NULL,
    user_id integer NOT NULL,
    subscription_type_id integer NOT NULL,
    start_date date NOT NULL,
    end_date date NOT NULL,
    subscription_status character varying(20) NOT NULL,
    created_at timestamp without time zone DEFAULT CURRENT_TIMESTAMP,
    updated_at timestamp without time zone DEFAULT CURRENT_TIMESTAMP,
    CONSTRAINT user_subscriptions_subscription_status_check CHECK (((subscription_status)::text = ANY (ARRAY[('Active'::character varying)::text, ('Expired'::character varying)::text, ('Cancelled'::character varying)::text])))
);


--
-- Name: user_subscriptions_user_subscription_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.user_subscriptions_user_subscription_id_seq
    AS integer
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: user_subscriptions_user_subscription_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.user_subscriptions_user_subscription_id_seq OWNED BY public.user_subscriptions.user_subscription_id;


--
-- Name: users; Type: TABLE; Schema: public; Owner: -
--

CREATE TABLE public.users (
    user_id integer NOT NULL,
    name character varying(100) NOT NULL,
    email character varying(100) NOT NULL,
    password_hash character varying(255) NOT NULL,
    created_at timestamp without time zone DEFAULT CURRENT_TIMESTAMP,
    updated_at timestamp without time zone DEFAULT CURRENT_TIMESTAMP
);


--
-- Name: users_user_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.users_user_id_seq
    AS integer
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: users_user_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.users_user_id_seq OWNED BY public.users.user_id;


--
-- Name: v_allsample_basicprop; Type: VIEW; Schema: public; Owner: -
--

CREATE VIEW public.v_allsample_basicprop AS
 SELECT svs.sample_varietyset_id,
    ss.stock_sample_id,
    dx.accession AS assay,
    db.name AS dataset,
    svs.hdf5_index,
    subq.stock_id,
    subq.name,
    subq.ori_country,
    subq.subpopulation,
    subq.box_code,
    subq.gs_accession
   FROM ( SELECT final_result.stock_id,
            final_result.name,
            final_result.iris_unique_id,
            final_result.country_origin AS ori_country,
            final_result.subpopulation_v2 AS subpopulation,
            final_result.box_code,
            final_result.gs_accno AS gs_accession
           FROM public.crosstab('select irs.stock_id, ct.name cvterm, isp.value from stockprop isp, stock irs, cvterm ct  where irs.STOCK_ID=isp.STOCK_ID  and isp.type_id = ct.cvterm_id  and ct.name in (''country_origin'',''iris_unique_id'',''box_code'',''subpopulation_v2'',''accession number'' ) union select stock_id, ''name'' as  cvterm, name as value from stock order by 1,2'::text, 'select t.column_value from (select unnest(ARRAY[''name'', ''iris_unique_id'',''country_origin'',''subpopulation_v2'' , ''box_code'' , ''accession number'' ])column_value) t'::text) final_result(stock_id integer, name character varying(255), iris_unique_id character varying(4000), country_origin character varying(4000), subpopulation_v2 character varying(4000), box_code character varying(4000), gs_accno character varying(4000))) subq,
    public.db,
    public.dbxref dx,
    public.sample_varietyset svs,
    public.stock_sample ss
  WHERE ((db.db_id = svs.db_id) AND (svs.stock_sample_id = ss.stock_sample_id) AND (dx.dbxref_id = ss.dbxref_id) AND (ss.stock_id = subq.stock_id))
  ORDER BY db.name, svs.hdf5_index;


--
-- Name: v_allstock_basicprop; Type: VIEW; Schema: public; Owner: -
--

CREATE VIEW public.v_allstock_basicprop AS
 SELECT svs.sample_varietyset_id,
    ss.stock_sample_id,
    subq.stock_id,
    subq.name,
    dx.accession AS assay,
    subq.ori_country,
    subq.subpopulation,
    subq.box_code,
    subq.gs_accession,
    db.name AS dataset,
    ss.hdf5_index
   FROM ( SELECT final_result.stock_id,
            final_result.name,
            final_result.iris_unique_id,
            final_result.country_origin AS ori_country,
            final_result.subpopulation_v2 AS subpopulation,
            final_result.box_code,
            final_result.gs_accno AS gs_accession
           FROM public.crosstab('select irs.stock_id, ct.name cvterm, isp.value from stockprop isp, stock irs, cvterm ct  where irs.STOCK_ID=isp.STOCK_ID  and isp.type_id = ct.cvterm_id  and ct.name in (''country_origin'',''iris_unique_id'',''box_code'',''subpopulation_v2'',''accession number'' ) union select stock_id, ''name'' as  cvterm, name as value from stock order by 1,2'::text, 'select t.column_value from (select unnest(ARRAY[''name'', ''iris_unique_id'',''country_origin'',''subpopulation_v2'' , ''box_code'' , ''accession number'' ])column_value) t'::text) final_result(stock_id integer, name character varying(255), iris_unique_id character varying(4000), country_origin character varying(4000), subpopulation_v2 character varying(4000), box_code character varying(4000), gs_accno character varying(4000))) subq,
    public.db,
    public.sample_varietyset svs,
    public.dbxref dx,
    public.stock_sample ss
  WHERE ((db.db_id = svs.db_id) AND (svs.stock_sample_id = ss.stock_sample_id) AND (dx.dbxref_id = ss.dbxref_id) AND (ss.stock_id = subq.stock_id))
  ORDER BY db.name, svs.hdf5_index;


--
-- Name: v_co_variable_tms; Type: VIEW; Schema: public; Owner: -
--

CREATE VIEW public.v_co_variable_tms AS
 SELECT (split_part(subject_name, '::'::text, 1))::integer AS variable_id,
    subject_name AS variable_name,
    (split_part(ricetrait, '::'::text, 1))::integer AS trait_id,
    ricetrait AS trait,
    (split_part(ricemethod, '::'::text, 1))::integer AS method_id,
    ricemethod AS method,
    (split_part(ricescale, '::'::text, 1))::integer AS scale_id,
    ricescale AS scale
   FROM public.crosstab('select cts.cvterm_id || ''::''|| cts.name subject_name, split_part(cto.name,''::'',3) object_ns, cto.cvterm_id||''::''||cto.name as object_name from cvterm_relationship ctr, cvterm cts, cvterm cto, cvterm ctrel, cv cvrice 
where ctr.subject_id=cts.cvterm_id
and ctr.type_id=ctrel.cvterm_id
and ctr.object_id=cto.cvterm_id
and (cts.cv_id=cvrice.cv_id or cto.cv_id=cvrice.cv_id)
and cvrice.name=''Rice_ontology_allns''
and ctrel.name=''VARIABLE_OF'' order by 1,2'::text, 'select t.column_value from (select unnest(ARRAY[''RiceTrait'', ''RiceMethod'', ''RiceScale''])column_value) t'::text) final_result(subject_name text, ricetrait text, ricemethod text, ricescale text);


--
-- Name: v_cv_passport_allstocks; Type: VIEW; Schema: public; Owner: -
--

CREATE VIEW public.v_cv_passport_allstocks AS
 SELECT DISTINCT ct.cvterm_id,
    ct.name,
    ct.definition,
    db.name AS dataset
   FROM public.db,
    public.sample_varietyset dx,
    public.stock_sample ss,
    public.stockprop sp,
    public.cvterm ct,
    public.cv
  WHERE ((db.db_id = dx.db_id) AND (dx.stock_sample_id = ss.stock_sample_id) AND (ss.stock_id = sp.stock_id) AND (sp.type_id = ct.cvterm_id) AND (cv.cv_id = ct.cv_id) AND ((cv.name)::text = ANY (ARRAY['grims_stock_property'::text, 'rice_diversity_property'::text, 'multicrop_passport_ontology'::text])) AND (ct.is_obsolete = 0))
  ORDER BY ct.definition;


--
-- Name: v_cv_phenotype_vtms_allstocks; Type: VIEW; Schema: public; Owner: -
--

CREATE VIEW public.v_cv_phenotype_vtms_allstocks AS
 SELECT DISTINCT ct.cvterm_id,
    ct.name,
    ct.definition,
    db.name AS dataset,
    tms.trait,
    tms.method,
    tms.scale
   FROM public.db,
    public.sample_varietyset dx,
    public.stock_sample ss,
    public.stock_phenotype2 sp,
    (public.cvterm ct
     LEFT JOIN public.v_co_variable_tms tms ON ((tms.variable_id = ct.cvterm_id)))
  WHERE ((db.db_id = dx.db_id) AND (dx.stock_sample_id = ss.stock_sample_id) AND (ss.stock_id = sp.stock_id) AND (sp.type_id = ct.cvterm_id) AND (ct.is_obsolete = 0))
  ORDER BY ct.definition;


--
-- Name: v_cv_phenotype_allstocks; Type: VIEW; Schema: public; Owner: -
--

CREATE VIEW public.v_cv_phenotype_allstocks AS
 SELECT DISTINCT ct.cvterm_id,
        CASE
            WHEN ((vall.trait = ''::text) OR (vall.trait IS NULL)) THEN (vall.name)::text
            ELSE ((((split_part(vall.trait, '::'::text, 2) || '::'::text) || split_part(vall.trait, '::'::text, 3)) || '::'::text) || split_part(vall.trait, '::'::text, 4))
        END AS name,
    ct.definition,
    db.name AS dataset
   FROM public.db,
    public.sample_varietyset dx,
    public.stock_sample ss,
    public.stock_phenotype2 sp,
    (public.cvterm ct
     LEFT JOIN public.v_cv_phenotype_vtms_allstocks vall ON ((ct.cvterm_id = vall.cvterm_id)))
  WHERE ((db.db_id = dx.db_id) AND (dx.stock_sample_id = ss.stock_sample_id) AND (ss.stock_id = sp.stock_id) AND (sp.type_id = ct.cvterm_id) AND (ct.is_obsolete = 0))
  ORDER BY ct.definition;


--
-- Name: v_gene; Type: VIEW; Schema: public; Owner: -
--

CREATE VIEW public.v_gene AS
 SELECT g.gene_id,
    upper((g.name)::text) AS name,
    fsrc.uniquename AS chr,
    (fl.fmin + 1) AS fmin,
    fl.fmax,
    fl.strand,
    fl.phase,
    g.organism_id
   FROM public.gene g,
    public.featureloc fl,
    public.feature fsrc
  WHERE ((g.gene_id = fl.feature_id) AND (fl.srcfeature_id = fsrc.feature_id) AND (fsrc.organism_id = g.organism_id))
  ORDER BY (upper((g.name)::text));


--
-- Name: v_genotype_run; Type: VIEW; Schema: public; Owner: -
--

CREATE VIEW public.v_genotype_run AS
 SELECT r.genotype_run_id,
    r.date_performed,
    r.data_location,
    p.platform_id,
    v.variantset_id,
    v.name AS variantset,
    v.description AS vs_description,
    v.variant_type_id,
    db.db_id AS dataset_id,
    db.name AS dataset,
    db.description AS ds_description,
    ct.name AS method,
    cttype.name AS variant_type,
    r.visible,
    o.common_name
   FROM public.genotype_run r,
    public.variantset v,
    public.db,
    public.cvterm cttype,
    public.organism o,
    (public.platform p
     LEFT JOIN public.cvterm ct ON ((p.genotyping_method_id = ct.cvterm_id)))
  WHERE ((r.visible = true) AND (p.platform_id = r.platform_id) AND (p.db_id = db.db_id) AND (p.variantset_id = v.variantset_id) AND (cttype.cvterm_id = v.variant_type_id) AND (o.organism_id = v.organism_id));


--
-- Name: v_gwas_run; Type: VIEW; Schema: public; Owner: -
--

CREATE VIEW public.v_gwas_run AS
 SELECT gr.gwas_run_id,
    gr.trait_id,
    gt.name AS trait,
    gt.definition,
    s.gwas_subpopulation_id AS subpopulation_id,
    s.name AS subpopulation,
    ct.cvterm_id AS coterm_id,
    ct.name AS coterm,
    ct.definition AS codefinition,
    'default'::text AS method,
    NULL::date AS rundate,
    NULL::text AS qqplot
   FROM public.gwas_run gr,
    public.gwas_subpopulation s,
    (public.gwas_trait gt
     LEFT JOIN public.cvterm ct ON ((ct.cvterm_id = gt.phenotype_id)))
  WHERE ((gr.trait_id = gt.gwas_trait_id) AND (gr.subpopulation_id = s.gwas_subpopulation_id));


--
-- Name: v_indel_refposindex; Type: VIEW; Schema: public; Owner: -
--

CREATE VIEW public.v_indel_refposindex AS
 SELECT ifl.indel_feature_id,
    (ifl.srcfeature_id - 2) AS chromosome,
    (ifl."position" + 1) AS "position",
    ifl.refcall,
    9 AS organism_id,
    vvs.hdf5_index AS allele_index,
    vs.variantset_id AS type_id,
    vs.name AS variantset,
    NULL::text AS altcall,
    ifl.max_insert_len,
    ifl.max_delete_len
   FROM public.indel_feature if,
    public.indel_featureloc ifl,
    public.variant_variantset vvs,
    public.variantset vs
  WHERE ((ifl.indel_feature_id = if.indel_feature_id) AND (if.indel_feature_id = vvs.variant_feature_id) AND (vs.variantset_id = vvs.variantset_id) AND (vs.variant_type_id IN ( SELECT cvterm.cvterm_id
           FROM public.cvterm
          WHERE ((cvterm.name)::text = 'indel'::text))));


--
-- Name: v_locus_cvterm_cvtermpath; Type: VIEW; Schema: public; Owner: -
--

CREATE VIEW public.v_locus_cvterm_cvtermpath AS
 SELECT DISTINCT feature_id,
    name,
    fmin,
    fmax,
    strand,
    contig_id,
    contig_name,
    notes,
    cv_id,
    cv_name,
    db,
    cvterm_id,
    subj_acc,
    subj_cvterm,
    obj_acc,
    obj_cvterm,
    pathdistance,
    organism_id,
    common_name
   FROM ( SELECT f.feature_id,
            f.name,
            fl.fmin,
            fl.fmax,
            fl.strand,
            fsrc.feature_id AS contig_id,
            fsrc.uniquename AS contig_name,
            "substring"(f3.value, 1000) AS notes,
            c.cv_id,
            c.name AS cv_name,
            d.name AS db,
            cv.cvterm_id,
            db.accession AS subj_acc,
            cv.name AS subj_cvterm,
            db.accession AS obj_acc,
            cv.name AS obj_cvterm,
            0 AS pathdistance,
            f.organism_id,
            o.common_name
           FROM public.featureloc fl,
            public.feature_cvterm fc,
            public.cvterm cv,
            public.feature fsrc,
            public.organism o,
            public.dbxref db,
            public.db d,
            public.cv c,
            (public.feature f
             LEFT JOIN ( SELECT f2.feature_id,
                    fp.value
                   FROM public.featureprop fp,
                    public.feature f2
                  WHERE ((fp.feature_id = f2.feature_id) AND (fp.type_id IN ( SELECT cvterm.cvterm_id
                           FROM public.cvterm
                          WHERE ((cvterm.name)::text = 'Note'::text))))) f3 ON ((f.feature_id = f3.feature_id)))
          WHERE ((fc.feature_id = f.feature_id) AND (fc.cvterm_id = cv.cvterm_id) AND (fsrc.feature_id = fl.srcfeature_id) AND (fl.feature_id = f.feature_id) AND (f.organism_id = o.organism_id) AND (d.db_id = db.db_id) AND (c.cv_id = cv.cv_id) AND ((c.name)::text = ANY (ARRAY[('molecular_function'::character varying)::text, ('biological_process'::character varying)::text, ('cellular_component'::character varying)::text, ('plant_anatomy'::character varying)::text, ('plant_trait_ontology'::character varying)::text, ('quality'::character varying)::text, ('rice_trait'::character varying)::text, ('qtaro_gene_traits'::character varying)::text, ('plant_structure_development_stage'::character varying)::text])) AND (cv.dbxref_id = db.dbxref_id) AND (f.type_id IN ( SELECT cvterm.cvterm_id
                   FROM public.cvterm
                  WHERE ((cvterm.name)::text = 'gene'::text))))
        UNION
         SELECT f.feature_id,
            f.name,
            fl.fmin,
            fl.fmax,
            fl.strand,
            fsrc.feature_id AS contig_id,
            fsrc.uniquename AS contig_name,
            "substring"(f3.value, 1000) AS notes,
            c.cv_id,
            c.name AS cv_name,
            d.name AS db,
            cv_subj.cvterm_id,
            db_subj.accession AS subj_acc,
            cv_subj.name AS subj_cvterm,
            db_obj.accession AS obj_acc,
            cv_obj.name AS obj_cvterm,
            cvtp.pathdistance,
            f.organism_id,
            o.common_name
           FROM public.featureloc fl,
            public.feature_cvterm fc,
            public.cvterm cv_subj,
            public.feature fsrc,
            public.organism o,
            public.dbxref db_subj,
            public.cv c,
            public.db d,
            public.cvterm cv_obj,
            public.dbxref db_obj,
            public.cvtermpath cvtp,
            (public.feature f
             LEFT JOIN ( SELECT f2.feature_id,
                    fp.value
                   FROM public.featureprop fp,
                    public.feature f2
                  WHERE ((fp.feature_id = f2.feature_id) AND (fp.type_id IN ( SELECT cvterm.cvterm_id
                           FROM public.cvterm
                          WHERE ((cvterm.name)::text = 'Note'::text))))) f3 ON ((f.feature_id = f3.feature_id)))
          WHERE ((fc.feature_id = f.feature_id) AND (fsrc.feature_id = fl.srcfeature_id) AND (fl.feature_id = f.feature_id) AND (f.organism_id = o.organism_id) AND (fc.cvterm_id = cv_subj.cvterm_id) AND (c.cv_id = cv_subj.cv_id) AND ((c.name)::text = ANY (ARRAY[('molecular_function'::character varying)::text, ('biological_process'::character varying)::text, ('cellular_component'::character varying)::text, ('plant_anatomy'::character varying)::text, ('plant_trait_ontology'::character varying)::text, ('quality'::character varying)::text, ('rice_trait'::character varying)::text, ('qtaro_gene_traits'::character varying)::text, ('plant_structure_development_stage'::character varying)::text])) AND (cv_subj.dbxref_id = db_subj.dbxref_id) AND (cv_subj.cvterm_id = cvtp.subject_id) AND (cv_obj.cvterm_id = cvtp.object_id) AND (cvtp.pathdistance > '-1'::integer) AND (cv_obj.dbxref_id = db_obj.dbxref_id) AND (f.type_id IN ( SELECT cvterm.cvterm_id
                   FROM public.cvterm
                  WHERE ((cvterm.name)::text = 'gene'::text))) AND (d.db_id = db_obj.db_id))) x;


--
-- Name: v_locus_intxn_ricenetv2; Type: VIEW; Schema: public; Owner: -
--

CREATE VIEW public.v_locus_intxn_ricenetv2 AS
 SELECT DISTINCT o.common_name,
    fsrc.feature_id AS contig_id,
    fsrc.uniquename AS contig_name,
    f.name,
    f.feature_id,
    fl.fmin,
    fl.fmax,
    fl.strand,
    o.organism_id,
    "substring"(fp.value, 1000) AS notes,
    fq.feature_id AS qfeature_id,
    fq.name AS qfeature_name,
    fint.score,
    fint.rank,
    fint.denserank,
    ev.max AS maxscore,
    ev.count AS maxrank
   FROM public.feature fq,
    public.tmp_intxn_score fint,
    public.tmp_intxn_evidence ev,
    public.organism o,
    public.feature fsrc,
    public.featureloc fl,
    (public.feature f
     LEFT JOIN public.featureprop fp ON (((f.feature_id = fp.feature_id) AND (fp.type_id IN ( SELECT cvterm.cvterm_id
           FROM public.cvterm
          WHERE ((cvterm.name)::text = 'Note'::text))))))
  WHERE ((((fint.gene1_id = fq.feature_id) AND (fint.gene2_id = f.feature_id)) OR ((fint.gene2_id = fq.feature_id) AND (fint.gene1_id = f.feature_id))) AND (fint.intxn_evidence_id = 1) AND (f.feature_id = fl.feature_id) AND (f.organism_id = o.organism_id) AND (fl.srcfeature_id = fsrc.feature_id) AND (ev.intxn_evidence_id = fint.intxn_evidence_id));


--
-- Name: v_locus_promoter; Type: VIEW; Schema: public; Owner: -
--

CREATE VIEW public.v_locus_promoter AS
 SELECT DISTINCT o.common_name,
    fsrc.feature_id AS contig_id,
    fsrc.uniquename AS contig_name,
    f.name,
    f.feature_id,
    fl.fmin,
    fl.fmax,
    fl.strand,
    o.organism_id,
    "substring"(pf.note, 1000) AS notes,
    pf.startpos AS pfeature_start,
    pf.endpos AS pfeature_end,
    pf.chrstr AS pfeature_chr,
    pf.promoter_id AS pfeature_id,
    pf.name AS pfeature_name,
    pf.db AS pfeature_db,
    ct.name AS pfeature_type,
    pf.gene_overlaps
   FROM public.feature f,
    public.feature fsrc,
    public.featureloc fl,
    public.tmp_promoter_1 pf,
    public.organism o,
    public.cvterm ct
  WHERE ((pf.gene_id = f.feature_id) AND (pf.type_id = ct.cvterm_id) AND (f.feature_id = fl.feature_id) AND (f.organism_id = o.organism_id) AND (fl.srcfeature_id = fsrc.feature_id));


--
-- Name: v_organism; Type: VIEW; Schema: public; Owner: -
--

CREATE VIEW public.v_organism AS
 SELECT organism_id,
    abbreviation,
    genus,
    species,
    common_name,
    comment
   FROM public.organism
  WHERE ((common_name)::text = ANY (ARRAY[('Japonica nipponbare'::character varying)::text, ('MH63'::character varying)::text]))
  ORDER BY organism_id;


--
-- Name: v_qtl; Type: VIEW; Schema: public; Owner: -
--

CREATE VIEW public.v_qtl AS
 SELECT qtl_id,
    name,
    chromosome,
    startpos,
    endpos,
    trait_name,
    notes,
    db AS db_id
   FROM public.tmp_qtl
  WHERE ((db = 1) OR ((db = 2) AND ((endpos - startpos) <= 100000)));


--
-- Name: v_scaffolds_organism; Type: VIEW; Schema: public; Owner: -
--

CREATE VIEW public.v_scaffolds_organism AS
 SELECT f.feature_id,
    f.name,
    f.uniquename,
    f.seqlen,
    f.organism_id,
    o.common_name,
    f.type_id,
    cv.name AS type
   FROM public.feature f,
    public.organism o,
    public.cvterm cv
  WHERE ((f.organism_id = o.organism_id) AND (f.type_id = cv.cvterm_id) AND ((cv.name)::text = ANY (ARRAY[('chromosome'::character varying)::text, ('contig'::character varying)::text, ('scaffold'::character varying)::text])));


--
-- Name: v_snp_refposindex_v2; Type: VIEW; Schema: public; Owner: -
--

CREATE VIEW public.v_snp_refposindex_v2 AS
 SELECT sfl.snp_feature_id,
    (srcf.feature_id - 2) AS chromosome,
    (sfl."position" + 1) AS "position",
    sfl.refcall,
    ''::character varying(1) AS altcall,
    vvs.hdf5_index AS allele_index,
    v.variantset_id AS type_id,
    v.name AS variantset
   FROM public.snp_featureloc sfl,
    public.feature srcf,
    public.variant_variantset vvs,
    public.variantset v
  WHERE ((sfl.snp_feature_id = vvs.variant_feature_id) AND (sfl.srcfeature_id = srcf.feature_id) AND (vvs.variantset_id = v.variantset_id));


--
-- Name: v_snp_spliceacceptor_v2; Type: VIEW; Schema: public; Owner: -
--

CREATE VIEW public.v_snp_spliceacceptor_v2 AS
 SELECT sfl.snp_feature_id,
    sfl.srcfeature_id,
    (sfl."position" + 1) AS "position",
    f.name AS chr,
    f.organism_id,
    v.name AS variantset
   FROM public.snp_featureloc sfl,
    public.feature f,
    public.snp_feature sf,
    public.variantset v,
    public.variant_variantset vs,
    public.snp_featureprop sfp
  WHERE ((sf.snp_feature_id = sfl.snp_feature_id) AND (sf.snp_feature_id = sfp.snp_feature_id) AND (f.feature_id = sfl.srcfeature_id) AND (sfp.type_id IN ( SELECT cvterm.cvterm_id
           FROM public.cvterm
          WHERE ((cvterm.name)::text = 'splice_acceptor_variant'::text))) AND (sf.snp_feature_id = vs.variant_feature_id) AND (vs.variantset_id = v.variantset_id) AND (v.variant_type_id IN ( SELECT cvterm.cvterm_id
           FROM public.cvterm
          WHERE ((cvterm.name)::text = 'SNP'::text))));


--
-- Name: v_snp_splicedonor_v2; Type: VIEW; Schema: public; Owner: -
--

CREATE VIEW public.v_snp_splicedonor_v2 AS
 SELECT sfl.snp_feature_id,
    sfl.srcfeature_id,
    (sfl."position" + 1) AS "position",
    f.name AS chr,
    f.organism_id,
    v.name AS variantset
   FROM public.snp_featureloc sfl,
    public.feature f,
    public.snp_feature sf,
    public.variantset v,
    public.variant_variantset vs,
    public.snp_featureprop sfp
  WHERE ((sf.snp_feature_id = sfl.snp_feature_id) AND (sf.snp_feature_id = sfp.snp_feature_id) AND (f.feature_id = sfl.srcfeature_id) AND (sfp.type_id IN ( SELECT cvterm.cvterm_id
           FROM public.cvterm
          WHERE ((cvterm.name)::text = 'splice_donor_variant'::text))) AND (sf.snp_feature_id = vs.variant_feature_id) AND (vs.variantset_id = v.variantset_id) AND (v.variant_type_id IN ( SELECT cvterm.cvterm_id
           FROM public.cvterm
          WHERE ((cvterm.name)::text = 'SNP'::text))));


--
-- Name: v_snpeff; Type: VIEW; Schema: public; Owner: -
--

CREATE VIEW public.v_snpeff AS
 SELECT srp.snp_feature_id,
    tsf.chrom AS chromosome,
    tsf.pos AS "position",
    tsf.info AS annotation,
    '3kall'::character varying(255) AS variantset
   FROM public.v_snp_refposindex_v2 srp,
    public.tmp_snpeff_raw_msu7 tsf
  WHERE (((srp.variantset)::text = '3kall'::text) AND ((replace((srp.chromosome)::text, 'Chr'::text, ''::text))::integer = tsf.chrom) AND (tsf.pos = srp."position"));


--
-- Name: v_snpeff2; Type: MATERIALIZED VIEW; Schema: public; Owner: -
--

CREATE MATERIALIZED VIEW public.v_snpeff2 AS
 SELECT snp_feature_id,
    chromosome,
    "position",
    split_part((annotation)::text, '|'::text, 2) AS annotation,
    variantset
   FROM public.v_snpeff
  ORDER BY variantset, chromosome, "position"
  WITH NO DATA;


--
-- Name: v_stock_by_passport; Type: VIEW; Schema: public; Owner: -
--

CREATE VIEW public.v_stock_by_passport AS
 SELECT sp.stockprop_id AS iric_stockprop_id,
    mv_stock_by_passport.stock_id AS iric_stock_id,
    mv_stock_by_passport.name,
    mv_stock_by_passport.assay AS iris_unique_id,
    mv_stock_by_passport.ori_country,
    mv_stock_by_passport.subpopulation,
    mv_stock_by_passport.gs_accession,
    mv_stock_by_passport.box_code,
    sp.value,
    sp.type_id,
    mv_stock_by_passport.dataset
   FROM public.v_allstock_basicprop mv_stock_by_passport,
    public.stockprop sp
  WHERE (sp.stock_id = mv_stock_by_passport.stock_id);


--
-- Name: v_stock_by_phenotype; Type: VIEW; Schema: public; Owner: -
--

CREATE VIEW public.v_stock_by_phenotype AS
 SELECT sp.stock_phenotype2_id AS iric_stock_phenotype_id,
    mv_stock_by_phenotype.stock_id AS iric_stock_id,
    mv_stock_by_phenotype.name,
    mv_stock_by_phenotype.assay AS iris_unique_id,
    mv_stock_by_phenotype.ori_country,
    mv_stock_by_phenotype.subpopulation,
    mv_stock_by_phenotype.gs_accession,
    mv_stock_by_phenotype.box_code,
    sp.qual_value,
    sp.quan_value,
    sp.type_id AS phenotype_id,
    mv_stock_by_phenotype.dataset
   FROM public.v_allstock_basicprop mv_stock_by_phenotype,
    public.stock_phenotype2 sp
  WHERE (sp.stock_id = mv_stock_by_phenotype.stock_id);


--
-- Name: v_stock_passport; Type: VIEW; Schema: public; Owner: -
--

CREATE VIEW public.v_stock_passport AS
 SELECT irp.stockprop_id,
    irp.stock_id,
    ct.name,
        CASE
            WHEN (ct.definition IS NOT NULL) THEN ct.definition
            ELSE (((dbct.name)::text || ':'::text) || (dxct.accession)::text)
        END AS definition,
    irp.value,
    db.name AS dataset
   FROM public.stockprop irp,
    public.cvterm ct,
    public.stock_sample ss,
    public.sample_varietyset dx,
    public.db,
    public.db dbct,
    public.dbxref dxct
  WHERE ((ss.stock_id = irp.stock_id) AND (irp.type_id = ct.cvterm_id) AND (ct.is_obsolete = 0) AND (ss.stock_sample_id = dx.stock_sample_id) AND (dx.db_id = db.db_id) AND (dxct.dbxref_id = ct.dbxref_id) AND (dxct.db_id = dbct.db_id))
  ORDER BY ct.definition;


--
-- Name: v_stock_phenotype; Type: VIEW; Schema: public; Owner: -
--

CREATE VIEW public.v_stock_phenotype AS
 SELECT irp.stock_phenotype2_id,
    irp.stock_id,
    irp.type_id AS phenotype_id,
    ct.name,
    ct.definition,
    irp.quan_value,
    irp.qual_value,
    db.name AS dataset
   FROM public.stock_phenotype2 irp,
    public.cvterm ct,
    public.stock_sample ss,
    public.sample_varietyset dx,
    public.db
  WHERE ((ss.stock_id = irp.stock_id) AND (irp.type_id = ct.cvterm_id) AND (ct.is_obsolete = 0) AND (ss.stock_sample_id = dx.stock_sample_id) AND (dx.db_id = db.db_id));


--
-- Name: v_stock_phenotype2; Type: VIEW; Schema: public; Owner: -
--

CREATE VIEW public.v_stock_phenotype2 AS
 SELECT irp.stock_phenotype2_id,
    irp.stock_id,
    irp.type_id AS phenotype_id,
    ct.name,
    ct.definition,
    irp.quan_value,
    irp.qual_value,
    db.name AS dataset
   FROM public.stock_phenotype2 irp,
    public.cvterm ct,
    public.stock_sample ss,
    public.dbxref dx,
    public.db
  WHERE ((ss.stock_id = irp.stock_id) AND (irp.type_id = ct.cvterm_id) AND (ct.is_obsolete = 0) AND (ss.dbxref_id = dx.dbxref_id) AND (dx.db_id = db.db_id));


--
-- Name: v_stock_phenotype_co; Type: VIEW; Schema: public; Owner: -
--

CREATE VIEW public.v_stock_phenotype_co AS
 SELECT irp.stock_phenotype2_id AS stock_phenotype_id,
    irp.stock_id,
    irp.phenotype_id,
    irp.name,
    irp.definition,
    irp.quan_value,
    irp.qual_value,
    irp.dataset,
    vall.variable_id,
    vall.variable_name,
    vall.trait_id,
    vall.trait,
    vall.method_id,
    vall.method,
    vall.scale_id,
    vall.scale
   FROM (public.v_stock_phenotype2 irp
     LEFT JOIN public.v_co_variable_tms vall ON ((irp.phenotype_id = vall.variable_id)));


--
-- Name: v_stock_phenotype_qualval; Type: VIEW; Schema: public; Owner: -
--

CREATE VIEW public.v_stock_phenotype_qualval AS
 SELECT DISTINCT sp.qual_value,
    sp.type_id AS phenotype_id,
    db.name AS dataset
   FROM public.stock_phenotype2 sp,
    public.stock_sample ss,
    public.sample_varietyset dx,
    public.db
  WHERE ((sp.stock_id = ss.stock_id) AND (ss.stock_sample_id = dx.stock_sample_id) AND (dx.db_id = db.db_id))
  ORDER BY sp.qual_value;


--
-- Name: v_stock_phenotype_qualval2; Type: VIEW; Schema: public; Owner: -
--

CREATE VIEW public.v_stock_phenotype_qualval2 AS
 SELECT DISTINCT sp.qual_value,
    sp.type_id AS phenotype_id,
    db.name AS dataset
   FROM public.stock_phenotype2 sp,
    public.stock_sample ss,
    public.dbxref dx,
    public.db
  WHERE ((sp.stock_id = ss.stock_id) AND (ss.dbxref_id = dx.dbxref_id) AND (dx.db_id = db.db_id))
  ORDER BY sp.qual_value;


--
-- Name: v_stock_phenotype_quanval; Type: VIEW; Schema: public; Owner: -
--

CREATE VIEW public.v_stock_phenotype_quanval AS
 SELECT DISTINCT round(sp.quan_value, 2) AS quan_value,
    sp.type_id AS phenotype_id,
    db.name AS dataset
   FROM public.stock_phenotype2 sp,
    public.stock_sample ss,
    public.sample_varietyset dx,
    public.db
  WHERE ((sp.stock_id = ss.stock_id) AND (ss.stock_sample_id = dx.stock_sample_id) AND (dx.db_id = db.db_id))
  ORDER BY (round(sp.quan_value, 2));


--
-- Name: v_stock_phenotype_quanval2; Type: VIEW; Schema: public; Owner: -
--

CREATE VIEW public.v_stock_phenotype_quanval2 AS
 SELECT DISTINCT round(sp.quan_value, 2) AS quan_value,
    sp.type_id AS phenotype_id,
    db.name AS dataset
   FROM public.stock_phenotype2 sp,
    public.stock_sample ss,
    public.dbxref dx,
    public.db
  WHERE ((sp.stock_id = ss.stock_id) AND (ss.dbxref_id = dx.dbxref_id) AND (dx.db_id = db.db_id))
  ORDER BY (round(sp.quan_value, 2));


--
-- Name: v_user_subscription; Type: VIEW; Schema: public; Owner: -
--

CREATE VIEW public.v_user_subscription AS
 SELECT u.user_id,
    u.name,
    u.email,
    us.start_date,
    us.end_date,
    us.subscription_status,
    st.type_name AS subscription_type,
    st.price,
    st.duration_months,
    st.features
   FROM ((public.user_subscriptions us
     JOIN public.users u ON ((us.user_id = u.user_id)))
     JOIN public.subscription_types st ON ((us.subscription_type_id = st.subscription_type_id)));


--
-- Name: variant_variantset_variant_variantset_id_seq; Type: SEQUENCE; Schema: public; Owner: -
--

CREATE SEQUENCE public.variant_variantset_variant_variantset_id_seq
    START WITH 1
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;


--
-- Name: variant_variantset_variant_variantset_id_seq; Type: SEQUENCE OWNED BY; Schema: public; Owner: -
--

ALTER SEQUENCE public.variant_variantset_variant_variantset_id_seq OWNED BY public.variant_variantset.variant_variantset_id;


--
-- Name: analysis analysis_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.analysis ALTER COLUMN analysis_id SET DEFAULT nextval('public.analysis_analysis_id_seq'::regclass);


--
-- Name: analysisfeature analysisfeature_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.analysisfeature ALTER COLUMN analysisfeature_id SET DEFAULT nextval('public.analysisfeature_analysisfeature_id_seq'::regclass);


--
-- Name: chadoprop chadoprop_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.chadoprop ALTER COLUMN chadoprop_id SET DEFAULT nextval('public.chadoprop_chadoprop_id_seq'::regclass);


--
-- Name: cv cv_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.cv ALTER COLUMN cv_id SET DEFAULT nextval('public.cv_cv_id_seq'::regclass);


--
-- Name: cvprop cvprop_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.cvprop ALTER COLUMN cvprop_id SET DEFAULT nextval('public.cvprop_cvprop_id_seq'::regclass);


--
-- Name: cvterm cvterm_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.cvterm ALTER COLUMN cvterm_id SET DEFAULT nextval('public.cvterm_cvterm_id_seq'::regclass);


--
-- Name: cvterm_dbxref cvterm_dbxref_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.cvterm_dbxref ALTER COLUMN cvterm_dbxref_id SET DEFAULT nextval('public.cvterm_dbxref_cvterm_dbxref_id_seq'::regclass);


--
-- Name: cvterm_relationship cvterm_relationship_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.cvterm_relationship ALTER COLUMN cvterm_relationship_id SET DEFAULT nextval('public.cvterm_relationship_cvterm_relationship_id_seq'::regclass);


--
-- Name: cvtermpath cvtermpath_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.cvtermpath ALTER COLUMN cvtermpath_id SET DEFAULT nextval('public.cvtermpath_cvtermpath_id_seq'::regclass);


--
-- Name: cvtermprop cvtermprop_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.cvtermprop ALTER COLUMN cvtermprop_id SET DEFAULT nextval('public.cvtermprop_cvtermprop_id_seq'::regclass);


--
-- Name: cvtermsynonym cvtermsynonym_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.cvtermsynonym ALTER COLUMN cvtermsynonym_id SET DEFAULT nextval('public.cvtermsynonym_cvtermsynonym_id_seq'::regclass);


--
-- Name: db db_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.db ALTER COLUMN db_id SET DEFAULT nextval('public.db_db_id_seq'::regclass);


--
-- Name: dbxref dbxref_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.dbxref ALTER COLUMN dbxref_id SET DEFAULT nextval('public.dbxref_dbxref_id_seq'::regclass);


--
-- Name: dbxrefprop dbxrefprop_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.dbxrefprop ALTER COLUMN dbxrefprop_id SET DEFAULT nextval('public.dbxrefprop_dbxrefprop_id_seq'::regclass);


--
-- Name: feature feature_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.feature ALTER COLUMN feature_id SET DEFAULT nextval('public.feature_feature_id_seq'::regclass);


--
-- Name: feature_cvterm feature_cvterm_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.feature_cvterm ALTER COLUMN feature_cvterm_id SET DEFAULT nextval('public.feature_cvterm_feature_cvterm_id_seq'::regclass);


--
-- Name: feature_cvterm_dbxref feature_cvterm_dbxref_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.feature_cvterm_dbxref ALTER COLUMN feature_cvterm_dbxref_id SET DEFAULT nextval('public.feature_cvterm_dbxref_feature_cvterm_dbxref_id_seq'::regclass);


--
-- Name: feature_cvterm_pub feature_cvterm_pub_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.feature_cvterm_pub ALTER COLUMN feature_cvterm_pub_id SET DEFAULT nextval('public.feature_cvterm_pub_feature_cvterm_pub_id_seq'::regclass);


--
-- Name: feature_cvtermprop feature_cvtermprop_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.feature_cvtermprop ALTER COLUMN feature_cvtermprop_id SET DEFAULT nextval('public.feature_cvtermprop_feature_cvtermprop_id_seq'::regclass);


--
-- Name: feature_dbxref feature_dbxref_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.feature_dbxref ALTER COLUMN feature_dbxref_id SET DEFAULT nextval('public.feature_dbxref_feature_dbxref_id_seq'::regclass);


--
-- Name: feature_expression feature_expression_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.feature_expression ALTER COLUMN feature_expression_id SET DEFAULT nextval('public.feature_expression_feature_expression_id_seq'::regclass);


--
-- Name: feature_expressionprop feature_expressionprop_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.feature_expressionprop ALTER COLUMN feature_expressionprop_id SET DEFAULT nextval('public.feature_expressionprop_feature_expressionprop_id_seq'::regclass);


--
-- Name: feature_genotype feature_genotype_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.feature_genotype ALTER COLUMN feature_genotype_id SET DEFAULT nextval('public.feature_genotype_feature_genotype_id_seq'::regclass);


--
-- Name: feature_phenotype feature_phenotype_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.feature_phenotype ALTER COLUMN feature_phenotype_id SET DEFAULT nextval('public.feature_phenotype_feature_phenotype_id_seq'::regclass);


--
-- Name: feature_pub feature_pub_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.feature_pub ALTER COLUMN feature_pub_id SET DEFAULT nextval('public.feature_pub_feature_pub_id_seq'::regclass);


--
-- Name: feature_pubprop feature_pubprop_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.feature_pubprop ALTER COLUMN feature_pubprop_id SET DEFAULT nextval('public.feature_pubprop_feature_pubprop_id_seq'::regclass);


--
-- Name: feature_relationship feature_relationship_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.feature_relationship ALTER COLUMN feature_relationship_id SET DEFAULT nextval('public.feature_relationship_feature_relationship_id_seq'::regclass);


--
-- Name: feature_relationship_pub feature_relationship_pub_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.feature_relationship_pub ALTER COLUMN feature_relationship_pub_id SET DEFAULT nextval('public.feature_relationship_pub_feature_relationship_pub_id_seq'::regclass);


--
-- Name: feature_relationshipprop feature_relationshipprop_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.feature_relationshipprop ALTER COLUMN feature_relationshipprop_id SET DEFAULT nextval('public.feature_relationshipprop_feature_relationshipprop_id_seq'::regclass);


--
-- Name: feature_relationshipprop_pub feature_relationshipprop_pub_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.feature_relationshipprop_pub ALTER COLUMN feature_relationshipprop_pub_id SET DEFAULT nextval('public.feature_relationshipprop_pub_feature_relationshipprop_pub_i_seq'::regclass);


--
-- Name: featureloc featureloc_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.featureloc ALTER COLUMN featureloc_id SET DEFAULT nextval('public.featureloc_featureloc_id_seq'::regclass);


--
-- Name: featureloc_pub featureloc_pub_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.featureloc_pub ALTER COLUMN featureloc_pub_id SET DEFAULT nextval('public.featureloc_pub_featureloc_pub_id_seq'::regclass);


--
-- Name: featureprop featureprop_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.featureprop ALTER COLUMN featureprop_id SET DEFAULT nextval('public.featureprop_featureprop_id_seq'::regclass);


--
-- Name: featureprop_pub featureprop_pub_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.featureprop_pub ALTER COLUMN featureprop_pub_id SET DEFAULT nextval('public.featureprop_pub_featureprop_pub_id_seq'::regclass);


--
-- Name: genotype_run genotype_run_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.genotype_run ALTER COLUMN genotype_run_id SET DEFAULT nextval('public.genotype_run_genotype_run_id_seq'::regclass);


--
-- Name: gff_sort_tmp row_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.gff_sort_tmp ALTER COLUMN row_id SET DEFAULT nextval('public.gff_sort_tmp_row_id_seq'::regclass);


--
-- Name: indel_feature indel_feature_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.indel_feature ALTER COLUMN indel_feature_id SET DEFAULT nextval('public.indel_feature_indel_feature_id_seq'::regclass);


--
-- Name: indel_featureloc indel_featureloc_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.indel_featureloc ALTER COLUMN indel_featureloc_id SET DEFAULT nextval('public.indel_featureloc_indel_featureloc_id_seq'::regclass);


--
-- Name: materialized_view materialized_view_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.materialized_view ALTER COLUMN materialized_view_id SET DEFAULT nextval('public.materialized_view_materialized_view_id_seq'::regclass);


--
-- Name: mv_convertpos_nb2allrefs mv_convertpos_nb2allrefs_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.mv_convertpos_nb2allrefs ALTER COLUMN mv_convertpos_nb2allrefs_id SET DEFAULT nextval('public.mv_convertpos_nb2allrefs_mv_convertpos_nb2allrefs_id_seq'::regclass);


--
-- Name: organism organism_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.organism ALTER COLUMN organism_id SET DEFAULT nextval('public.organism_organism_id_seq'::regclass);


--
-- Name: organism_dbxref organism_dbxref_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.organism_dbxref ALTER COLUMN organism_dbxref_id SET DEFAULT nextval('public.organism_dbxref_organism_dbxref_id_seq'::regclass);


--
-- Name: organismprop organismprop_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.organismprop ALTER COLUMN organismprop_id SET DEFAULT nextval('public.organismprop_organismprop_id_seq'::regclass);


--
-- Name: platform platform_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.platform ALTER COLUMN platform_id SET DEFAULT nextval('public.platform_platform_id_seq1'::regclass);


--
-- Name: pub pub_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.pub ALTER COLUMN pub_id SET DEFAULT nextval('public.pub_pub_id_seq'::regclass);


--
-- Name: pub_dbxref pub_dbxref_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.pub_dbxref ALTER COLUMN pub_dbxref_id SET DEFAULT nextval('public.pub_dbxref_pub_dbxref_id_seq'::regclass);


--
-- Name: pub_relationship pub_relationship_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.pub_relationship ALTER COLUMN pub_relationship_id SET DEFAULT nextval('public.pub_relationship_pub_relationship_id_seq'::regclass);


--
-- Name: pubauthor pubauthor_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.pubauthor ALTER COLUMN pubauthor_id SET DEFAULT nextval('public.pubauthor_pubauthor_id_seq'::regclass);


--
-- Name: pubprop pubprop_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.pubprop ALTER COLUMN pubprop_id SET DEFAULT nextval('public.pubprop_pubprop_id_seq'::regclass);


--
-- Name: seed_order seed_order_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.seed_order ALTER COLUMN seed_order_id SET DEFAULT nextval('public.seed_order_seed_order_id_seq'::regclass);


--
-- Name: snp_feature snp_feature_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.snp_feature ALTER COLUMN snp_feature_id SET DEFAULT nextval('public.snp_feature_snp_feature_id_seq'::regclass);


--
-- Name: snp_featureloc snp_featureloc_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.snp_featureloc ALTER COLUMN snp_featureloc_id SET DEFAULT nextval('public.snp_featureloc_snp_featureloc_id_seq'::regclass);


--
-- Name: snp_featureprop snp_featureprop_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.snp_featureprop ALTER COLUMN snp_featureprop_id SET DEFAULT nextval('public.snp_featureprop_snp_featureprop_id_seq'::regclass);


--
-- Name: stock stock_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.stock ALTER COLUMN stock_id SET DEFAULT nextval('public.stock_stock_id_seq'::regclass);


--
-- Name: stock_cvterm stock_cvterm_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.stock_cvterm ALTER COLUMN stock_cvterm_id SET DEFAULT nextval('public.stock_cvterm_stock_cvterm_id_seq'::regclass);


--
-- Name: stock_cvtermprop stock_cvtermprop_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.stock_cvtermprop ALTER COLUMN stock_cvtermprop_id SET DEFAULT nextval('public.stock_cvtermprop_stock_cvtermprop_id_seq'::regclass);


--
-- Name: stock_dbxref stock_dbxref_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.stock_dbxref ALTER COLUMN stock_dbxref_id SET DEFAULT nextval('public.stock_dbxref_stock_dbxref_id_seq'::regclass);


--
-- Name: stock_dbxrefprop stock_dbxrefprop_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.stock_dbxrefprop ALTER COLUMN stock_dbxrefprop_id SET DEFAULT nextval('public.stock_dbxrefprop_stock_dbxrefprop_id_seq'::regclass);


--
-- Name: stock_genotype stock_genotype_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.stock_genotype ALTER COLUMN stock_genotype_id SET DEFAULT nextval('public.stock_genotype_stock_genotype_id_seq'::regclass);


--
-- Name: stock_phenotype stock_phenotype_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.stock_phenotype ALTER COLUMN stock_phenotype_id SET DEFAULT nextval('public.stock_phenotype_id_seq'::regclass);


--
-- Name: stock_pub stock_pub_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.stock_pub ALTER COLUMN stock_pub_id SET DEFAULT nextval('public.stock_pub_stock_pub_id_seq'::regclass);


--
-- Name: stock_relationship stock_relationship_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.stock_relationship ALTER COLUMN stock_relationship_id SET DEFAULT nextval('public.stock_relationship_stock_relationship_id_seq'::regclass);


--
-- Name: stock_relationship_cvterm stock_relationship_cvterm_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.stock_relationship_cvterm ALTER COLUMN stock_relationship_cvterm_id SET DEFAULT nextval('public.stock_relationship_cvterm_stock_relationship_cvterm_id_seq'::regclass);


--
-- Name: stock_relationship_pub stock_relationship_pub_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.stock_relationship_pub ALTER COLUMN stock_relationship_pub_id SET DEFAULT nextval('public.stock_relationship_pub_stock_relationship_pub_id_seq'::regclass);


--
-- Name: stock_sample stock_sample_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.stock_sample ALTER COLUMN stock_sample_id SET DEFAULT nextval('public.stock_sample_stock_sample_id_seq'::regclass);


--
-- Name: stockcollection stockcollection_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.stockcollection ALTER COLUMN stockcollection_id SET DEFAULT nextval('public.stockcollection_stockcollection_id_seq'::regclass);


--
-- Name: stockcollection_stock stockcollection_stock_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.stockcollection_stock ALTER COLUMN stockcollection_stock_id SET DEFAULT nextval('public.stockcollection_stock_stockcollection_stock_id_seq'::regclass);


--
-- Name: stockcollectionprop stockcollectionprop_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.stockcollectionprop ALTER COLUMN stockcollectionprop_id SET DEFAULT nextval('public.stockcollectionprop_stockcollectionprop_id_seq'::regclass);


--
-- Name: stockprop stockprop_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.stockprop ALTER COLUMN stockprop_id SET DEFAULT nextval('public.stockprop_stockprop_id_seq'::regclass);


--
-- Name: stockprop_pub stockprop_pub_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.stockprop_pub ALTER COLUMN stockprop_pub_id SET DEFAULT nextval('public.stockprop_pub_stockprop_pub_id_seq'::regclass);


--
-- Name: subscription_types subscription_type_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.subscription_types ALTER COLUMN subscription_type_id SET DEFAULT nextval('public.subscription_types_subscription_type_id_seq'::regclass);


--
-- Name: tmp_cds_handler cds_row_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.tmp_cds_handler ALTER COLUMN cds_row_id SET DEFAULT nextval('public.tmp_cds_handler_cds_row_id_seq'::regclass);


--
-- Name: tmp_cds_handler_relationship rel_row_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.tmp_cds_handler_relationship ALTER COLUMN rel_row_id SET DEFAULT nextval('public.tmp_cds_handler_relationship_rel_row_id_seq'::regclass);


--
-- Name: user_subscriptions user_subscription_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.user_subscriptions ALTER COLUMN user_subscription_id SET DEFAULT nextval('public.user_subscriptions_user_subscription_id_seq'::regclass);


--
-- Name: users user_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.users ALTER COLUMN user_id SET DEFAULT nextval('public.users_user_id_seq'::regclass);


--
-- Name: variant_variantset variant_variantset_id; Type: DEFAULT; Schema: public; Owner: -
--

ALTER TABLE ONLY public.variant_variantset ALTER COLUMN variant_variantset_id SET DEFAULT nextval('public.variant_variantset_variant_variantset_id_seq'::regclass);


--
-- Data for Name: analysis; Type: TABLE DATA; Schema: public; Owner: -
--

COPY public.analysis (analysis_id, name, description, program, programversion, algorithm, sourcename, sourceversion, sourceuri, timeexecuted) FROM stdin;
\.


--
-- Data for Name: analysisfeature; Type: TABLE DATA; Schema: public; Owner: -
--

COPY public.analysisfeature (analysisfeature_id, feature_id, analysis_id, rawscore, normscore, significance, identity) FROM stdin;
\.


--
-- Data for Name: chadoprop; Type: TABLE DATA; Schema: public; Owner: -
--

COPY public.chadoprop (chadoprop_id, type_id, value, rank) FROM stdin;
\.


--
-- Data for Name: cv; Type: TABLE DATA; Schema: public; Owner: -
--

COPY public.cv (cv_id, name, definition) FROM stdin;
12	sequence	\N
17	plant_anatomy	\N
\.


--
-- Data for Name: cvprop; Type: TABLE DATA; Schema: public; Owner: -
--

COPY public.cvprop (cvprop_id, cv_id, type_id, value, rank) FROM stdin;
\.


--
-- Data for Name: cvterm; Type: TABLE DATA; Schema: public; Owner: -
--

COPY public.cvterm (cvterm_id, cv_id, name, definition, dbxref_id, is_obsolete, is_relationshiptype) FROM stdin;
655	12	three_prime_D_nonamer	A 9 nucleotide recombination site (e.g. ACAAAAACC), part of a 3' D-recombination signal sequence of an immunoglobulin/T-cell receptor gene.	877	0	0
409	12	mRNA_not_polyadenylated (obsolete SO:0000247)	\N	521	1	0
2128	12	C_to_G_transversion	\N	2919	0	0
42480	17	hypocotyl epidermis	The outermost primary cell layer of the hypocotyl.	96996	0	0
1153	12	consensus_mRNA	\N	1475	0	0
42530	17	portion of secretory tissue	A portion of plant tissue (PO:0009007) that form specialized structures producing a secretion.	97063	0	0
42497	17	primary thickening meristem	A shoot lateral meristem (PO:0006344) that is part of a shoot axis (PO:0025029) and has a parts multiple layers of meristematic cells (PO:0004010) located near the shoot apical meristem (PO:0020148).	90170	0	0
1703	12	transcription_variant	A variant that changes alters the transcription of a transcript with respect to a reference sequence.	2362	0	0
1728	12	splice_acceptor_variant	A splice variant that changes the 2 base region at the 3' end of an intron.	2388	0	0
207	12	delete (obsolete SO:0000045)	To remove a subsection of sequence.	260	1	0
42254	17	root-derived cultured plant cell	A cultured plant cell that was derived from root tissue.	96673	0	0
1846	12	ASPE_primer	"A primer containing an SNV at the 3' end for accurate genotyping.	2532	0	0
1845	12	ChIP_seq_region	A region of sequence identified by CHiP seq technology to contain a protein binding site.	2531	0	0
1554	12	modified_L_serine	A post translationally modified serine amino acid feature.	2183	0	0
368	12	SINE_element	A repetitive element, a few hundred base pairs long, that is dispersed throughout the genome. A common human SINE is the Alu element.	474	0	0
1045	12	recoded_by_translational_bypass	Recoded mRNA where a block of nucleotides is not translated.	1356	0	0
185	12	sarcin_like_RNA_motif	A loop in ribosomal RNA containing the sites of attack for ricin and sarcin.	225	0	0
43022	17	embryo sac cell	A native plant cell (PO:0025606) that is part of an embryo sac (PO:0025074).	97849	0	0
1866	12	H3K18_acetylation_site	A kind of histone modification site, whereby the 14th residue (a lysine), from the start of the H3 histone protein is acylated.	2557	0	0
876	12	RNA_motif	A motif that is active in RNA sequence.	1154	0	0
42997	17	cardinal organ part	A cardinal part of multi-tissue plant structure (PO:0025498) that is a proper part of a plant organ (PO:0009008) and includes portions of plant tissue (PO:0009007) of at least two different types.	97815	0	0
2197	12	sequence_variant_causing_amino_acid_deletion (obsolete SO:1000097)	The deletion of one or more amino acids from the polypeptide, without affecting the surrounding sequence.	3005	1	0
42920	17	leaf base	A phyllome base (PO:0025140) that is part of a leaf (PO:0025034).	97704	0	0
2275	12	dicistronic_primary_transcript	A primary transcript that has the quality dicistronic.	3087	0	0
42855	17	spikelet floret	A small flower (PO:0009046) that is part of a spikelet (PO:0009051).	97585	0	0
43292	17	zygotic plant embryo	A plant embryo (PO:0009009) that forms as a result of the fusion of gametes.	98196	0	0
1814	12	DCE_SII	A sub element of the DCE core promoter element with consensus sequence CTGT.	2497	0	0
42739	17	modified aleurone	A portion of aleurone layer (PO:0005360) which is morphologically distinct and is located adjacent to the nucellar projection (PO:0008007).	97324	0	0
42992	17	apical meristem	A maximal portion of meristem tissue (PO:0009013) located at a shoot apex (PO:0000037) or root tip (PO:0000025).	97811	0	0
42313	17	companion cell	A parenchyma cell (PO:0000074) that is adjacent to a sieve tube element (PO:0000289) and arises from the same phloem mother cell (PO:0000400) as the sieve tube element.	96761	0	0
42886	17	placentoid	A portion of parenchyma tissue that is part of a connective and projects into a pollen sac.	97640	0	0
55544	12	translated_processed_pseudogene	A processed pseudogene where there is evidence, (mass spec data) suggesting that it is also translated.	3073918	0	0
2032	12	TFBS_translocation	A feature translocation where the region contains a transcription factor binding site.	2798	0	0
43446	17	ovuliferous scale ovule	A plant ovule (PO:0020006) that is part of an ovuliferous scale (add).	98398	0	0
377	12	cysteine_tRNA_primary_transcript	A primary transcript encoding cysteinyl tRNA (SO:0000258).	485	0	0
43078	17	reproductive shoot system	A shoot system (PO:0009006) in the sporophytic phase that has as part at least one sporangium (PO:0025094).	97927	0	0
2219	12	sequence_variant_causing_polypeptide_localization_change (obsolete SO:1000121)	\N	3029	1	0
1324	12	NDM3_motif	A non directional promoter motif with consensus sequence GAAAGCT.	1788	0	0
42554	17	primary parietal cell	A native plant cell (PO:0025606) which is formed by the division of a male archesporial cell (PO:0006014), and is part of the anther wall primary parietal cell layer (PO:0006006).	97100	0	0
1840	12	sticky_end_restriction_enzyme_cleavage_site	\N	2526	0	0
1526	12	five_carboxymethylaminomethyl_two_thiouridine	5_carboxymethylaminomethyl_2_thiouridine is a modified uridine base feature.	2130	0	0
43586	17	epidermal rhizoid	A rhizoid (PO:0030078) that develops from an epidermal rhizoid initial cell (PO:0030068).	98611	0	0
42837	17	gynoecium	A collective phyllome structure (PO:0025023) composed all of the carpels (PO:0009030) in a flower (PO:0009046).	97530	0	0
43283	17	embryo mesocotyl	A mesocotyl (PO:0020037) that is part of a plant embryo (PO:0009009).	98186	0	0
1888	12	gene_with_start_codon_CUG	A gene with a translational start codon of CUG.	2581	0	0
382	12	isoleucine_tRNA_primary_transcript	A primary transcript encoding isoleucyl tRNA (SO:0000263).	490	0	0
42629	17	sporocyte	A native plant cell (PO:0025606) which is diploid (2n), and undergoes meiosis (GO:0007126) to produce four haploid (1n) plant spores (PO:0025017).	97191	0	0
42898	17	germination pore (obsolete PO:0020018)	OBSOLETE. Area through which the pollen imports the nutrition during its development, at the time of pollen germination, the pollen tube emerges through it.	97658	1	0
1623	12	five_prime_RST	A tag produced from a single sequencing read from a 5'-RACE product; typically a few hundred base pairs long.	2266	0	0
830	12	sequence_rearrangement_feature	\N	1099	0	0
1472	12	queuosine	Queuosine is a modified 7-deazoguanosine.	2021	0	0
1256	12	polypeptide_molybdenum_ion_contact_site	A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with molybdenum ions.	1656	0	0
729	12	bidirectional_promoter	\N	958	0	0
43513	17	fused calyx	A calyx (PO:0009060) that is composed of fused sepals (PO:0025584).	98498	0	0
809	12	stRNA_primary_transcript (obsolete SO:stRNA_primary_transcript)	A primary transcript encoding a small temporal mRNA (SO:0000649).	1069	1	0
1748	12	compensatory_transcript_secondary_structure_variant	A secondary structure variant that compensate for the change made by a previous variant.	2422	0	0
2239	12	bipartite_duplication	An interchromosomal mutation whereby the (large) region between the first two breaks listed is lost, and the two flanking segments (one of them centric) are joined as a translocation to the free ends resulting from the third break.	3051	0	0
464	12	J_gene_recombination_feature	Recombination signal including J-heptamer, J-spacer and J-nonamer in 5' of J-region of a J-gene or J-sequence.	595	0	0
1529	12	five_carboxymethyluridine	5_carboxymethyluridine is a modified uridine base feature.	2136	0	0
681	12	V_VDJ_C_cluster	Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one VDJ-gene and one C-gene.	904	0	0
1516	12	five_methoxycarbonylmethyl_two_prime_O_methyluridine	Five_methoxycarbonylmethyl_2_prime_O_methyluridine is a modified uridine base feature.	2110	0	0
55525	12	H2AZK13_acetylation_site	A kind of histone modification site, whereby the 13th residue (a lysine), from the start of the H2AZ histone protein is acetylated.	3073892	0	0
731	12	three_prime_D_recombination_signal_sequence	Recombination signal of an immunoglobulin/T-cell receptor gene, including the 3' D-heptamer (SO:0000493), 3' D-spacer, and 3' D-nonamer (SO:0000494) in 3' of the D-region of a D-gene.	962	0	0
257	12	leucoplast_gene	A plastid gene from leucoplast sequence.	320	0	0
391	12	tyrosine_tRNA_primary_transcript	A primary transcript encoding tyrosyl tRNA (SO:000272).	499	0	0
42531	17	hydathode	A cardinal organ part that releases water through a hydathode pore.	97064	0	0
252	12	plastid_gene	A gene from plastid sequence.	315	0	0
55520	12	CDS_supported_by_peptide_spectrum_match	A CDS that is supported by proteomics data.	3073886	0	0
1678	12	chromosomally_aberrant_genome	\N	2333	0	0
2004	12	Ace2_UAS	A promoter element with consensus sequence CCAGCC, bound by the fungal transcription factor Ace2.	2756	0	0
43296	17	microsporangium wall	A sporangium wall (PO:0025306) that is part of a microsporangium (PO:0025202).	98200	0	0
1721	12	stop_retained_variant	A sequence variant where at least one base in the terminator codon is changed, but the terminator remains.	2380	0	0
914	12	clone_insert	The region of sequence that has been inserted and is being propagated by the clone.	1204	0	0
43177	17	phyllome trichome	A trichome that is part of a phyllome epidermis.	98064	0	0
616	12	gene_with_mRNA_with_frameshift	A gene that encodes an mRNA with a frameshift.	837	0	0
55528	12	promoter_flanking_region	A region immediately adjacent to a promoter which may or may not contain transcription factor binding sites.	3073896	0	0
1340	12	PNA	An attribute describing a sequence composed of peptide nucleic acid (CHEBI:48021), a chemical consisting of nucleobases bound to a backbone composed of repeating N-(2-aminoethyl)-glycine units linked by peptide bonds. The purine and pyrimidine bases are linked to the backbone by methylene carbonyl bonds.	1817	0	0
43225	17	leaf stomatal pore	A phyllome stomatal pore that is part of a leaf stomatal complex.	98119	0	0
897	12	organelle_sequence	\N	1183	0	0
1928	12	population_specific_variant	\N	2626	0	0
43048	17	tuber pith	A portion of pith (PO:0006109) that is part of a tuber storage parenchyma (PO:0025036).	97888	0	0
1187	12	direction_attribute	\N	1529	0	0
1104	12	attR_site	A region that results from recombination between attP_site and attB_site, composed of the 5' portion of attP_site and the 3' portion of attB_site.	1421	0	0
2276	12	member_of_regulon	\N	3088	0	0
43070	17	embryo sac	A megagametophyte (PO:0025279) that is located in a plant ovary ovule (PO:0025490).	97918	0	0
756	12	C_D_box_snoRNA_primary_transcript	A primary transcript encoding a small nucleolar RNA of the box C/D family.	998	0	0
43123	17	canal	A plant anatomical space (PO:0025117) that is either a groove on the surface, or a tube in the interior of a plant structure (PO:0009011).	97995	0	0
1924	12	paternal_variant	\N	2622	0	0
394	12	snoRNA_primary_transcript	A primary transcript encoding a small nucleolar mRNA (SO:0000275).	502	0	0
42504	17	phelloderm	A portion of ground tissue (PO:0025059) often resembling cortical parenchyma produced centripetally by the cork cambium.	97034	0	0
1183	12	polymorphic_sequence_variant	A sequence variant that is segregating in one or more natural populations of a species.	1523	0	0
1416	12	overlapping_feature_set	A continuous region of sequence composed of the overlapping of multiple sequence_features, which ultimately provides evidence for another sequence_feature.	1926	0	0
55330	12	Mat3M	A gene cassette array containing H- mating type specific information.	3073640	0	0
739	12	snoRNA_encoding	\N	971	0	0
43045	17	subterranean tuber interfascicular region	A tuber interfascicular region that is part of a subterranean tuber storage parenchyma.	97883	0	0
55372	12	H2BK20_acetylation_site	A kind of histone modification site, whereby the 20th residue (a lysine), from the start of the H2B histone protein is acetylated.	3073700	0	0
42475	17	obsolete fruit septum (obsolete PO:0005008)	OBSOLETE. A thin partition or membrane that divides a cavity or a mass of tissue in the fruit that is derived from the carpel septum.	90054	1	0
742	12	cap	A structure consisting of a 7-methylguanosine in 5'-5' triphosphate linkage with the first nucleotide of an mRNA. It is added post-transcriptionally, and is not encoded in the DNA.	974	0	0
43174	17	leaf stomatal complex	A phyllome stomatal complex (PO:0025215) that is part of a leaf.	98061	0	0
43220	17	spore capsule valve	A valve that is a part of a spore capsule that splits apart when the spore capsule dehisces.	98113	0	0
463	12	vertebrate_immune_system_gene_recombination_feature	\N	594	0	0
43303	17	microsporangium tapetum	An tapetum (PO:0025313) that is part of a microsporangium wall (PO:0025307).	98207	0	0
55473	12	histone_3_acetylation_site	A histone 3 modification where the modification is the acetylation of the residue.	3073830	0	0
1545	12	modified_L_cysteine	A post translationally modified cysteine amino acid feature.	2165	0	0
43457	17	petal spur	A cardinal organ part (PO:0025001) that is a slender, hollow extension of a petal (PO:0009032).	98417	0	0
1769	12	inactive_catalytic_site	A sequence variant that causes the inactivation of a catalytic site with respect to a reference sequence.	2443	0	0
55444	12	MNV	An MNV is a multiple nucleotide variant (substitution) in which the inserted sequence is the same length as the replaced sequence.	3073795	0	0
55542	12	coding_transcript_variant	A transcript variant of a protein coding gene.	3073914	0	0
221	12	nuclease_binding_site	A binding site that, of a nucleotide molecule, that interacts selectively and non-covalently with polypeptide residues of a nuclease.	279	0	0
43581	17	archegonium neck canal	A canal (PO:0025132) in the center of an archegonium neck (PO:0030039).	98601	0	0
1263	12	beta_bulge	A motif of three residues within a beta-sheet in which the main chains of two consecutive residues are H-bonded to that of the third, and in which the dihedral angles are as follows: Residue(i): -140 degrees < phi(l) -20 degrees , -90 degrees < psi(l) < 40 degrees. Residue (i+1): -180 degrees < phi < -25 degrees or +120 degrees < phi < +180 degrees, +40 degrees < psi < +180 degrees or -180 degrees < psi < -120 degrees.	1670	0	0
1075	12	edit_operation (obsolete SO:0000916)	\N	1390	1	0
43305	17	axillary hair	A multicellular trichome (PO:0025162) that has as parts a long terminal cell atop a basal stalk and grows in a leaf axil (PO:0009023).	98209	0	0
115	12	derives_from	\N	141	0	1
696	12	V_J_C_cluster	Genomic DNA of immunoglobulin/T-cell receptor gene in germline configuration including at least one V-gene, one J-gene and one C-gene.	919	0	0
42950	17	seed and fruit wall as dispersal unit (obsolete PO:0020085)	OBSOLETE.	97744	1	0
1539	12	CDS_fragment	\N	2155	0	0
959	12	engineered_transposable_element	TE that has been modified by manipulations in vitro.	1258	0	0
55455	12	H3K4_acetylation_site	A kind of histone modification site, whereby the 4th residue (a lysine), from the start of the H3 histone protein is acetylated.	3073806	0	0
42278	17	tetrad of microspores	A portion of plant tissue consisting of four microspores that remained joined together shortly after meiosis. Each cell will give rise to a male gametophyte.	96711	0	0
43501	17	polyarch protoxylem	A portion of root exarch protoxylem (PO:0025555) tissue in which the primary xylem (PO:0005849) of the root system (PO:0025025) has more than five protoxylem strands or poles, and differentiation progresses centripetally, with the oldest elements (protoxylem) farthest from the center of the plant axis (PO:0025004).	98482	0	0
55367	12	H4K91_acetylation_site	A kind of histone modification site, whereby the 91st residue (a lysine), from the start of the H4 histone protein is acetylated.	3073690	0	0
2193	12	sequence_variant_causing_amino_acid_substitution (obsolete SO:1000093)	The replacement of a single amino acid by another.	3001	1	0
2232	12	dexstrosynaptic_chromosome	An autosynaptic chromosome carrying the two right (D = dextro) telomeres.	3043	0	0
1977	12	AFLP_fragment	A PCR product obtained by applying the AFLP technique, based on a restriction enzyme digestion of genomic DNA and an amplification of the resulting fragments.	2699	0	0
42981	17	columella root cap cell	Cell that constitutes the central part of the root cap, arranged in longitudinal files.	97797	0	0
43339	17	leaf tendril	A vascular leaf that is slender and coiling and lacks a lamina.	98264	0	0
42460	17	short cell	An isodiametric leaf pavement cell.	96972	0	0
42383	17	root cap of lateral root	A root cap that is part of a lateral root tip.	96876	0	0
43540	17	thallus meristematic apical cell	A gametophyte apical cell that is part of a thallus.	98532	0	0
1826	12	regulatory_promoter_element	A promoter element that is not part of the core promoter, but provides the promoter with a specific regulatory region.	2511	0	0
43113	17	archegonium egg cell	A plant egg cell (PO:0020094) that develops from the archegonium central cell (PO:0025509) and is located in the venter (PO:0030038).	97977	0	0
254	12	ct_gene	A gene from chloroplast sequence.	317	0	0
2175	12	sequence_variant_affecting_splice_donor (obsolete SO:1000072)	A sequence_variant_effect that changes the splice donor sequence.	2981	1	0
43228	17	abaxial petiole canal	A petiole canal on the abaxial surface of a petiole.	98122	0	0
1212	12	transposon_fragment	A portion of a transposon, interrupted by the insertion of another element.	1563	0	0
313	12	clone	A piece of DNA that has been inserted in a vector so that it can be propagated in a host bacterium or some other organism.	390	0	0
967	12	fusion	\N	1267	0	0
243	12	gene_array_member	\N	304	0	0
1399	12	pre_miRNA	The 60-70 nucleotide region remain after Drosha processing of the primary transcript, that folds back upon itself to form a hairpin sructure.	1903	0	0
473	12	computed_feature_by_similarity (obsolete SO:0000311)	.	606	1	0
522	12	FRT_flanked	An attribute to describe sequence that is flanked by the FLP recombinase recognition site, FRT.	676	0	0
43470	17	ventral canal cell	A native plant cell (PO:0025606) that develops from the archegonium central cell (PO:0025509), and lies at the base of the archegonium neck (PO:0030039), above the archegonium egg cell (PO:0025122) in the venter (PO:0030038).	98435	0	0
2249	12	uninverted_intrachromosomal_transposition	An intrachromosomal transposition whereby the segment between the first two breaks listed is removed and inserted at the third break; the insertion is in cytologically the same orientation as its flanking segments.	3061	0	0
527	12	insertion_site	The junction where an insertion occurred.	682	0	0
1329	12	anticodon_loop	A sequence of seven nucleotide bases in tRNA which contains the anticodon. It has the sequence 5'-pyrimidine-purine-anticodon-modified purine-any base-3.	1794	0	0
2015	12	positional_candidate_gene	A candidate gene whose association with a trait is based on the gene's location on a chromosome.	2777	0	0
726	12	V_VDJ_J_C_cluster	Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one VDJ-gene, one J-gene and one C-gene.	955	0	0
43486	17	cauline paraclade	A primary inflorescence branch (PO:0006321) borne on the elongated first order inflorescence axis (PO:0025104).	98463	0	0
42999	17	tuber axillary shoot	An axillary shoot that develops from a tuber axillary bud.	97818	0	0
296	12	genomically_imprinted	Imprinted genes are epigenetically modified genes that are expressed monoallelically according to their parent of origin.	366	0	0
43294	17	microspore-derived cultured plant embryo	A cultured somatic plant embryo that develops from isolated microspores.	98198	0	0
59210	17	resin cell	An epidermal cell (PO:0004013) that secretes plant resin (PO:0025603), and may line resin canals (PO:0005665) and/or be associated with resin blisters (or cysts).	3080712	0	0
596	12	RR_tract	A polypurine tract within an LTR_retrotransposon.	814	0	0
55318	12	restriction_enzyme_region	A region related to restriction enzyme function.	3073620	0	0
42799	17	meristem L2 layer	A portion of meristem tissue (PO:0009013) directly beneath a meristem L1 layer (PO:0009020) in a shoot apical meristem (PO:0020148) which gives rise to ground tissue (PO:0025059).	97419	0	0
2272	12	alternatively_spliced_gene_encoding_greater_than_1_polypeptide_coding_regions_overlapping (obsolete SO:1001194)	\N	3084	1	0
55437	12	histone_2B_acetylation_site	A histone 2B modification where the modification is the acetylation of the residue.	3073785	0	0
776	12	terminator_of_type_2_RNApol_III_promoter	A terminator signal for RNA polymerase III transcription.	1026	0	0
43592	17	protonemal side branch rhizoid initial cell	A protonema side branch initial that gives rise to a protonemal rhizoid.	98622	0	0
566	12	Y_RNA	Y RNAs are components of the Ro ribonucleoprotein particle (Ro RNP), in association with Ro60 and La proteins. The Y RNAs and Ro60 and La proteins are well conserved, but the function of the Ro RNP is not known. In humans the RNA component can be one of four small RNAs: hY1, hY3, hY4 and hY5. These small RNAs are predicted to fold into a conserved secondary structure containing three stem structures. The largest of the four, hY1, contains an additional hairpin.	767	0	0
43491	17	mesarch protoxylem	A portion of protoxylem (PO:0000272) tissue in which the maturation of primary xylem (PO:0005849) of the shoot system (PO:0009006) progresses both centripetally and centrifugally from the center.	98472	0	0
42768	17	adventitious root primordium (obsolete PO:0008038)	OBSOLETE: A root primordium that will develop into an adventitious root.	97355	1	0
1517	12	five_methoxycarbonylmethyl_two_thiouridine	5_methoxycarbonylmethyl_2_thiouridine is a modified uridine base feature.	2112	0	0
55423	12	SVA_deletion	A deletion of an SVA mobile element.	3073769	0	0
918	12	single_stranded_cDNA	\N	1210	0	0
311	12	contig	A contiguous sequence derived from sequence assembly. Has no gaps, but may contain N's from unavailable bases.	386	0	0
320	12	fosmid	A cloning vector that utilizes the E. coli F factor.	401	0	0
43287	17	fruit operculum	A collective organ part structure that is the apical part of a circumsessile capsular fruit that separates from the rest of the capsule during dehiscence.	98190	0	0
42416	17	outer vascular cambium	Cambium at the outer margin of the xylem cylinder.	96920	0	0
42977	17	primary root	A root (PO:0009005) that develops directly from a seedling radicle (PO:0020127).	97790	0	0
43126	17	cigar leaf lamina abaxial epidermis	A portion of leaf lamina abaxial epidermis that covers the abaxial surface of a cigar leaf.	97998	0	0
2036	12	transcript_amplification	A feature amplification of a region containing a transcript.	2802	0	0
1262	12	asx_motif	A motif of five consecutive residues and two H-bonds in which: Residue(i) is Aspartate or Asparagine (Asx), side-chain O of residue(i) is H-bonded to the main-chain NH of residue(i+2) or (i+3), main-chain CO of residue(i) is H-bonded to the main-chain NH of residue(i+3) or (i+4).	1668	0	0
1042	12	stop_codon_read_through	A stop codon redefined to be a new amino acid.	1353	0	0
179	12	PSE_motif	A sequence element characteristic of the promoters of snRNA genes transcribed by RNA polymerase II or by RNA polymerase III. Located between -45 and -60 relative to the TSS. The human PSE_motif consensus sequence is TCACCNTNA(C|G)TNAAAAG(T|G).	216	0	0
42752	17	tertiary leaf vein	A leaf lamina vein (PO:0020138) arising from a secondary leaf vein (PO:0020140).	97338	0	0
43400	17	shoot axis vascular cambium	A vascular cambium (PO:0005598) that is part of a shoot axis (PO:0025029).	98345	0	0
1197	12	integrated_mobile_genetic_element	An MGE that is integrated into the host chromosome.	1544	0	0
42319	17	fusiform initial cell	An elongated cambial initial cell (PO:0000295) with approximately wedge-shaped ends that is part of the vascular cambium (PO:0005598) and gives rise to axial cells.	96768	0	0
43285	17	plant embryo radicle	A radicle (PO:0020031) that is part of a plant embryo (PO:0009009).	98188	0	0
397	12	TF_binding_site	A region of a nucleotide molecule that binds a Transcription Factor or Transcription Factor complex [GO:0005667].	507	0	0
277	12	transcript_feature (obsolete SO:0000115)	\N	346	1	0
43458	17	corolla spur	A collective organ part structure (PO:0025269) that is a slender, hollow extension of a corolla and has as parts segments of two more fused petals.	98420	0	0
43388	17	septate libriform fiber cell	A libriform fiber cell (PO:0004520) that has as parts one or more thin internal partitions or septa.	98329	0	0
1421	12	scRNA_gene	\N	1931	0	0
42569	17	mestome sheath	The inner endodermal sheath of a two layered bundle sheath. The cells are smaller in diameter compared to those in outer wall (starch sheath). The cell walls are thick and contain suberized lamellae. They are analogous to endodermis.	97117	0	0
590	12	U3_five_prime_LTR_region	\N	807	0	0
55360	12	silent_mating_type_cassette_array	A gene cassette array that corresponds to a silenced version of a mating type region.	3073678	0	0
42822	17	involucral bract	Equals inflorescence bract of an involucre, as in Asteraceae or Compositeae.	97480	0	0
55470	12	protein_stability_element	A polypeptide region that proves structure in a protein that affects the stability of the protein.	3073822	0	0
43100	17	seventh order inflorescence branch	An inflorescence branch (PO:0009081) arising from a sixth order inflorescence branch (PO:0025108).	97960	0	0
42783	17	gametophyte (obsolete PO:0009004)	OBSOLETE. A plant structure that arises through meiosis and may produce gametes by mitosis.	76124	1	0
55547	12	transcribed_unitary_pseudogene	A species specific unprocessed pseudogene without a parent gene, as it has an active orthologue in another species.	3073921	0	0
43202	17	leaf adaxial trichome	A leaf trichome that is part of a leaf adaxial epidermis.	98095	0	0
1375	12	retrogene	\N	1868	0	0
780	12	A_box	A variably distant linear promoter region recognized by TFIIIC, with consensus sequence TGGCnnAGTGG.	1030	0	0
42457	17	terminal inflorescence bud	A terminal reproductive bud develops into an inflorescence.	96969	0	0
1173	12	wobble_base_pair	A type of non-canonical base pairing, most commonly between G and U, which is important for the secondary structure of RNAs. It has similar thermodynamic stability to the Watson-Crick pairing. Wobble base pairs only have two hydrogen bonds. Other wobble base pair possibilities are I-A, I-U and I-C.	1504	0	0
1253	12	polypeptide_iron_ion_contact_site	A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with iron ions.	1650	0	0
355	12	RFLP_fragment	A DNA fragment used as a reagent to detect the polymorphic genomic loci by hybridizing against the genomic DNA digested with a given restriction enzyme.	456	0	0
537	12	RNA_6S	A small (184-nt in E. coli) RNA that forms a hairpin type structure. 6S RNA associates with RNA polymerase in a highly specific manner. 6S RNA represses expression from a sigma70-dependent promoter during stationary phase.	696	0	0
818	12	repeat_region	A region of sequence containing one or more repeat units.	1084	0	0
42247	17	anther wall	A microsporangium wall (PO:0025307) that is part of an anther (PO:0009066).	96657	0	0
1227	12	membrane_structure	Arrangement of the polypeptide with respect to the lipid bilayer.	1591	0	0
42506	17	plant callus	A portion of plant tissue (PO:0009007) that consists of mass of undifferentiated plant cells (PO:0009002).	97037	0	0
43141	17	sepal tip	A phyllome tip that is part of a sepal apex.	98020	0	0
43276	17	seedling coleoptile	A coleoptile (PO:0020033) that is part of a whole plant (PO:0000003) in the seedling development stage (PO:0007131).	98179	0	0
42379	17	obsolete lateral root elongation zone (obsolete PO:0003014)	OBSOLETE. The portion of the lateral root located behind the zone of cell division that includes small, densely cytoplasmic cells that are dividing and expanding in size.	96872	1	0
841	12	non_canonical_start_codon	A start codon that is not the usual AUG sequence.	1111	0	0
1650	12	telomeric_repeat	The telomeric repeat is a repeat region, part of the chromosome, which in yeast, is a G-rich terminal sequence of the form (TG(1-3))n or more precisely ((TG)(1-6)TG(2-3))n.	2300	0	0
1239	12	non_adjacent_residues	Indicates that two consecutive residues in a fragment sequence are not consecutive in the full-length protein and that there are a number of unsequenced residues between them.	1619	0	0
506	12	splice_enhancer	Region of a transcript that regulates splicing.	653	0	0
2108	12	central_hydrophobic_region_of_signal_peptide	The central, hydrophobic region of the signal peptide (approx 7-15 aa).	2896	0	0
42647	17	obsolete plant structure (obsolete PO:0006300)	OBSOLETE. The instances of this parent term are those anatomical terms which have become obsolete.	97213	1	0
42541	17	exodermis	The sub-epidermal layer or layers of cells of the root similar in structure and cytochemical characteristics of the endodermis, the outermost layer or layers of cells of the cortex.	97076	0	0
43527	17	vascular leaf meristematic apical cell	A leaf meristematic apical cell that is part of the leaf apex of a vascular leaf.	98515	0	0
1750	12	3D_polypeptide_structure_variant	A sequence variant that changes the resulting polypeptide structure.	2424	0	0
1991	12	CuRE	A promoter element bound by copper ion-sensing transcription factors such as S. cerevisiae Mac1p or S. pombe Cuf1; the consensus sequence is HTHNNGCTGD (more specifically TTTGCKCR in budding yeast).	2724	0	0
1865	12	H2B_ubiquitination_site	A histone modification site on H2B where ubiquitin may be added.	2556	0	0
1157	12	BAC_end	A region of sequence from the end of a BAC clone that may provide a highly specific marker.	1480	0	0
1929	12	de_novo_variant	\N	2627	0	0
230	12	overlapping	An attribute describing a gene that has a sequence that overlaps the sequence of another gene.	290	0	0
42600	17	sepal parenchyma	A portion of parenchyma tissue that is part of a sepal.	97156	0	0
59216	17	native plant cell	A plant cell (PO:0009002) that is either part of a multicellular whole plant (PO:0000003) 'in vivo' or a unicellular organism 'in natura' (i.e. part of a natural environment).	3080724	0	0
1915	12	common_variant	\N	2613	0	0
2277	12	alternatively_spliced_transcript_encoding_greater_than_1_polypeptide_different_start_codon_different_stop_codon_coding_regions_non_overlapping (obsolete SO:1001244)	\N	3089	1	0
1886	12	H4K_acylation_region	A region of the H4 histone whereby multiple lysines are acylated.	2579	0	0
1462	12	N6_methyl_N6_threonylcarbamoyladenosine	N6_methyl_N6_threonylcarbamoyladenosine is a modified adenosine.	2002	0	0
241	12	dicistronic_transcript	A transcript that is dicistronic.	302	0	0
42882	17	plant ovary placenta	A portion of placenta tissue (PO:0025078) which is part of a plant ovary (PO:0009072), and to which plant ovary ovules (PO:0025490) are attached.	97625	0	0
2204	12	sequence_variant_increasing_level_of_translation_product (obsolete SO:1000104)	\N	3012	1	0
2169	12	sequence_variant_causing_plus_1_frameshift_mutation (obsolete SO:1000066)	A mutation causing a disruption of the translational reading frame, due to the insertion of a nucleotide.	2975	1	0
42558	17	male archesporial cell	An archesporial cell (PO:0030056) that is part of a microsporangium (PO:0025202) and divides to gives rise to a microsporocyte (PO:0020047).	97105	0	0
2087	12	gene_cassette	A gene that can be substituted for a related gene at a different site in the genome.	2872	0	0
190	12	WC_base_pair	The canonical base pair, where two bases interact via WC edges, with glycosidic bonds oriented cis relative to the axis of orientation.	232	0	0
43198	17	tepal vascular system	A phyllome vascular system (PO:0025206) that includes the totality of the portions of vascular tissue in their specific arrangement in a tepal (PO:0009033).	98091	0	0
2045	12	dg_repeat	A repeat region which is part of the regional centromere outer repeat region.	2811	0	0
1176	12	epitope	A binding site that, in the molecule, interacts selectively and non-covalently with antibodies, B cells or T cells.	1511	0	0
43115	17	multicellular plant gametangium	A plant organ (PO:0009008) that produces one or more gametes (PO:0025006) and participates in the gametophyte development stage (PO:0028003).	97979	0	0
1821	12	minus_12_signal	A conserved region about 12-bp upstream of the start point of bacterial transcription units, involved with sigma factor 54.	2504	0	0
43114	17	embryo sac egg cell	A plant egg cell (PO:0020094) that is part of an egg apparatus (PO:0020096).	97978	0	0
43216	17	bract axil	An axil that is the space between a shoot axis and a bract that branches from the shoot axis.	98109	0	0
427	12	lysyl_tRNA	A tRNA sequence that has a lysine anticodon, and a 3' lysine binding region.	543	0	0
2285	12	internal_Shine_Dalgarno_sequence	A Shine-Dalgarno sequence that stimulates recoding through interactions with the anti-Shine-Dalgarno in the RNA of small ribosomal subunits of translating ribosomes. The signal is only operative in Bacteria.	3097	0	0
465	12	clip	Part of the primary transcript that is clipped off during processing.	597	0	0
43595	17	rhizoid meristematic apical cell	A gametophyte meristematic apical cell that is part of a rhizoid.	98626	0	0
42716	17	rachilla of sessile spikelet of tassel	The axis of the tassel sessile spikelet, above the glumes.	97297	0	0
59190	17	utricle capsule fruit	A circumscissile capsule fruit (PO:0030096) which at maturity contains one seed (PO:0009010) that is not attached to a pericarp (PO:0009084).	3080682	0	0
43569	17	epiphragm	A portion of parenchyma tissue that forms a circular membrane extending from a spore capsule columella and attached to the ends of the peristome teeth that covers a spore capsule mouth.	98582	0	0
42954	17	obsolete megagametophyte (obsolete PO:0020092)	OBSOLETE. A gametophyte that produces female gametes.	97753	1	0
1444	12	lysidine	Lysidine is a modified cytidine.	1965	0	0
42891	17	nexine (obsolete PO:0020011)	OBSOLETE. The inner, non-sculptured part of the exine which lies below the sexine.	97651	1	0
488	12	SAGE_tag	A short diagnostic sequence tag, serial analysis of gene expression (SAGE), that allows the quantitative and simultaneous analysis of a large number of transcripts.	627	0	0
43480	17	bundle sheath cell	A ground tissue cell (PO:0000076) that is part of a bundle sheath (PO:0006023).	98452	0	0
43244	17	eighth order infructescence branch	An infructescence branch (PO:0025243) arising from a seventh order infructescence branch (PO:0025253).	98141	0	0
43445	17	plant ovary ovule	A plant ovule (PO:0020006) that is part of a plant ovary (PO:0009072).	98397	0	0
1468	12	N6_N6_2_prime_O_trimethyladenosine	N6_N6_2prime_O_trimethyladenosine is a modified adenosine.	2014	0	0
55562	12	HAS_QUALITY	\N	3073936	0	1
55312	12	sORF	An open reading frame that encodes a peptide of less than 100 amino acids.	3073607	0	0
42321	17	ray initial cell	A cambial initial cell (PO:0000295) that gives rise to ray cells of the secondary xylem (PO:0005848) and secondary phloem (PO:0005043).	96772	0	0
43138	17	sepal base	A phyllome base that is part of a sepal.	98017	0	0
42417	17	included vascular cambium	Cambium occurring within xylem.	96921	0	0
1071	12	asx_turn	A motif of three consecutive residues and one H-bond in which: residue(i) is Aspartate or Asparagine (Asx), the side-chain O of residue(i) is H-bonded to the main-chain NH of residue(i+2).	1384	0	0
1528	12	one_methyl_three_three_amino_three_carboxypropyl_pseudouridine	1_methyl_3_3_amino_3_carboxypropyl_pseudouridine is a modified uridine base feature.	2134	0	0
42846	17	anther wall tapetum	A microsporangium tapetum (PO:0025314) that is part of an anther wall (PO:0000002).	97566	0	0
42922	17	simple leaf	A leaf in which the lamina is undivided.	97708	0	0
43250	17	shoot axis procambium	A portion of shoot procambium that is part of a shoot apical meristem and gives rise to the primary vascular tissue of a shoot axis.	98147	0	0
1365	12	three_prime_EST	An EST read from the 3' end of a transcript. They are more likely to fall within non-coding, or untranslated regions(UTRs).	1854	0	0
1134	12	cryptic	A feature_attribute describing a feature that is not manifest under normal conditions.	1453	0	0
261	12	proviral_gene	A gene from proviral sequence.	324	0	0
1822	12	minus_24_signal	A conserved region about 12-bp upstream of the start point of bacterial transcription units, involved with sigma factor 54.	2506	0	0
683	12	V_VDJ_J_cluster	Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one VDJ-gene and one J-gene.	906	0	0
2138	12	chromosomal_inversion	An interchromosomal mutation where a region of the chromosome is inverted with respect to wild type.	2930	0	0
2072	12	ARIA	A non-coding RNA transcript, derived from the transcription of the telomere. These  transcripts consist of C rich repeats.	2854	0	0
1191	12	chloroplast_DNA	\N	1534	0	0
43313	17	banner petal	A petal (PO:0009032) that is the top-most petal of a papilionaceous corolla (PO:0009059).	98225	0	0
1882	12	H3K4_methylation_site	A kind of histone modification, whereby the 4th residue (a lysine), from the start of the H3 protein is methylated.	2575	0	0
1031	12	trans_spliced_mRNA	An mRNA that is trans-spliced.	1342	0	0
1861	12	H4K20_monomethylation_site	A kind of histone modification site, whereby the 20th residue (a lysine), from the start of the H34histone protein is mono-methylated.	2551	0	0
822	12	intron_attribute (obsolete SO:0000661)	\N	1089	1	0
2152	12	pericentric_inversion	A chromosomal inversion that includes the centromere.	2955	0	0
43161	17	root prickle	A prickle (PO:0025169) that is part of a root (PO:0009005)	98044	0	0
369	12	simple_sequence_length_variation	\N	476	0	0
59206	17	stem cortex	A portion of shoot axis cortex (PO:0000223) that is part of a stem (PO:0009047).	3080707	0	0
42872	17	tassel inflorescence branch meristem	An inflorescence branch meristem (PO:0009105) that gives rise to the long lateral tassel branch (PO:0009101), short tassel branch (PO:0009102), and tassel spikelets (PO:0006309) in a tassel inflorescence (PO:0020126).	97612	0	0
1544	12	modified_L_aspartic_acid	A post translationally modified aspartic acid amino acid feature.	2163	0	0
1660	12	variant_genome	A collection of sequences (often chromosomes) of an individual.	2315	0	0
700	12	DJ_C_cluster	Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one DJ-gene and one C-gene.	923	0	0
55505	12	shRNA_primary_transcript	A primary transcript encoding an shRNA.	3073865	0	0
496	12	nc_conserved_region	Non-coding region of sequence similarity by descent from a common ancestor.	638	0	0
255	12	chromoplast_gene	A gene from chromoplast_sequence.	318	0	0
43212	17	tepal stomatal complex	A phyllome stomatal complex that is part of a tepal (PO:0009033).	98105	0	0
1220	12	propeptide	Part of a peptide chain which is cleaved off during the formation of the mature protein.	1574	0	0
763	12	guide_RNA	A short 3'-uridylated RNA that can form a duplex (except for its post-transcriptionally added oligo_U tail (SO:0000609)) with a stretch of mature edited mRNA.	1006	0	0
1317	12	DMv2_motif	A sequence element characteristic of some RNA polymerase II promoters, usually located between -60 and -45 relative to the TSS. Consensus sequence is MKSYGGCARCGSYSS. Tends to co-occur with DMv3 (SO:0001160). Tends to not occur with DPE motif (SO:0000015) or MTE (SO:0001162).	1779	0	0
43238	17	pseudostem	A collective organ part structure that forms a cylindrical false stem composed concentric leaf sheaths.	98134	0	0
42523	17	cork cambium	A cambium (PO:0005597) that is part of a periderm (PO:0005046) and produces phellem (PO:0004003) and phelloderm (PO:0005050).	97056	0	0
1709	12	decreased_translational_product_level	A sequence variant which decreases the translational product level with respect to a reference sequence.	2368	0	0
43086	17	root parenchyma	A portion of parenchyma tissue (PO:0005421) that is part of a root (PO:0009005).	97945	0	0
1205	12	IRRinv_site	Component of the inversion site located at the right of a region susceptible to site-specific inversion.	1555	0	0
1101	12	attP_site	An integration/excision site of a phage chromosome at which a recombinase acts to insert the phage DNA at a cognate integration/excision site on a bacterial chromosome.	1418	0	0
2158	12	sequence_variant_causing_initiator_codon_change_in_transcript (obsolete SO:1000055)	The DNA mutation changes, usually destroys, the first coding triplet of a gene. Usually prevents translation although another initiator codon may be used.	2963	1	0
42618	17	accessory transfusion tissue (obsolete PO:0006086)	OBSOLETE. The accessory tissue extending laterally into the mesophyll rather than remaining associated with the vascular bundles.	97177	1	0
43030	17	leaf	A phyllome (PO:0006001) that is not associated with a reproductive structure.	97862	0	0
42275	17	root hair tip (obsolete PO:0000029)	OBSOLETE. Tip portion of an outgrowth of a root epidermal cell.	61175	1	0
1054	12	silenced_by_DNA_methylation	An attribute describing an epigenetic process where a gene is inactivated by DNA methylation, resulting in repression of transcription.	1366	0	0
1573	12	transcribed_fragment	An experimental region, defined by a tiling array experiment to be transcribed at some level.	2212	0	0
1964	12	inframe	An attribute describing a sequence that contains a mutation involving the deletion or insertion of one or more bases, where this number is divisible by 3.	2682	0	0
1236	12	coiled_coil	A coiled coil is a structural motif in proteins, in which alpha-helices are coiled together like the strands of a rope.	1612	0	0
43064	17	shoot axis tuber axillary bud meristem	An axillary bud meristem (PO:0000232) that is part of a shoot axis tuber (PO:0004543).	97911	0	0
1021	12	capped_mRNA	An mRNA that is capped.	1331	0	0
43201	17	leaf abaxial trichome	A leaf trichome that is part of a leaf abaxial epidermis.	98094	0	0
602	12	ss_oligo	A single stranded oligonucleotide.	821	0	0
1942	12	regional_centromere	A regional centromere is a large modular centromere found in fission yeast and higher eukaryotes. It consist of a central core region flanked by inverted inner and outer repeat regions.	2647	0	0
42474	17	non-articulated laticifer (obsolete PO:0005007)	OBSOLETE. A structure consisting of long multinucleate tubes in which latex is found, having no cross walls.	96992	1	0
55331	12	miR_encoding_lncRNA_primary_transcript	A lncRNA primary transcript that also encodes pre-miR sequence that is processed to form functionally active miRNA.	3073642	0	0
1553	12	modified_L_histidine	A post translationally modified histidie amino acid feature.	2181	0	0
1775	12	3_prime_UTR_variant	A UTR variant of the 3' UTR.	2449	0	0
1474	12	galactosyl_queuosine	Galactosyl_queuosine is a modified 7-deazoguanosine.	2026	0	0
2294	12	four_bp_start_codon	A non-canonical start codon with 4 base pairs.	3109	0	0
43087	17	carpel epidermis	A portion of phyllome epidermis (PO:0025157) that is part of a carpel (PO:0009030).	97946	0	0
732	12	miRNA_encoding	\N	963	0	0
458	12	origin_of_replication	The origin of replication; starting site for duplication of a nucleic acid molecule to give two identical copies.	587	0	0
43051	17	tuber cortex	A portion of cortex (PO:0005708) that is part of a tuber storage parenchyma (PO:0025036).	97892	0	0
1900	12	SL7_acceptor_site	A SL2_acceptor_site which appends the SL7 RNA leader sequence to the 5' end of an mRNA. SL7 acceptor sites occur in genes in internal segments of polycistronic transcripts.	2597	0	0
55321	12	3_prime_UTR_exon_variant	A UTR variant of exonic sequence of the 3' UTR.	3073625	0	0
1186	12	diplotype	A diplotype is a pair of haplotypes from a given individual. It is a genotype where the phase is known.	1528	0	0
1154	12	predicted_gene	\N	1476	0	0
1765	12	elongated_in_frame_polypeptide_N_terminal_elongation	A sequence variant with in the CDS that causes in frame elongation of the resulting polypeptide sequence at the N terminus.	2439	0	0
586	12	five_prime_LTR	\N	803	0	0
1331	12	CCA_tail	Base sequence at the 3' end of a tRNA. The 3'-hydroxyl group on the terminal adenosine is the attachment point for the amino acid.	1798	0	0
936	12	adaptive_island	An adaptive island is a genomic island that provides an adaptive advantage to the host.	1234	0	0
43554	17	archegonium neck	A cardinal organ part (PO:0025001) that is the elongated, apical part of an archegonium (PO:0025126).	98556	0	0
1274	12	pi_helix	The pi helix has 4.1 residues per turn and a translation of 1.15  (=0.115 nm) along the helical axis. The N-H group of an amino acid forms a hydrogen bond with the C=O group of the amino acid five residues earlier.	1696	0	0
42737	17	nucellar epidermis	A portion of plant tissue that is the morphologically distinct outer layer of the nucellus.	97322	0	0
42721	17	ear peduncle	A peduncle of a maize ear, below the lowest ear node.	97302	0	0
43005	17	leaf lamina margin	A leaf margin (PO:0020128) that is part of a leaf lamina (PO:0020039).	97826	0	0
1030	12	polyadenylated_mRNA	An mRNA that is polyadenylated.	1341	0	0
43394	17	vascular leaf anlagen	A phyllome anlagen (PO:0025430) that will give rise to a vascular leaf primordium (PO:0000017) and is part of a peripheral zone (PO:0000225) of a shoot apical meristem (PO:0020148).	98337	0	0
55400	12	splice_donor_region_variant	A sequence variant that falls in the region between the 3rd and 6th base after splice junction (5' end of intron).	3073736	0	0
1745	12	plus_1_frameshift_variant	A sequence variant which causes a disruption of the translational reading frame, by shifting one base backward.	2419	0	0
288	12	transcriptionally_repressed	A repressor molecule is required for transcription to stop.	358	0	0
2125	12	transversion	Change of a pyrimidine nucleotide, C or T, into a purine nucleotide, A or G, or vice versa.	2915	0	0
43587	17	costa	A portion of plant tissue (PO:0009007) that is a single or double strand in the center of a non-vascular leaf (PO:0025075) and has as part hydrome (PO:0030047) or leptome (PO:0030048).	98614	0	0
42741	17	adaxial nucellar projection	A portion of plant tissue (PO:0009007) that is the adaxial/upper portion of the nucellus (PO:0020020) overlying vascular strands in a caryopsis fruit (PO:0030104).	97327	0	0
1231	12	intramembrane_polypeptide_region	Polypeptide region present in the lipid bilayer.	1599	0	0
2038	12	regulatory_region_amplification	A feature amplification of a region containing a regulatory region.	2804	0	0
42884	17	plant ovule	A plant organ (PO:0009008) that has as parts a nucellus (PO:0020020) in which a female gametophyte (PO:0025279) is located, one or two integuments (PO:0020021), and a funicle (PO:0020006).	97631	0	0
42536	17	aerenchyma	A portion of parenchyma tissue containing particularly large intercellular spaces of schizogenous or lysigenous origin.	39238	0	0
1483	12	N2_N2_dimethylguanosine	N2_N2_dimethylguanosine is a modified guanosine base feature.	2044	0	0
42903	17	outer integument	An integument (PO:0020021) which is one of the two layers of tissue that usually cover the ovule, contiguous to the inner integument and usually involved in forming the micropyle at the apex.	97670	0	0
42612	17	secondary vascular tissue (obsolete PO:0006080)	OBSOLETE. The vascular tissue derived from the vascular cambium because of the secondary growth.	97170	1	0
43153	17	multicellular trichome	A portion of plant tissue (PO:0009007) that forms a non-sclerified outgrowth from the epidermis (PO:0005679).	98035	0	0
864	12	experimental_result_region	A region of sequence implicated in an experimental result.	1137	0	0
43134	17	tepal apex	A phyllome apex PO:0025139) that is part of a tepal (PO:0009033).	98013	0	0
1315	12	DMv5_motif	A sequence element characteristic of some RNA polymerase II promoters, usually located between -50 and -10 relative to the TSS. Consensus sequence is KTYRGTATWTTT. Tends to co-occur with DMv4 (SO:0001157) . Tends to not occur with DPE motif (SO:0000015) or MTE (SO:0001162).	1777	0	0
2148	12	compound_chromosome	A chromosome structure variant where a monocentric element is caused by the fusion of two chromosome arms.	2947	0	0
42767	17	seedling (obsolete PO:0008037)	OBSOLETE. A young plant derived from a newly germinated seed.	90677	1	0
403	12	internal_UTR	A UTR bordered by the terminal and initial codons of two CDSs in a polycistronic transcript. Every UTR is either 5', 3' or internal.	514	0	0
1035	12	bound_by_nucleic_acid	An attribute describing a sequence that is bound by a nucleic acid.	1346	0	0
55433	12	gain_of_function_variant	A sequence variant whereby new or enhanced function is conferred on the gene product.	3073781	0	0
1815	12	DCE_SIII	A sub element of the DCE core promoter element with consensus sequence AGC.	2498	0	0
1796	12	DArT_marker	A genetic marker, discovered using Diversity Arrays Technology (DArT) technology.	2475	0	0
682	12	V_VDJ_cluster	Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene and one VDJ-gene.	905	0	0
2192	12	sequence_variant_causing_complex_change_of_translational_product (obsolete SO:1000092)	Any sequence variant effect that is known at nucleotide level but cannot be explained by using other key terms.	3000	1	0
42462	17	paraclade cortex	A portion of cortex (PO:0005708) that is part of an inflorescence branch (PO:0009081), also called a paraclade.	96974	0	0
1835	12	restriction_enzyme_recognition_site	The nucleotide region (usually a palindrome) that is recognized by a restriction enzyme. This may or may not be equal to the restriction enzyme binding site.	2521	0	0
43034	17	subterranean tuber storage parenchyma	A portion of tuber storage parenchyma (PO:0025035) that is part of a subterranean tuber (PO:0004547).	97869	0	0
43258	17	fruit septum	A septum that divides a cavity or mass of tissue in a fruit and develops from an ovary septum.	98157	0	0
1269	12	parallel_beta_strand	A peptide region which hydrogen bonded to another region of peptide running in the oposite direction (both running N-terminal to C-terminal). This orientation is slightly less stable because it introduces nonplanarity in the inter-strand hydrogen bonding pattern. Hydrogen bonding occurs between every other C=O from one strand to every other N-H on the adjacent strand. In this case, if two atoms C-alpha (i)and C-alpha (j) are adjacent in two hydrogen-bonded beta strands, then they do not hydrogen bond to each other; rather, one residue forms hydrogen bonds to the residues that flank the other (but not vice versa). For example, residue i may form hydrogen bonds to residues j - 1 and j + 1; this is known as a wide pair of hydrogen bonds. By contrast, residue j may hydrogen-bond to different residues altogether, or to none at all. The dihedral angles (phi, psi) are about (-120 degrees, 115 degrees) in parallel sheets.	1685	0	0
1199	12	viral_sequence	The region of nucleotide sequence of a virus, a submicroscopic particle that replicates by infecting a host cell.	1546	0	0
445	12	engineered_foreign_transposable_element_gene	A transposable_element that is engineered and foreign.	568	0	0
2230	12	hetero_compound_chromosome	A compound chromosome whereby two arms from different chromosomes are connected through the centromere of one of them.	3041	0	0
1863	12	ISRE	An ISRE is a transcriptional cis regulatory region, containing the consensus region: YAGTTTC(A/T)YTTTYCC, responsible for increased transcription via interferon binding.	2553	0	0
42732	17	first order ear inflorescence axis	A first order inflorescence axis (PO:0025104) that is the primary axis of an ear inflorescence (PO:0020136).	97314	0	0
1036	12	alternatively_spliced	An attribute describing a situation where a gene may encode for more than 1 transcript.	1347	0	0
912	12	proviral_location	\N	1202	0	0
1680	12	base_call_error_correction	A region of sequence where the final nucleotide assignment is different from that given by the base caller due to an improvement that replaces a mistake.	2335	0	0
43396	17	root anlagen	A portion of meristem tissue (PO:0009013) that is committed to the development of a root primordium (PO:0005029).	98341	0	0
2034	12	regulatory_region_fusion	A feature fusion where the deletion brings together regulatory regions.	2800	0	0
2064	12	CAGE_cluster	A kind of transcription_initiation_cluster defined by the clustering of CAGE tags on a sequence region.	2841	0	0
123	12	gained	\N	149	0	1
42580	17	inner integument epidermis	A portion of integument epidermis (PO:0006043) of the inner integument (PO:0020022) in a plant ovule (PO:0020003).	97132	0	0
42794	17	ground tissue (obsolete PO:0009016)	OBSOLETE. Tissues other than the vascular tissues, epidermis and the periderm.	97412	1	0
1862	12	H2BK5_monomethylation_site	A kind of histone modification site, whereby the 5th residue (a lysine), from the start of the H2B protein is methylated.	2552	0	0
1422	12	snoRNA_gene	\N	1932	0	0
137	12	member_of	\N	163	0	1
43071	17	non-vascular leaf	A leaf (PO:0025034) in a non-vascular plant.	97920	0	0
2086	12	gene_subarray	A subarray is, by defintition, a member of a gene array (SO:0005851); the members of a subarray may differ substantially in sequence, but are closely related in function.	2871	0	0
42636	17	separation layer	A portion of plant tissue (PO:0009007) that is part of an abscission zone (PO:0000146) and contains cells that develop an abnormal wall chemistry and swelling resulting in their easily being pulled apart along the pectin-rich middle lamella (GO:0009519).	97201	0	0
43120	17	petiole lamina	A lamina (PO:0025060) that is part of a petiole (PO:0020038).	97989	0	0
43246	17	lateral root elongation zone	A root elongation zone that is part of a lateral root tip.	98143	0	0
759	12	edited_by_C_insertion_and_dinucleotide_insertion (obsolete SO:0000598)	\N	1002	1	0
43572	17	alar cell	A native plant cell (PO:0025606) located at the base of a non-vascular leaf (PO:0025075) adjacent to where the leaf attaches to the stem (PO:0009047).	98588	0	0
55492	12	miR_encoding_Y_RNA_primary_transcript	A Y-RNA primary transcript that also encodes pre-miR sequence that is processed to form functionally active miRNA.	3073851	0	0
954	12	engineered_DNA (obsolete SO:0000793)	\N	1252	1	0
1754	12	polypeptide_sequence_variant	A sequence variant with in the CDS that causes a change in the resulting polypeptide sequence.	2428	0	0
55517	12	moR	A non-coding transcript encoded by sequences adjacent to the ends of the 5' and 3' miR-encoding sequences that abut the loop in precursor miRNA.	3073881	0	0
282	12	protein_coding_primary_transcript	A primary transcript that, at least in part, encodes one or more proteins.	351	0	0
55554	12	vertebrate_immune_system_pseudogene	A pseudogene derived from a vertebrate immune system gene.	3073928	0	0
1092	12	intermediate	An attribute to describe a feature between stages of processing.	1408	0	0
42521	17	cambium	A lateral meristem (PO:0020145) that has as part a single layer of cambial initial cells (PO:0000295) and their derivatives, arranged orderly in radial files.	97055	0	0
1576	12	splice_junction	The boundary between an intron and an exon.	2215	0	0
42329	17	micropylar endosperm	A portion of plant tissue (PO:0009007) that is the region of the endosperm closest to the micropyle of the seed.	96787	0	0
59180	17	pistillate inflorescence	An inflorescence (PO:0009049) that includes as part only pistillate flowers (PO:0025599).	3080664	0	0
43465	17	leaf lamina crena	A phyllome lamina crena (PO:0025516) that is a rounded projection on a leaf margin (PO:0020128) for which the corresponding leaf sinus (PO:0025384) extends less than one quarter of the distance to the center of the long axis of the leaf lamina (PO:0020039).	98429	0	0
851	12	gene_with_polycistronic_transcript	A gene that encodes a polycistronic transcript.	1122	0	0
808	12	miRNA_primary_transcript	A primary transcript encoding a micro RNA.	1068	0	0
1099	12	recombinationally_rearranged	\N	1416	0	0
43358	17	free ending veinlet	A leaf lamina vein (PO:0020138) above the first order that is connected to another vein only at one end.	98290	0	0
447	12	foreign_gene	A gene that is foreign.	571	0	0
42593	17	filament epidermis	A portion of stamen epidermis that is part of a filament.	97145	0	0
42252	17	plant protoplast	A cultured plant cell from which the entire plant cell wall has been removed.	96670	0	0
42674	17	gynophore	A shoot axis that is an elongation of the floral axis that supports the carpels.	97244	0	0
42806	17	stamen	A microsporophyll bearing one or more microsporangia.	97427	0	0
43340	17	leaflet tendril	A leaflet that is slender and coiling and lacks a lamina.	98265	0	0
2242	12	uninverted_insertional_duplication	An insertional duplication where a copy of the segment between the first two breaks listed is inserted at the third break; the insertion is in cytologically the same orientation as its flanking segments.	3054	0	0
2302	12	three_prime_stem_loop_structure	A recoding stimulatory region, the stem-loop secondary structural element is downstream of the redefined region.	3120	0	0
309	12	exon	A region of the transcript sequence within a gene which is not removed from the primary RNA transcript by RNA splicing.	383	0	0
42508	17	shoot axis hypodermis	A portion of shoot axis hypodermis (PO:0005057) that is part of a stem cortex (PO:0000223).	97039	0	0
43483	17	microsporangium tapetum cell	A tapetum cell (PO:0025543) that is part of a microsporangium tapetum (PO:0025314).	98457	0	0
441	12	transcript_bound_by_protein	A transcript that is bound by a protein.	564	0	0
1956	12	signal_anchor	A signal sequence that is not cleaved from the polypeptide. Anchors a Type II membrane protein to the membrane.	2672	0	0
1057	12	epigenetically_modified_gene	A gene that is epigenetically modified.	1369	0	0
1527	12	three_methyluridine	3_methyluridine is a modified uridine base feature.	2132	0	0
879	12	blocked_reading_frame	A reading_frame that is interrupted by one or more stop codons; usually identified through intergenomic sequence comparisons.	1158	0	0
42415	17	septate fiber cell	A plant fiber cell (PO:0025407) with thin transverse walls (septa), which are formed when mitosis occurs within the cell after development of a secondary cell wall (GO:0009531).	96919	0	0
1200	12	phage_sequence	The nucleotide sequence of a virus that infects bacteria.	1547	0	0
1696	12	increased_transcript_level_variant	A sequence variant that increases the level of mature, spliced and processed RNA with respect to a reference sequence.	2355	0	0
1281	12	schellmann_loop_six	Common Type: A motif of six consecutive residues that contains two H-bonds in which: the main-chain CO of residue(i) is H-bonded to the main-chain NH of residue(i+5) the main-chain CO of residue(i+1) is H-bonded to the main-chain NH of residue(i+4).	1712	0	0
1730	12	transcript_variant	A sequence variant that changes the structure of the transcript.	2390	0	0
686	12	V_VJ_J_cluster	Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one VJ-gene and one J-gene.	909	0	0
2080	12	exon_of_single_exon_gene	An exon that is the only exon in a gene.	2864	0	0
43477	17	plant sap	A portion of plant substance (PO:0025161) that is an aqueous solution that can be transported through the apoplast (GO:0048046) or symplast (GO:0055044).	98448	0	0
882	12	gene_with_dicistronic_primary_transcript	A gene that encodes a dicistronic primary transcript.	1162	0	0
1548	12	modified_L_tryptophan	A post translationally modified tryptophan amino acid feature.	2171	0	0
2247	12	uninverted_interchromosomal_transposition	An interchromosomal transition where the segment between the first two breaks listed is removed and inserted at the third break; the insertion is in cytologically the same orientation as its flanking segments.	3059	0	0
2217	12	sequence_variant_causing_inactive_ligand_binding_site (obsolete SO:1000119)	\N	3027	1	0
42749	17	transition vascular leaf	A vascular leaf that is part of an heteroblastic series, and is characterized by anatomical features that are intermediate between juvenile and adult leaves.	97335	0	0
43106	17	fourth order infructescence branch	An infructescence branch (PO:0025243) arising from a third order infructescence branch (PO:0025114).	97968	0	0
919	12	double_stranded_cDNA	\N	1211	0	0
358	12	five_prime_coding_exon_coding_region	The sequence of the five_prime_coding_exon that codes for protein.	461	0	0
43356	17	epicuticular wax	A portion of cuticular wax (PO:0025386) that forms crystalloids or a smooth film on the exterior of a plant cuticle (PO:0000022).	98287	0	0
43111	17	antheridium sperm cell	A plant sperm cell (PO:0000084) which develops from a spermatogenous cell (PO:0025525) and is located in an antheridium (PO:0025125).	97974	0	0
55431	12	TCS_element	A TCS element is a (yeast) transcription factor binding site, bound by the TEA DNA binding domain (DBD) of transcription factors. The consensus site is CATTCC or CATTCT.	3073777	0	0
43367	17	leaf substomatal cavity	A phyllome substomatal cavity that is part of a leaf mesophyll.	98305	0	0
1705	12	increased_transcription_rate_variant	A sequence variant that increases the rate of transcription with respect to a reference sequence.	2364	0	0
1630	12	natural_plasmid	A plasmid that occurs naturally.	2274	0	0
938	12	pseudogenic_rRNA	A non functional descendent of an rRNA.	1236	0	0
1308	12	beta_turn_type_six_a_one	\N	1767	0	0
1066	12	supported_by_sequence_similarity	An attribute to describe a feature that has been predicted using sequence similarity techniques.	1379	0	0
43146	17	bract base	A phyllome base (PO:0025140) that is part of a bract (PO:0009055).	98026	0	0
2088	12	gene_cassette_array	An array of non-functional genes whose members, when captured by recombination form functional genes.	2875	0	0
42449	17	fruit dehiscence zone	A dehiscence zone (PO:0025092) that is part of a fruit.	96961	0	0
1699	12	polyadenylation_variant	A sequence variant that changes polyadenylation with respect to a reference sequence.	2358	0	0
1222	12	active_peptide	Active peptides are proteins which are biologically active, released from a precursor molecule.	1579	0	0
43519	17	protonema	A portion of chlorenchyma tissue that develops directly from a spore and grows by division of an apical cell to form filaments that are one cell wide and dichotomously branching.	98506	0	0
42394	17	epithelium cell (obsolete PO:0004004)	OBSOLETE. A compact layer of cells, often secretory in function, covering a free surface or lining a cavity.	96891	1	0
1912	12	unique_variant	A physical quality which inheres to the variant by virtue of the number instances of the variant within a population.	2610	0	0
1196	12	extrachromosomal_mobile_genetic_element	An MGE that is not integrated into the host chromosome.	1543	0	0
43326	17	phyllome lamina vein	A vascular bundle (PO:0005020) that is part of a phyllome lamina (PO:0025396).	98243	0	0
814	12	rRNA_28S	A component of the large ribosomal subunit.	1078	0	0
43028	17	hydroid	A native plant cell (PO:0025606) that is dead at maturity, lacks specialized wall thickenings or lignin, and has tapered ends that are thin and partially hydrolyzed.	97857	0	0
42640	17	leaf aerenchyma	A portion of parenchyma tissue containing particularly large intercellular spaces in the leaf mesophyll.	97205	0	0
1598	12	serine	\N	2239	0	0
59162	17	pepo fruit	A berry fruit (PO:0030108) which develops from an inferior carpel (PO:0009030) and at maturity comprises a fleshy exocarp (PO:0009085), fleshy mesocarp (PO:0009087), and fleshy endocarp (PO:0009086), and has as a part a hard receptacle (PO:0009064) which surrounds, and is indistinct from, the exocarp (PO:0009085).	3080629	0	0
43403	17	shoot axis cambial zone	A cambial zone that is part of a shoot axis (PO:0025029).	98349	0	0
1806	12	nested_tandem_repeat	An NTR is a nested repeat of two distinct tandem motifs interspersed with each other.	2488	0	0
1514	12	five_carboxyhydroxymethyl_uridine_methyl_ester	5_carboxyhydroxymethyl_uridine_methyl_ester is a modified uridine base feature.	2106	0	0
42980	17	lateral root cap	A portion of root parenchyma tissue that is part of a root cap and is parallel to the sides of a root axis.	97796	0	0
1401	12	miRNA_loop	The loop of the hairpin loop formed by folding of the pre-miRNA.	1905	0	0
42477	17	anther septum	A septum (PO:0000030) that is part of an anther dehiscence zone (PO:0005011).	90056	0	0
55332	12	modified_adenine	A modified adenine DNA base feature.	3073643	0	0
42823	17	flower	A determinate reproductive shoot system (PO:0025082) that has as part at least one carpel (PO:0009030) or at least one stamen (PO:0009029) and does not contain any other determinate shoot system (PO:0009006) as a part.	97481	0	0
43407	17	primary xylem tracheary element	A tracheary element (PO:0000290) that is part of a primary xylem tissue (PO:0005849).	98353	0	0
42307	17	lateral root-cap epidermal initial cell	A root initial cell that produces lateral root-cap cells and root epidermis.	96751	0	0
55439	12	AUG_initiated_uORF	A uORF beginning with the canonical start codon AUG.	3073787	0	0
42574	17	root epidermis	A portion of epidermis (PO:0005679) that is part of a root (PO:0009005).	97123	0	0
42364	17	metaxylem	A portion of primary xylem (PO:0005849) tissue that has as part one or more metaxylem tracheary elements (PO:0025576) embedded in parenchyma (PO:0005421) tissue and may contain xylem fiber cells (PO:0000274).	96849	0	0
594	12	non_LTR_retrotransposon_polymeric_tract	A polymeric tract, such as poly(dA), within a non_LTR_retrotransposon.	811	0	0
43011	17	tepal margin	A phyllome margin (PO:0025018) that is part of a tepal (PO:0009033).	97834	0	0
1932	12	structural_alteration	\N	2631	0	0
1151	12	consensus	\N	1473	0	0
222	12	compound_chromosome_arm	\N	281	0	0
1102	12	attB_site	An integration/excision site of a bacterial chromosome at which a recombinase acts to insert foreign DNA containing a cognate integration/excision site.	1419	0	0
1952	12	destruction_box	A conserved polypeptide motif that can be recognized by both Fizzy/Cdc20- and FZR/Cdh1-activated anaphase-promoting complex/cyclosome (APC/C) and targets a protein for ubiquitination and subsequent degradation by the APC/C. The consensus sequence is RXXLXXXXN.	2660	0	0
1333	12	T_loop	Non-base-paired sequence of three nucleotide bases in tRNA. It has sequence T-Psi-C.	1801	0	0
55440	12	W_region	The leftmost segment of homology in the HML and MAT mating loci,  but not present in HMR.	3073790	0	0
43454	17	sepal epidermis giant cell	An epidermal pavement cell (PO:0000332) that is part of sepal epidermis (PO:0006040) and is approximately one fifth the length of a sepal.	98411	0	0
437	12	snoRNA	A snoRNA (small nucleolar RNA) is any one of a class of small RNAs that are associated with the eukaryotic nucleus as components of small nucleolar ribonucleoproteins. They participate in the processing or modifications of many RNAs, mostly ribosomal RNAs (rRNAs) though snoRNAs are also known to target other classes of RNA, including spliceosomal RNAs, tRNAs, and mRNAs via a stretch of sequence that is complementary to a sequence in the targeted RNA.	556	0	0
1246	12	covalent_binding_site (obsolete SO:0001090)	Binding involving a covalent bond.	1634	1	0
1488	12	peroxywybutosine	Peroxywybutosine is a modified guanosine base feature.	2054	0	0
42927	17	microsporocyte	A sporocyte (PO:0006204) that produces four haploid (1n) microspores (PO:0020048).	97713	0	0
55403	12	IG_V_pseudogene	A pseudogenic variable region which closely resembles a known functional imunoglobulin variable gene but in which the coding region has stop codons, frameshift mutations or a mutation that effects the initiation codon that rearranges at the DNA level and codes the variable region of  an immunoglobulin chain.	3073740	0	0
42874	17	ear meristem	The meristem which gives rise to the female inflorescence or ear in maize.	97614	0	0
43464	17	leaf lamina tooth	A phyllome lamina tooth (PO:0025515) that is an angular projection on a leaf margin (PO:0020128) for which the corresponding leaf sinus (PO:0025384) extends less than one quarter of the distance to the center of the long axis of the leaf lamina (PO:0020039).	98428	0	0
920	12	plasmid_clone (obsolete SO:0000759)	\N	1212	1	0
42798	17	meristem L1 layer	A portion of meristem tissue (PO:0009013) that is the outermost layer of a shoot apical meristem (PO:0020148) and gives rise to a shoot system epidermis (PO:0006035).	97417	0	0
42502	17	root periderm	A portion of periderm tissue (PO:0005046) that is part of a root (PO:0009005).	97031	0	0
42962	17	stomium	A plant anatomical space that is a slit in an anther lobe formed from when a dehiscence zone dehisces.	97766	0	0
55385	12	NSD_transcript	A transcript that contains a CDS but has no stop codon before the polyA site is reached.	3073719	0	0
2191	12	sequence_variant_causing_no_change_of_translational_product (obsolete SO:1000089)	The sequence variant at RNA level does not lead to any change in polypeptide.	2999	1	0
1023	12	exemplar	An attribute describing a sequence is representative of a class of similar sequences.	1333	0	0
43381	17	primary leaf vein	A leaf lamina vein (PO:0020138) that connects directly to a petiole vascular system (PO:0000052) or a shoot axis vascular system (PO:0000039).	98323	0	0
632	12	autoregulated	The gene product is involved in its own transcriptional regulation.	854	0	0
408	12	polyadenylated	A attribute describing the addition of a poly A tail to the 3' end of a mRNA molecule.	520	0	0
1943	12	regional_centromere_central_core	A conserved region within the central region of a modular centromere, where the kinetochore is formed.	2648	0	0
1148	12	class_I_RNA	Small non-coding RNA (55-65 nt long) containing highly conserved 5' and 3' ends (16 and 8 nt, respectively) that are predicted to come together to form a stem structure. Identified in the social amoeba Dictyostelium discoideum and localized in the cytoplasm.	1470	0	0
2212	12	sequence_variant_causing_no_3D_structural_change (obsolete SO:1000112)	\N	3022	1	0
43036	17	shoot axis tuber axillary vegetative bud	An axillary vegetative bud (PO:0004712) that is part of a shoot axis tuber (PO:0004543).	97871	0	0
42410	17	late wood	A portion of secondary xylem (PO:0005848) that is a part of a growth ring (PO:0004514) formed during the later part of a growing season, has higher density than early wood (PO:0004515) of the same growth ring, and has as parts late wood tracheary elements (PO:0025462) with generally smaller lumens than the early wood tracheary elements (PO:0025461) of the same growth ring.	96913	0	0
42792	17	dermal tissue (obsolete PO:0009014)	OBSOLETE. A portion of plant tissue that covers the surface of the plant.	97408	1	0
297	12	maternally_imprinted	The maternal copy of the gene is modified, rendering it transcriptionally silent.	368	0	0
43159	17	stigma papilla cell	A papilla cell that is part of a stigma epidermis.	98041	0	0
55503	12	H3R2_monomethylation_site	A kind of histone modification site, whereby the 2nd residue (an arginine), from the start of the H3 protein is mono-methylated.	3073863	0	0
43065	17	aerial tuber axillary bud meristem	A tuber axillary bud meristem that is part of an aerial tuber.	97912	0	0
55557	12	HERV_deletion	A deletion of the HERV mobile element with respect to  a reference.	3073931	0	0
1086	12	insert_AU (obsolete SO:0000927)	An edit to insert a AU dinucleotide.	1401	1	0
42614	17	abaxial protoderm	A portion of protoderm (PO:0006210) tissue that is the outermost layer of the shoot apical meristem (PO:0020148), and gives rise to the leaf abaxial epidermis (PO:0006019).	97172	0	0
853	12	gene_with_dicistronic_transcript	A gene that encodes a dicistronic transcript.	1125	0	0
605	12	three_prime_noncoding_exon	Non-coding exon in the 3' UTR.	824	0	0
42659	17	tassel pedicellate spikelet	Ultimate inflorescence branch of the maize tassel with a pedicel, developing from the spikelet pair meristem.	97226	0	0
42565	17	shoot-borne root apical meristem	A root apical meristem (PO:0020147) that gives rise to a shoot-borne root (PO:0000042).	97113	0	0
43249	17	leaf procambium	A portion of shoot procambium (PO:0025276) tissue that is part of a vascular leaf (PO:0009025).	98146	0	0
43574	17	tmema cell	A native plant cell (PO:0025606) at the base of a gemma (PO:0025614) or adjacent to a brachycyte (PO:0030058) that breaks down to allow abscission of the gemma or brachycyte.	98593	0	0
2058	12	copy_number_increase	A sequence variant where copies of a feature are increased relative to the reference.	2830	0	0
43354	17	cuticular wax	A portion of plant substance (PO:0025161) comprised predominantly of very long chain aliphatic lipids and is part of a plant cuticle (PO:0000022).	98284	0	0
148	12	recombined_to	\N	174	0	1
1584	12	DNA_binding_site	A binding site that, in the molecule, interacts selectively and non-covalently with DNA.	2224	0	0
42431	17	nucellar plant embryo	A somatic plant embryo derived directly from nucellus cells.	96938	0	0
649	12	VDJ_J_cluster	Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one VDJ-gene and one J-gene.	871	0	0
43264	17	procambium	A portion of meristem tissue (PO:0009013) that undergoes differentiation to form the primary vascular tissue (PO:0025408).	98165	0	0
42987	17	leaf lamina vein	A phyllome lamina vein (PO:0025348) that is part of a leaf lamina vascular system (PO:0000048).	97805	0	0
1497	12	isowyosine	Isowyosine is a modified guanosine base feature.	2072	0	0
59160	17	follicle fruit	A fruit (PO:0009001) which develops from a carpel (PO:0009030) and at maturity comprises a dry exocarp (PO:0009085), dry mesocarp (PO:0009087), and dry endocarp (PO:0009086) that dehisce along a single fruit valve (PO:0000033).	3080625	0	0
43484	17	anther wall tapetum cell	A microsporangium tapetum cell (PO:0025544) that is part of the anther wall tapetum (PO:0009071).	98458	0	0
43382	17	secondary thickening meristem	A lateral meristem (PO:0020145) that is not contiguous with an apical meristem (PO:0020144) and has a parts multiple layers of meristematic cells (PO:0004010).	90168	0	0
1950	12	decreased_polyadenylation_variant	A transcript processing variant whereby polyadenylation of the encoded transcript is decreased with respect to the reference.	2656	0	0
2313	12	gene_segment	A gene component region which acts as a recombinational unit of a gene whose functional form is generated through somatic recombination.	3133	0	0
1283	12	serine_threonine_staple_motif	A motif of four or five consecutive residues and one H-bond in which: residue(i) is Serine (S) or Threonine (T), the side-chain OH of residue(i) is H-bonded to the main-chain CO of residue(i3) or (i4), Phi angles of residues(i1), (i2) and (i3) are negative.	1716	0	0
1144	12	topology_attribute	\N	1465	0	0
42961	17	hypocotyl	A stem internode (PO:0020142) below the cotyledonary node (PO:0025321) and transitional to a root (PO:0009005) of a plant embryo (PO:0009009) or a seedling (PO:0000003).	97764	0	0
168	12	read_pair	One of a pair of sequencing reads in which the two members of the pair are related by originating at either end of a clone insert.	200	0	0
42851	17	staminode	Sterile stamen.	97580	0	0
42879	17	strophiole	An arilloid that is an outgrowth of a seed on a raphe.	97621	0	0
1230	12	non_cytoplasmic_polypeptide_region	Polypeptide region that is localized outside of a lipid bilayer and outside of the cytoplasm.	1597	0	0
2283	12	status_of_coding_sequence (obsolete SO:1001255)	\N	3095	1	0
2252	12	unoriented_intrachromosomal_transposition	An intrachromosomal transposition whereby the segment between the first two breaks listed is removed and inserted at the third break; the orientation of the insertion with respect to its flanking segments is not recorded.	3064	0	0
1301	12	st_turn_right_handed_type_two	The peptide twists in an clockwise, right handed manner. The dihedral angles for this turn are: Residue(i): -140 degrees < chi(1) -120 degrees < -20 degrees, +80 degrees psi +120 degrees < +180 degrees, residue(i+1): +20 degrees < phi < +140 degrees, -40 < psi < +90 degrees.	1753	0	0
43171	17	plant axis elongation zone	A cardinal organ part (PO:0025001) which is part of a plant axis (PO:0025004), is located proximal to an apical meristem (PO:0020144), and in which plant cells (PO:0009002) are undergoing longitudinal expansion.	98057	0	0
42599	17	cambium-like transitional zone (obsolete PO:0006067)	OBSOLETE. A cup-shaped region in the shoot apical meristem found between the central mother cell and the rib and peripheral zone. The cells of this zone are derived from the corpus intials, but in some cases they arise also from tunica initials.	97155	1	0
43139	17	tepal base	A phyllome base (PO:0025140) that is part of a tepal (PO:0009033).	98018	0	0
2170	12	sequence_variant_causing_minus_1_frameshift (obsolete SO:1000067)	A mutation causing a disruption of the translational reading frame, due to the deletion of a nucleotide.	2976	1	0
2117	12	transition	Change of a pyrimidine nucleotide, C or T, into an other pyrimidine nucleotide, or change of a purine nucleotide, A or G, into an other purine nucleotide.	2907	0	0
1874	12	H3K27_dimethylation_site	A kind of histone modification site, whereby the 27th residue (a lysine), from the start of the H3 histone protein is di-methylated.	2566	0	0
1175	12	silent_mutation	A sequence variant that does not affect protein function. Silent mutations may occur in genic ( CDS, UTR, intron etc) and intergenic regions. Silent mutations may have affects on processes such as splicing and regulation.	1508	0	0
43347	17	intercellular space	A plant anatomical space that is part of a portion of plant tissue between two or more cells.	98272	0	0
984	12	leucoplast_chromosome	A chromosome with origin in a leucoplast.	1287	0	0
43566	17	central strand	A portion of plant tissue (PO:0009007) that is an axial strand in the center of a gametophore axis (PO:0030020) or seta (PO:0030032) and has as part a hydrome (PO:0030047) or a leptome (PO:0030048).	98576	0	0
1169	12	PNA_oligo	Peptide nucleic acid, is a chemical not known to occur naturally but is artificially synthesized and used in some biological research and medical treatments. The PNA backbone is composed of repeating N-(2-aminoethyl)-glycine units linked by peptide bonds. The purine and pyrimidine bases are linked to the backbone by methylene carbonyl bonds.	1498	0	0
1168	12	i_motif	A cytosine rich domain whereby strands associate both inter- and intramolecularly at moderately acidic pH.	1496	0	0
43129	17	fused collective tepal structure	A collective tepal structure (PO:0025021) in which there are at least two fused tepals (PO:0025137).	98005	0	0
43577	17	gametophore axillary hair terminal cell	An axillary hair terminal cell that is the long terminal cell of a gametophore axillary hair.	98597	0	0
2012	12	CDRE_motif	An RNA polymerase II promoter element found in the promoters of genes regulated by calcineurin. The consensus sequence is GNGGCKCA.	2773	0	0
43274	17	callus parenchyma cell	A parenchyma cell that is part of a plant callus.	98177	0	0
59188	17	berry fruit	A fruit (PO:0009001) which at maturity comprises a fleshy endocarp (PO:0009086), fleshy mesocarp (PO:0009087), and fleshy exocarp (PO:0009085).	3080678	0	0
1506	12	five_methyl_2_thiouridine	5_methyl_2_thiouridine is a modified uridine base feature.	2091	0	0
1336	12	AU_rich_element	A cis-acting element found in the 3' UTR of some mRNA which is rich in AUUUA pentamers. Messenger RNAs bearing multiple AU-rich elements are often unstable.	1806	0	0
55531	12	incomplete_transcript_exonic_variant	A sequence variant that intersects the exon of an incompletely annotated transcript.	3073899	0	0
872	12	gene_with_mRNA_recoded_by_translational_bypass	A gene with mRNA recoded by translational bypass.	1149	0	0
322	12	lambda_clone (obsolete SO:0000160)	A linear clone derived from lambda bacteriophage. The genes involved in the lysogenic pathway are removed from the from the viral DNA. Up to 25 kb of foreign DNA can then be inserted into the lambda genome.	407	1	0
738	12	centromere	A region of chromosome where the spindle fibers attach during mitosis and meiosis.	969	0	0
43378	17	axial system	A portion of secondary vascular tissue (PO:0025409) that has as parts cells derived from fusiform initials (PO:0000079) and oriented with their longest diameter parallel to a plant axis (PO:0025004).	98319	0	0
937	12	symbiosis_island	A transmissible element containing genes involved in symbiosis, analogous to the pathogenicity islands of gram negative bacteria.	1235	0	0
1032	12	edited_transcript	A transcript that is edited.	1343	0	0
952	12	cloned_genomic (obsolete SO:0000791)	\N	1250	1	0
42695	17	lower floret of pedicellate spikelet of ear	An ear floret that is the lower of the two florets of a pedicellate spikelet rachilla of an ear inflorescence.	97275	0	0
43023	17	microgametophytic cell (obsolete PO:0025027)	OBSOLETE. A plant cell that is part of a male gametophyte.	97850	1	0
1043	12	stop_codon_redefined_as_pyrrolysine	A stop codon redefined to be the new amino acid, pyrrolysine.	1354	0	0
174	12	scRNA	A small non coding RNA sequence, present in the cytoplasm.	208	0	0
42661	17	upper floret of pedicellate spikelet of tassel	A tassel floret that is one of the two florets placed above the lower floret on a pedicellate spikelet rachilla of a tassel inflorescence.	97228	0	0
424	12	histidyl_tRNA	A tRNA sequence that has a histidine anticodon, and a 3' histidine binding region.	540	0	0
42393	17	phellem	A portion of ground tissue (PO:0025059) centrifugally derived from cork cambium (PO:0005599), non-living at maturity, and having suberized walls.	96888	0	0
1346	12	TNA	An attribute describing a sequence consisting of nucleobases attached to a repeating unit made of threose rings connected to a phosphate backbone.	1827	0	0
2267	12	encodes_greater_than_1_polypeptide	A gene that is alternately spliced, and encodes more than one polypeptide.	3079	0	0
843	12	splicing_feature (obsolete SO:0000682)	\N	1113	1	0
42485	17	stamen vascular system	A phyllome vascular system that includes the totality of the portions of vascular tissue in their specific arrangement in a stamen.	97007	0	0
1724	12	cryptic_splice_acceptor	A sequence variant whereby a new splice site is created due to the activation of a new acceptor.	2384	0	0
43293	17	cultured zygote-derived plant embryo	A zygotic plant embryo that is grown or maintained in vitro.	98197	0	0
1600	12	tyrosine	\N	2241	0	0
214	12	assortment_derived_deficiency (obsolete SO:0000052)	\N	268	1	0
42557	17	juice sac tissue	A portion of plant tissue (PO:0009007) which is composed of highly vacuolated cells forming closely-packed, club-shaped sacs with long slender stalks and containing juice.	97103	0	0
42396	17	mesophyll cell	A chlorenchyma cell that is part of a mesophyll.	96895	0	0
55508	12	H2AK9_acetylation_site	A kind of histone modification site, whereby the 9th residue (a lysine), from the start of the H2A histone protein is acetylated.	3073869	0	0
43117	17	archegonium	A multicellular plant gametangium (PO:0025124) that develops from an archegonium initial cell (PO:0025510) and has as parts a venter (PO:0030038) and an archegonium neck (PO:0030039).	97983	0	0
43386	17	sclerid cell	A sclerenchyma cell (PO:0000077) with many pits in the secondary cell wall.	98327	0	0
1004	12	RNApol_III_promoter_type_1_region (obsolete SO:0000845)	A region of sequence which is a promoter for RNA polymerase III type 1.	1310	1	0
871	12	gene_with_stop_codon_redefined_as_selenocysteine	A gene encoding an mRNA that has the stop codon redefined as selenocysteine.	1148	0	0
42334	17	peripheral zone	A portion of meristem tissue (PO:0009013) which is the organogenic region of the meristem, characterized by higher rates of cell division.	96794	0	0
42750	17	leaf lamina base	The region of the leaf lamina proximal to the stem and usually connected to it by means of a petiole.	97336	0	0
42824	17	stem	A shoot axis (PO:0025029) that is the primary axis of a plant.	97483	0	0
711	12	aneuploid_chromosome	A chromosome structural variation whereby either a chromosome exists in addition to the normal chromosome complement or is lacking.	937	0	0
1116	12	linear_double_stranded_DNA_chromosome	Structural unit composed of a self-replicating, double-stranded, linear DNA molecule.	1433	0	0
256	12	cyanelle_gene	A gene from cyanelle sequence.	319	0	0
2093	12	biochemical_region_of_peptide	A region of a peptide that is involved in a biochemical function.	2881	0	0
1741	12	terminator_codon_variant	A sequence variant whereby at least one of the bases in the terminator codon is changed.	2412	0	0
974	12	partially_processed_cDNA_clone	A cDNA invalidated clone by partial processing.	1274	0	0
635	12	tiling_path_fragment	A piece of sequence that makes up a tiling_path (SO:0000472).	857	0	0
1652	12	YAC_end	A region of sequence from the end of a YAC clone that may provide a highly specific marker.	2304	0	0
1438	12	two_prime_O_methylcytidine	2'-O-methylcytidine is a modified cytidine.	1953	0	0
42404	17	glandular trichome	A trichome (PO:0000282) that secretes or sequesters a portion of plant substance (PO:0025161).	96905	0	0
2290	12	mRNA_recoded_by_codon_redefinition	A recoded_mRNA that was modified by an alteration of codon meaning.	3104	0	0
1073	12	cloned_genomic_insert	A clone insert made from genomic DNA.	1388	0	0
43066	17	subterranean tuber axillary bud meristem	A tuber axillary bud meristem that is part of a subterranean tuber.	97913	0	0
2240	12	cyclic_translocation	A chromosomal translocation whereby three breaks occurred in three different chromosomes. The centric segment resulting from the first break listed is joined to the acentric segment resulting from the second, rather than the third.	3052	0	0
42451	17	axillary bud	A bud (PO:0000055) that develops from an axillary bud meristem (PO:0000232).	96963	0	0
2274	12	cryptogene	A maxicircle gene so extensively edited that it cannot be matched to its edited mRNA sequence.	3086	0	0
1828	12	translation_regulatory_region	A regulatory region that is involved in the control of the process of translation.	2513	0	0
42484	17	flower vascular system	A shoot system vascular system that includes the totality of the portions of vascular tissue in their specific arrangement in a flower.	97006	0	0
43041	17	subterranean tuber periderm	A portion of tuber periderm that is part of a subterranean tuber.	97878	0	0
503	12	chromosome_band	A cytologically distinguishable feature of a chromosome, often made visible by staining, and usually alternating light and dark.	649	0	0
379	12	glutamine_tRNA_primary_transcript	A primary transcript encoding glutamyl tRNA (SO:0000260).	487	0	0
565	12	vault_RNA	A family of RNAs are found as part of the enigmatic vault ribonucleoprotein complex. The complex consists of a major vault protein (MVP), two minor vault proteins (VPARP and TEP1), and several small untranslated RNA molecules. It has been suggested that the vault complex is involved in drug resistance.	764	0	0
43325	17	transition phyllode leaf	A transition vascular leaf in which the basal portion of the leaf has unifacial lamina development in a median plane, similar to a phyllode, and the apical portion of the leaf develops leaflets similar to a juvenile leaf.	98242	0	0
1051	12	positively_autoregulated_gene	A gene that is positively autoregulated.	1362	0	0
428	12	methionyl_tRNA	A tRNA sequence that has a methionine anticodon, and a 3' methionine binding region.	544	0	0
433	12	tryptophanyl_tRNA	A tRNA sequence that has a tryptophan anticodon, and a 3' tryptophan binding region.	549	0	0
42959	17	generative cell	A spermatogenous cell (PO:0025525) of the microgametophyte (PO:0025280) that divides to produce two pollen sperm cells (PO:0025121).	97760	0	0
1010	12	CDS_region	A region of a CDS.	1316	0	0
1354	12	ds_DNA_viral_sequence	A ds_DNA_viral_sequence is a viral_sequence that is the sequence of a virus that exists as double stranded DNA.	1841	0	0
2311	12	stop_codon_signal	A recoding stimulatory signal that is a stop codon and has effect on efficiency of recoding.	3131	0	0
1918	12	benign_variant	\N	2616	0	0
281	12	regulated	An attribute to describe a sequence that is regulated.	350	0	0
43548	17	antheridiophore	A stalk (PO:0025066) that supports an antheridium head (PO:0030075).	98546	0	0
1314	12	E_box_motif	A sequence element characteristic of some RNA polymerase II promoters, usually located between -60 and +1 relative to the TSS. Consensus sequence is AWCAGCTGWT. Tends to co-occur with DMv2 (SO:0001161). Tends to not occur with DPE motif (SO:0000015).	1775	0	0
623	12	pseudogenic_region	A non-functional descendent of a functional entity.	845	0	0
43412	17	secondary xylem vessel member	A xylem vessel member (PO:0002003) that is part of a portion of secondary xylem tissue (PO:0005848).	98358	0	0
55526	12	subtelomere	A heterochromatic region of the chromosome,  adjacent to the telomere (on the centromeric side) that contains repetitive DNA and sometimes genes and it is transcribed.	3073893	0	0
43131	17	phyllome base	The basal part of a phyllome (PO:0006001), where it attaches to a shoot axis (PO:0025029).	98009	0	0
1802	12	nucleotide_to_protein_binding_site	A binding site that, in the nucleotide molecule, interacts selectively and non-covalently with polypeptide residues.	2484	0	0
55412	12	5_prime_UTR_exon_variant	A UTR variant of exonic sequence of the 5' UTR.	3073751	0	0
346	12	U2_intron	A major type of spliceosomal intron spliced by the U2 spliceosome, that includes U1, U2, U4/U6 and U5 snRNAs.	444	0	0
43589	17	archesporium	A portion of plant tissue (PO:0009007) that is the internal part of a sporangium (PO:0025094), bounded by the sporangium wall (PO:0025306), and has as parts archesporial cells (PO:0030056).	98617	0	0
948	12	clone_attribute (obsolete SO:0000787)	\N	1246	1	0
1657	12	processed_transcript	A transcript for which no open reading frame has been identified and for which no other function has been determined.	2311	0	0
1065	12	independently_known	Attribute to describe a feature that is independently known - not predicted.	1378	0	0
2084	12	primer_binding_site	Non-covalent primer binding site for initiation of replication, transcription, or reverse transcription.	2868	0	0
2061	12	rDNA_replication_fork_barrier	A DNA motif that is found in eukaryotic rDNA repeats, and is a site of replication fork pausing.	2834	0	0
42634	17	lateral root epidermis (obsolete PO:0006209)	OBSOLETE. The outer most cell layer of the lateral roots.	97198	1	0
1124	12	double_stranded_RNA_chromosome	Structural unit composed of a self-replicating, double-stranded RNA molecule.	1441	0	0
782	12	RNApol_III_promoter_type_3	\N	1033	0	0
55348	12	substitution_artifact	A substitution that is the result of base-calling or assembly error.	3073661	0	0
284	12	RNA_sequence_secondary_structure	A folded RNA sequence.	354	0	0
2099	12	catmat_right_handed_four	A motif of 4 consecutive residues with dihedral angles as follows: res i: phi -90 bounds -120 to -60, res i: psi -10 bounds -50 to 30, res i+1: phi -90 bounds -120 to -60, res i+1: psi -10 bounds -50 to 30, res i+2: phi -75 bounds -100 to -50, res i+2: psi 140 bounds 110 to 170. The extra restriction of the length of the O to O distance is similar, that it be less than 5 Angstrom. In this case these two Oxygen atoms are the main chain carbonyl oxygen atoms of residues i-1 and i+2.	2887	0	0
998	12	polypeptide_region	Biological sequence region that can be assigned to a specific subsequence of a polypeptide.	1301	0	0
43564	17	sporangium wall endothecium	A portion of ground tissue (PO:0025059) that is the sub-epidermal layer of a sporangium wall (PO:0025306).	98573	0	0
1473	12	epoxyqueuosine	Epoxyqueuosine is a modified 7-deazoguanosine.	2024	0	0
59200	17	schizocarp fruit	A fruit (PO:0009001) which develops from a gynoecium (PO:0009062) and at maturity comprises a dry exocarp (PO:0009085), dry mesocarp (PO:0009087), and dry endocarp (PO:0009086) that separate into mericarps (PO:0020075).	3080700	0	0
2107	12	c_terminal_region	The more polar, carboxy-terminal region of the signal peptide (approx 3-7 aa).	2895	0	0
1343	12	pseudouridylation_guide_snoRNA	A snoRNA that specifies the site of pseudouridylation in an RNA molecule by base pairing with a short sequence around the target residue.	1820	0	0
312	12	read	A sequence obtained from a single sequencing experiment. Typically a read is produced when a base calling program interprets information from a chromatogram trace file produced from a sequencing machine.	388	0	0
1683	12	endosomal_localization_signal	A polypeptide region that targets a polypeptide to the endosome.	2339	0	0
1098	12	vertebrate_immune_system_gene_recombination_signal_feature	\N	1415	0	0
55314	12	RNA_stability_element (obsolete SO:0001957)	RNA secondary structure that affects the stability of an RNA molecule.	3073613	1	0
1210	12	nested_repeat (obsolete SO:0001052)	\N	1561	1	0
55378	12	TCT_motif	A cis-regulatory element, conserved sequence YYC+1TTTYY, and spans -2 to +6 relative to +1 TSS. It is present in most ribosomal protein genes in Drosophila and mammals but not in the yeast Saccharomyces cerevisiae. Resembles the initiator (TCAKTY in Drosophila) but functionally distinct from initiator.	3073709	0	0
2211	12	sequence_variant_affecting_3D_structure_of_polypeptide (obsolete SO:1000111)	A mutation that changes the amino acid sequence of the peptide in such a way that it changes the 3D structure of the molecule.	3019	1	0
1565	12	experimental_feature	A region which is the result of some arbitrary experimental procedure. The procedure may be carried out with biological material or inside a computer.	2203	0	0
42785	17	shoot system	A collective plant organ structure (PO:0025007) that produces shoot-borne portions of meristem tissue (PO:0009013) and the plant structures (PO:0009011) that arise from them.	97395	0	0
1219	12	propeptide_cleavage_site	The propeptide_cleavage_site is the arginine/lysine boundary on a propeptide where cleavage occurs.	1572	0	0
2261	12	sequence_variant_causes_exon_loss (obsolete SO:1000184)	A sequence variant affecting splicing and causes an exon loss.	3073	1	0
762	12	edited_by_G_addition (obsolete SO:0000601)	\N	1005	1	0
43102	17	ninth or higher order inflorescence branch	An inflorescence branch (PO:0009081) arising from a eighth order inflorescence branch (PO:0025110) or higher.	97962	0	0
398	12	ORF	The in-frame interval between the stop codons of a reading frame which when read as sequential triplets, has the potential of encoding a sequential string of amino acids. TER(NNN)nTER.	508	0	0
42965	17	leaf sheath	A cardinal organ part (PO:0025001) that is the lower part of a vascular leaf (PO:0009025), and which more or less encases the stem (PO:0009047).	97772	0	0
42473	17	articulated laticifer	A portion of secretory tissue (PO:0005656) that has as parts articulated laticifer cells (PO:0006221).	96991	0	0
2051	12	antisense_lncRNA	Non-coding RNA transcribed from the opposite DNA strand compared with other transcripts and overlap in part with sense RNA.	2822	0	0
42656	17	tassel spikelet	A spikelet (PO:0009051) that is part of the tassel inflorescence (PO:0020126) and bears tassel florets (PO:0006310) at maturity.	97223	0	0
1688	12	nuclear_rim_localization_signal	A polypeptide region that targets a polypeptide to the nuclear rim.	2346	0	0
1948	12	tasiRNA_primary_transcript	A primary transcript encoding a tasiRNA.	2654	0	0
59193	17	septicidal capsule fruit	A capsule fruit (PO:0030091) which dehisces through a fruit septa (PO:0025268).	3080686	0	0
147	12	recombined_from	\N	173	0	1
1293	12	beta_turn_right_handed_type_two	Right handed type II:A motif of four consecutive residues that may contain one H-bond, which, if present, is between the main-chain CO of the first residue and the main-chain NH of the fourth. It is characterized by the dihedral angles: Residue(i+1): -140 degrees < phi < -20 degrees, +80 degrees < psi < +180 degrees. Residue(i+2): +20 degrees < phi < +140 degrees, -40 degrees < psi < +90 degrees.	1737	0	0
1156	12	recursive_splice_site	A recursive splice site is a splice site which subdivides a large intron. Recursive splicing is a mechanism that splices large introns by sub dividing the intron at non exonic elements and alternate exons.	1478	0	0
55452	12	pyrrolysine_loss	A sequence variant whereby at least one base of a codon encoding pyrrolysine is changed, resulting in a different encoded amino acid.	3073803	0	0
1692	12	transcript_function_variant	A sequence variant which alters the functioning of a transcript with respect to a reference sequence.	2351	0	0
42429	17	fruit placenta	A portion of placenta tissue (PO:0025078) that is part of a fruit (PO:0009001) and to which seeds (PO:0009010) are attached.	96935	0	0
1532	12	three_methylpseudouridine	3_methylpseudouridine is a modified uridine base feature.	2142	0	0
42344	17	trichoblast	A root epidermal cell that is the smaller cell produced by the asymmetric division of an epidermal intial and gives rise to a root hair.	96814	0	0
43318	17	calyptra calyx	A fused calyx (PO:0025582) that is composed of fused sepals (PO:0025584).	98233	0	0
2213	12	sequence_variant_causing_complex_3D_structural_change (obsolete SO:1000115)	\N	3023	1	0
1209	12	nested_region (obsolete SO:0001051)	\N	1560	1	0
806	12	antisense_primary_transcript	The reverse complement of the primary transcript.	1065	0	0
1257	12	polypeptide_nickel_ion_contact_site	A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with nickel ions.	1658	0	0
2122	12	purine_transition	A substitution of a purine, A or G, for another purine.	2912	0	0
42349	17	trichome	A unicellular or multicellular plant structure (PO:0009011) that forms a non-sclerified outgrowth from the epidermis (PO:0005679).	96824	0	0
42550	17	anther wall primary parietal cell layer	A portion of ground tissue (PO:0025059) that is part of an anther wall (PO:0000002) and has as parts a primary parietal cell (PO:0006010) and adjacent plant cells.	97094	0	0
42455	17	terminal bud	A bud that develops from a shoot apical meristem.	96967	0	0
833	12	macronucleus_destined_segment	A sequence that is conserved, although rearranged relative to the micronucleus, in the macronucleus of a ciliate genome.	1102	0	0
1147	12	class_II_RNA	Small non-coding RNA (59-60 nt long) containing 5' and 3' ends that are predicted to come together to form a stem structure. Identified in the social amoeba Dictyostelium discoideum and localized in the cytoplasm.	1468	0	0
1984	12	mobile_element_insertion	A kind of insertion where the inserted sequence is a mobile element.	2708	0	0
246	12	micronuclear_sequence	\N	307	0	0
42905	17	plant ovule micropyle	A plant anatomical space (PO:0025117) that is enclosed by and forms an opening in an integument at the apex of a plant ovule (PO:0020003).	97673	0	0
1906	12	duplicated_pseudogene	A pseudogene that arose via gene duplication. Generally duplicated pseudogenes have the same structure as the original gene, including intron-exon structure and some regulatory sequence.	2603	0	0
865	12	gene	A region (or regions) that includes all of the sequence elements necessary to encode a functional transcript. A gene may include regulatory regions, transcribed regions and/or other functional sequence regions.	1138	0	0
418	12	asparaginyl_tRNA	A tRNA sequence that has an asparagine anticodon, and a 3' asparagine binding region.	534	0	0
43397	17	petiole vascular bundle	A vascular bundle (PO:0005020) that is part of a petiole vascular system (PO:0000052).	98342	0	0
43472	17	body cell	A spermatogenous cell (PO:0025525) of the microgametophyte (PO:0025280) that divides to produce a vegetative cell (PO:0020099) and the pollen sperm cell (PO:0025121).	98438	0	0
1454	12	two_methylthio_N6_methyladenosine	2_methylthio_N6_methyladenosine is a modified adenosine.	1986	0	0
1115	12	single_stranded_DNA_chromosome	Structural unit composed of a self-replicating, single-stranded DNA molecule.	1432	0	0
474	12	experimentally_determined	Attribute to describe a feature that has been experimentally verified.	607	0	0
43444	17	inflorescence bract primordium	A bract primordium (PO:0025128) is committed to the development of an inflorescence bract (PO:0009054).	98396	0	0
610	12	random_sequence	A sequence of nucleotides or amino acids which, by design, has a "random" order of components, given a predetermined input frequency of these components.	829	0	0
42818	17	fertile lemma	A lemma that encloses a functional flower, with androecium, gynoecium or both.	97476	0	0
1895	12	open_chromatin_region	A DNA sequence that in the normal state of the chromosome corresponds to an unfolded, un-complexed stretch of double-stranded DNA.	2592	0	0
1049	12	post_translationally_regulated_gene	A gene that is post translationally regulated.	1360	0	0
42955	17	antipodal cell	Cell, commonly three in number as in the eight-nucleate embryo sac, located at the other end of the embryo sac from the egg cell.	97754	0	0
43096	17	third order inflorescence branch	An inflorescence branch (PO:0009081) arising from a second order inflorescence branch (PO:0006322).	97956	0	0
1304	12	mutated_variant_site	Site which has been experimentally altered.	1759	0	0
1966	12	synonymous_variant	A sequence variant where there is no resulting change to the encoded amino acid.	2684	0	0
671	12	VD_gene_segment	Genomic DNA of immunoglobulin/T-cell receptor gene in partially rearranged genomic DNA including L-part1, V-intron and V-D-exon, with the 5' UTR (SO:0000204) and 3' UTR (SO:0000205).	894	0	0
43488	17	trichome tip	A plant structure (PO:0009011) that is the apical most portion of a trichome apex (PO:0025550).	98466	0	0
42627	17	interfascicular region	A portion of ground tissue (PO:0025059) located between vascular bundles in a shoot axis.	97188	0	0
43259	17	collective organ part structure	A collective plant structure (PO:0025497) composed of two or more cardinal organ parts (PO:0025001) that are part of adjacent plant organs (PO:0009008) and any associated portions of plant tissue (PO:0009007).	98158	0	0
1286	12	asx_turn_left_handed_type_two	Left handed type II (dihedral angles):- Residue(i): -140 degrees < chi (1) -120 degrees < -20 degrees, +80 degrees < psi +120 degrees < +180 degrees. Residue(i+1): +20 degrees < phi < +140 degrees, -40 degrees < psi < +90 degrees.	1723	0	0
55370	12	H2AZK7_acetylation_site	A kind of histone modification site, whereby the 7th residue (a lysine), from the start of the H2AZ histone protein is acetylated.	3073694	0	0
43429	17	compression wood	A portion of reaction wood (PO:0025472) found on the lower side of a shoot axis (PO:0025029) that is or was angled away from vertical and that has as parts heavily lignified tracheids (PO:0000301) with a specialized S2 layer that contains more lignin and has a larger (more horizontal) microfibril angle.	98379	0	0
55327	12	5_prime_UTR_premature_start_codon_gain_variant	A 5' UTR variant where a premature start codon is gained.	3073635	0	0
1461	12	two_methylthio_N6_threonyl_carbamoyladenosine	2_methylthio_N6_threonyl_carbamoyladenosine is a modified adenosine.	2000	0	0
43469	17	tuberous root	A root (PO:0009005) that is radially enlarged relative to other lateral roots (PO:0020121) or shoot-borne roots (PO:0000042) on the same plant, but not as enlarged as a tuberous root tuber (PO:0025476).	98434	0	0
43196	17	shoot system vascular system	A vascular system that is part of a shoot system.	98088	0	0
43555	17	sporangium base	A cardinal organ part that is the basal (distal) part of a sporangium.	98558	0	0
43256	17	plant ovary locule	A locule (PO:0025263) that is a cavity in a plant ovary (PO:0009072).	98156	0	0
1385	12	pseudouridine	A modified RNA base in which the 5- position of the uracil is bound to the ribose ring instead of the 4- position.	1880	0	0
43118	17	primordium	A portion of meristem tissue (PO:0009013) that has as parts protoderm (PO:0006210) and sub-epidermal meristematic tissue and is committed to the development of a particular plant structure (PO:0009011).	97985	0	0
43185	17	root nodule meristem	A root meristem (PO:0006085) that gives rise to a root nodule (PO:0003023).	98072	0	0
42952	17	embryo sac central cell	An embryo sac cell (PO:0025026) that is largest cell in a mature embryo sac (PO:0025074).	97746	0	0
43568	17	antheridium jacket layer	A portion of plant tissue (PO:0009007) that is a single layer of cells on the outside of an antheridium (PO:0025125).	98580	0	0
42304	17	vegetative bud	A bud (PO:0000055) that develops into a vegetative shoot system (PO:0025607).	96747	0	0
43156	17	shoot epidermal cell	An epidermal cell that is part of a shoot epidermis.	98038	0	0
215	12	sequence_variant_affecting_regulatory_region (obsolete SO:0000053)	A sequence_variant_effect which changes the regulatory region of a gene.	269	1	0
42373	17	silk scar	A cardinal part of multi-tissue plant structure (PO:0025498) which is composed of the shriveled remains of the silk (PO:0006488), and the base of the style (PO:0009074), and is located on the distal end of a developing or mature kernel (caryopsis fruit; PO:0030104).	96861	0	0
829	12	EST_match	A match against an EST sequence.	1098	0	0
42709	17	ear spikelet meristem	Apical meristem that gives rise to the upper and lower florets of the maize ear spikelet.	97290	0	0
1740	12	frameshift_variant	A sequence variant which causes a disruption of the translational reading frame, because the number of nucleotides inserted or deleted is not a multiple of three.	2410	0	0
568	12	rRNA_18S	A large polynucleotide in eukaryotes, which functions as the small subunit of the ribosome.	774	0	0
43330	17	tubercle	An enlarged leaf base (PO:0020040) that is fused with adjacent shoot axis (PO:0025029) tissue.	98249	0	0
619	12	D_gene_segment	Germline genomic DNA including D-region with 5' UTR and 3' UTR, also designated as D-segment.	840	0	0
2260	12	chromosome_structure_variation	\N	3072	0	0
279	12	transcript_with_readthrough_stop_codon (obsolete SO:0000117)	\N	348	1	0
921	12	YAC_clone (obsolete SO:0000760)	\N	1213	1	0
718	12	three_prime_clip	3'-most region of a precursor transcript that is clipped off during processing.	947	0	0
55388	12	3_prime_UTR_truncation	A sequence variant that causes the reduction of a the 3' UTR  with regard to the reference sequence.	3073723	0	0
1834	12	quality_value	An experimental feature attribute that defines the quality of the feature in a quantitative way, such as a phred quality score.	2520	0	0
42583	17	scutellum epidermis	A portion of shoot system epidermis (PO:0006035) that is part of the scutellum (PO:0020110).	97135	0	0
1799	12	nested_repeat	A repeat that is disrupted by the insertion of another element.	2479	0	0
43154	17	multicellular trichome branch cell	A trichome cell (PO:0008030) that forms a branch of a multicellular trichome (PO:0025162).	98036	0	0
43502	17	megasporangium tapetum cell	A tapetum cell (PO:0025543) that is part of a megasporangium tapetum (PO:0025315).	98483	0	0
838	12	canonical_five_prime_splice_site	The canonical 5' splice site has the sequence "GT".	1108	0	0
1430	12	modified_cytidine	A modified cytidine is a cytidine base feature which has been altered.	1940	0	0
55371	12	recombination_enhancer	A regulatory_region that promotes or induces the process of recombination.	3073698	0	0
692	12	V_D_J_C_cluster	Genomic DNA of immunoglobulin/T-cell receptor gene in germline configuration including at least one V-gene, one D-gene and one J-gene and one C-gene.	915	0	0
217	12	hyperploid	A kind of chromosome variation where the chromosome complement is not an exact multiple of the haploid number as extra chromosomes are present.	272	0	0
1496	12	four_demethylwyosine	4_demethylwyosine is a modified guanosine base feature.	2070	0	0
1512	12	uridine_five_oxyacetic_acid_methyl_ester	Uridine_5_oxyacetic_acid_methyl_ester is a modified uridine base feature.	2102	0	0
43243	17	seventh order infructescence branch	An infructescence branch (PO:0025243) arising from a sixth order infructescence branch (PO:0025252).	98140	0	0
1722	12	splicing_variant	A sequence variant that changes the process of splicing.	2381	0	0
295	12	epigenetically_modified	This attribute describes a gene where heritable changes other than those in the DNA sequence occur. These changes include: modification to the DNA (such as DNA methylation, the covalent modification of cytosine), and post-translational modification of histones.	365	0	0
43521	17	caulonema	A portion of protonema tissue that consists of only caulonema cells.	98508	0	0
42296	17	leaf lamina adaxial epidermis	A portion of leaf lamina epidermis that covers the adaxial/upper surface of a leaf lamina.	96737	0	0
42468	17	basal axillary shoot system	An axillary shoot system (PO:0006343) that is part of a stem base (PO:0008039).	96982	0	0
363	12	interior_exon	An exon that is bounded by 5' and 3' splice sites.	466	0	0
1608	12	glutamic_acid	\N	2249	0	0
1088	12	edited_mRNA	An mRNA that is edited.	1403	0	0
498	12	pseudogene	A sequence that closely resembles a known functional gene, at another locus within a genome, that is non-functional as a consequence of (usually several) mutations that prevent either its transcription or translation (or both). In general, pseudogenes result from either reverse transcription of a transcript of their "normal" paralog (SO:0000043) (in which case the pseudogene typically lacks introns and includes a poly(A) tail) or from recombination (SO:0000044) (in which case the pseudogene is typically a tandem duplication of its "normal" paralog).	640	0	0
1059	12	processed (obsolete SO:0000900)	An attribute describing a pseudogene where by an mRNA was retrotransposed. The mRNA sequence is transcribed back into the genome, lacking introns and promotors, but often including a polyA tail.	1371	1	0
59165	17	carpel adaxial epidermis	A portion of carpel epidermis (PO:0025096) that covers the adaxial surface of a carpel (PO:0009030).	3080635	0	0
1103	12	attL_site	A region that results from recombination between attP_site and attB_site, composed of the 5' portion of attB_site and the 3' portion of attP_site.	1420	0	0
42684	17	infructescence	A reproductive shoot system (PO:0025082) that develops from an inflorescence (PO:0009049) and has as parts all of the shoot axes (PO:0025029) distal to the most distal foliage leaf (PO:0009025) of a shoot axis and all of the fruits (PO:0009001) borne by those axes.	97258	0	0
55435	12	H2BK12_acetylation_site	A kind of histone modification site, whereby the 12th residue (a lysine), from the start of the H2B protein is acetylated.	3073783	0	0
42983	17	statolith (obsolete PO:0020134)	OBSOLETE. Solid cell inclusion of starch containing plastids occurring in root cap cells.	97800	1	0
42413	17	phloem fiber cell	A fiber cell (PO:0025407) that is part of a portion of phloem (PO:0005417) tissue.	96917	0	0
42494	17	root syncytium cell	Multinucleate cell developed by a series of events involving fusion with the neighboring dividing cells. The events are induced by cyst nematodes (e.g. <i>Heterodera schachtii</i>) entering the feeding cells (any cells) of the root vascular system.	97020	0	0
42338	17	axillary bud meristem	A shoot system meristem (PO:0006079) formed in an axil (PO:0025224).	96802	0	0
43080	17	reproductive bud	A bud that develops into a reproductive shoot system.	97929	0	0
1825	12	intermediate_element	A core promoter region of RNA polymerase III type 1 promoters.	2509	0	0
2243	12	inverted_insertional_duplication	An insertional duplication where a copy of the segment between the first two breaks listed is inserted at the third break; the insertion is in cytologically inverted orientation with respect to its flanking segments.	3055	0	0
42773	17	floral epidermis (obsolete PO:0008043)	OBSOLETE. A portion of shoot epidermis that is part of the floral organs.	97360	1	0
43425	17	late wood tracheary element	A tracheary element that is part of a portion of late wood (PO:0004516).	98373	0	0
432	12	threonyl_tRNA	A tRNA sequence that has a threonine anticodon, and a 3' threonine binding region.	548	0	0
55534	12	insertion_artifact	An insertion that is the result of base-calling or assembly error.	3073902	0	0
1451	12	two_methyladenosine	2_methyladenosine is a modified adenosine.	1980	0	0
42467	17	vascular leaf primordium adaxial side	A portion of vascular leaf primordium (PO:0000017) that is proximal to the axis of the shoot apical meristem (PO:0020148) and develops into the adaxial side of the leaf lamina (PO:0020039).	96981	0	0
722	12	heptamer_of_recombination_feature_of_vertebrate_immune_system_gene	Seven nucleotide recombination site (e.g. CACAGTG), part of V-gene, D-gene or J-gene recombination feature of an immunoglobulin or T-cell receptor gene.	951	0	0
43561	17	protonema meristematic apical cell	A gametophyte meristematic apical cell that is part of a protonema.	98569	0	0
42819	17	prophyll	A phyllome that is the first organ or one of the first two organs formed at the base of an axillary shoot, often smaller and/or in a distinctively different position from leaves formed subsequently.	97477	0	0
42974	17	root stele	A stele (PO:0025197) that is part of a root (PO:0009005).	97786	0	0
55395	12	short_tandem_repeat_expansion	A short tandem repeat variant containing more repeat units than the reference sequence.	3073731	0	0
55389	12	translated_unprocessed_pseudogene	A non-processed pseudogene where there is evidence, (mass spec data) suggesting that it is also translated.	3073724	0	0
43419	17	secondary phloem sieve cell	A sieve cell (PO:0025415) that is part of a portion of secondary phloem (PO:0005043).	98365	0	0
42374	17	transition zone	A region of the root between the meristem and the region of rapid elongation in which isodiametric growth (cell expansion) occurs.	96863	0	0
43531	17	seta meristematic apical cell	A shoot axis meristematic apical cell at the tip of a seta.	98520	0	0
43427	17	seedling cotyledon	A cotyledon (PO:0020030) that is part of a whole plant (PO:0000003) in the seedling development stage (PO:0007131).	98375	0	0
448	12	long_terminal_repeat	A sequence directly repeated at both ends of a defined sequence, of the sort typically found in retroviruses.	572	0	0
1636	12	shadow_enhancer	\N	2282	0	0
1111	12	oriV	An origin of vegetative replication in plasmids and phages.	1428	0	0
449	12	fusion_gene	A gene that is a fusion.	574	0	0
2112	12	polypeptide_DNA_contact	A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with DNA.	2900	0	0
43528	17	non-vascular leaf meristematic apical cell	A leaf meristematic apical cell (PO:0030011) that is part of a leaf apex of a non-vascular leaf.	98516	0	0
42947	17	mericarp	A cardinal part of multi-tissue plant structure (PO:0025498) which is one carpellate unit of a schizocarp fruit (PO:0030098) consisting of pericarp (PO:0009084) and one or more seeds (PO:0009010).	97741	0	0
55429	12	intron_base_5	Fifth intronic position after the intron exon boundary, close to the 5' edge of the intron.	3073775	0	0
42969	17	embryo hypophysis	A native plant cell (PO:0025606) that is the uppermost cell of a suspensor (PO:0020108) and from which part of the root (PO:0009005) and root cap (PO:0020123) in a plant embryo (PO:0009009) of angiosperms are derived.	97778	0	0
42793	17	portion of vascular tissue	A portion of plant tissue (PO:0009007) that has as part one or more tracheary elements (PO:0000290) or sieve elements (PO:0025406).	97410	0	0
55512	12	structural_interaction_variant	A variant that impacts the internal interactions of the resulting polypeptide structure.	3073876	0	0
1772	12	NMD_transcript_variant	A variant in a transcript that is the target of NMD.	2446	0	0
43007	17	bract margin	A phyllome margin (PO:0025018) that is part of a bract (PO:0009055).	97830	0	0
1555	12	modified_L_lysine	A post translationally modified lysine amino acid feature.	2185	0	0
43533	17	gametophore	A shoot system (PO:0009006) that consists of the shoot axes (PO:0025029) and non-vascular leaves (PO:0025075) of a plant in the gametophyte development stage (PO:0028003) .	98523	0	0
43300	17	microsporangium exothecium	An exothecium that is part of a microsporangium wall.	98204	0	0
2071	12	ARRET	A non coding RNA transcript, complementary to subtelomeric tract of TERRA transcript but devoid of the repeats.	2852	0	0
42602	17	mesophyll	The chloroplast-containing, photosynthetic parenchymatous tissue situated between the two epidermal layers of the leaf or leaf like organs.	97158	0	0
1118	12	linear_single_stranded_DNA_chromosome	Structural unit composed of a self-replicating, single-stranded, linear DNA molecule.	1435	0	0
55499	12	loR	A short, non coding transcript of loop-derived sequences encoded in precursor miRNA.	3073858	0	0
712	12	polyA_signal_sequence	The recognition sequence necessary for endonuclease cleavage of an RNA transcript that is followed by polyadenylation; consensus=AATAAA.	938	0	0
42288	17	shoot-borne root	A root (PO:0009005) that develops from shoot axis (PO:0025029) tissue.	96726	0	0
42520	17	sclerenchyma	A portion of ground tissue (PO:0025059) which comprises supporting tissue composed of plant fiber cells (PO:0025407) or sclereid cells (PO:0025418).	97054	0	0
1189	12	reverse	Reverse is an attribute of the feature, where the feature is in the 3' to 5' direction. Again could be applied to primer.	1531	0	0
1735	12	initiator_codon_variant	A codon variant that changes at least one base of the first codon of a transcript.	2397	0	0
42418	17	included phloem	A portion of secondary phloem tissue produced by included vascular cambium.	96922	0	0
529	12	transposable_element_insertion_site	The junction in a genome where a transposable_element has inserted.	684	0	0
1241	12	sequence_conflict	Different sources report differing sequences.	1623	0	0
1784	12	500B_downstream_variant	A sequence variant located within a half KB of the end of a gene.	2458	0	0
55539	12	multiplexing_sequence_identifier	A nucleic tag which is used in a ligation step of library preparation process to allow pooling of samples while maintaining ability to identify individual source material and creation of a multiplexed library.	3073907	0	0
699	12	V_gene_recombination_feature	Recombination signal including V-heptamer, V-spacer and V-nonamer in 3' of V-region of a V-gene or V-sequence of an immunoglobulin/T-cell receptor gene.	922	0	0
486	12	tag	A nucleotide sequence that may be used to identify a larger sequence.	625	0	0
361	12	translocation	A region of nucleotide sequence that has translocated to a new position.	464	0	0
2066	12	N4-methylcytosine	A cytosine methylated at the 4 nitrogen.	2846	0	0
1605	12	arginine	\N	2246	0	0
1079	12	insert_C (obsolete SO:0000920)	An edit to insert a cytidine.	1394	1	0
1177	12	copy_number_variation	A variation that increases or decreases the copy number of a given region.	1513	0	0
471	12	computed_feature (obsolete SO:0000309)	\N	604	1	0
1295	12	gamma_turn_classic	Gamma turns, defined for 3 residues i, i+1, i+2 if a hydrogen bond exists between residues i and i+2 and the phi and psi angles of residue i+1 fall within 40 degrees: phi(i+1)=75.0 - psi(i+1)=-64.0.	1741	0	0
266	12	polypeptide	A sequence of amino acids linked by peptide bonds which may lack appreciable tertiary structure and may not be liable to irreversible denaturation.	331	0	0
717	12	five_prime_D_recombination_signal_sequence	Recombination signal of an immunoglobulin/T-cell receptor gene, including the 5' D-nonamer (SO:0000497), 5' D-spacer (SO:0000498), and 5' D-heptamer (SO:0000396) in 5' of the D-region of a D-gene, or in 5' of the D-region of DJ-gene.	946	0	0
900	12	nucleomorphic_sequence	\N	1186	0	0
59163	17	shoot-borne internode root	A shoot-borne root (PO:0000042) that arises from a shoot axis internode (PO:0005005).	3080631	0	0
773	12	polypyrimidine_tract	The polypyrimidine tract is one of the cis-acting sequence elements directing intron removal in pre-mRNA splicing.	1021	0	0
42422	17	upright ray secondary xylem parenchyma cell	A ray secondary xylem parenchyma cell (PO:0004527) that is oriented with its longest dimension parallel to the plant axis (PO:0025004) in which it is found.	96927	0	0
42832	17	extrafloral nectary	A nectary (PO:0009035), not occurring on a floral organ (PO:0025395) or other part of a flower (PO:0009046).	97512	0	0
43058	17	aerial tuber perimedullary zone	A tuber perimedullary zone that is part of an aerial tuber pith.	97902	0	0
835	12	non_canonical_splice_site (obsolete SO:0000674)	A splice site where the donor and acceptor sites differ from the canonical form.	1105	1	0
460	12	recombination_feature	\N	591	0	0
55322	12	genic_downstream_transcript_variant	A variant that falls downstream of a transcript, but within the genic region of the gene due to alternately transcribed isoforms.	3073626	0	0
543	12	group_IIB_intron	\N	711	0	0
317	12	plasmid	A self replicating, using the hosts cellular machinery, often circular nucleic acid molecule that is distinct from a chromosome in the organism.	396	0	0
2129	12	T_to_A_transversion	A transversion from T to A.	2920	0	0
42529	17	palisade mesophyll	Parenchyma containing closely packed elongated chlorenchymatous cells oriented perpendicular to the leaf surface and which are active in photosynthesis.	97062	0	0
55432	12	5_prime_UTR_premature_start_codon_variant	A 5' UTR variant where a premature start codon is introduced, moved or lost.	3073780	0	0
2244	12	insertional_duplication	A chromosome duplication involving the insertion of a duplicated region (as opposed to a free duplication).	3056	0	0
1564	12	biomaterial_region	A region which is intended for use in an experiment.	2202	0	0
133	12	integral_part_of	\N	159	0	1
720	12	D_cluster	Genomic DNA of immunoglobulin/T-cell receptor gene in germline configuration including more than one D-gene.	949	0	0
183	12	A_minor_RNA_motif	A region forming a motif, composed of adenines, where the minor groove edges are inserted into the minor groove of another helix.	222	0	0
42604	17	sepal mesophyll	The chloroplast-containing, photosynthetic parenchymatous tissue situated between the two epidermal layers of the sepal.	97160	0	0
55394	12	vertebrate_immune_system_gene	The configuration of the  IG and TR variable (V), diversity (D) and joining (J) germline genes before DNA rearrangements  (with or without constant (C) genes in undefined configuration. (germline, non rearranged regions of the IG DNA loci).	3073730	0	0
1938	12	exon_variant	A sequence variant that changes exon sequence.	2641	0	0
1321	12	DMv1_motif	A promoter motif with consensus sequence CARCCCT.	1785	0	0
1174	12	internal_guide_sequence	A purine-rich sequence in the group I introns which determines the locations of the splice sites in group I intron splicing and has catalytic activity.	1507	0	0
43563	17	leptome	A portion of plant tissue (PO:0009007) that has as parts leptoid (PO:0025033) cells and cells of no other types.	98572	0	0
2134	12	G_to_C_transversion	A transversion from guanine to cytidine.	2925	0	0
571	12	protein_binding_site	A binding site that, in the molecule, interacts selectively and non-covalently with polypeptide molecules.	781	0	0
42738	17	nucellar projection	A portion of plant tissue (PO:0009007) that is the morphologically distinct portion of the nucellus overlying the vascular strands in the grass caryopsis.	97323	0	0
535	12	ribozyme	An RNA with catalytic activity.	691	0	0
791	12	upstream_AUG_codon	A start codon upstream of the ORF.	1045	0	0
1634	12	PAC_end	A region of sequence from the end of a PAC clone that may provide a highly specific marker.	2279	0	0
43553	17	venter	A cardinal organ part (PO:0025001) that is the enlarged basal part of an archegonium (PO:0025126) and has an archegonium egg cell (PO:0025122) located in it.	98554	0	0
42312	17	epithem cell	A parenchyma cell of the mesophyll of a hydathode found between the xylem endings and the epidermis.	96759	0	0
43032	17	tuber storage parenchyma	A portion of storage parenchyma (PO:0025035) that is part of a tuber (PO:0025522).	97866	0	0
2214	12	sequence_variant_causing_conformational_change (obsolete SO:1000116)	\N	3024	1	0
42461	17	hilum groove	A canal (PO:0025132) that is a longitudinal groove in the testa through a prominent hilum (PO:0020063) of a seed (PO:0009010).	96973	0	0
2161	12	sequence_variant_causing_non_synonymous_codon_change_in_transcript (obsolete SO:1000058)	A DNA point mutation that causes a substitution of an amino acid by an other.	2966	1	0
43583	17	epidermal rhizoid initial cell	An epidermal initial cell (PO:0000349) that gives rise to an epidermal rhizoid (PO:0030071).	98605	0	0
42633	17	endodermal passage cell	Cell in the endodermal layer of the root with cell wall that remains non-thickened.	97197	0	0
55365	12	histone_4_acetylation_site	A histone 4 modification where the modification is the acetylation of the residue.	3073686	0	0
42443	17	short shoot	Shoot system in which the internodes elongate little or at all, bearing reproductive structures and/or leaves.	96955	0	0
42868	17	short tassel branch meristem	The meristem present on either or both the long lateral branch and central spike of a maize tassel that gives rise to short tassel branch.	97608	0	0
2176	12	sequence_variant_affecting_splice_acceptor (obsolete SO:1000073)	A sequence_variant_effect that changes the splice acceptor sequence.	2982	1	0
381	12	histidine_tRNA_primary_transcript	A primary transcript encoding histidyl tRNA (SO:0000262).	489	0	0
1388	12	ribothymidine	A modified RNA base in which thymine is bound to the ribose ring.	1887	0	0
55343	12	zinc_finger_binding_site	\N	3073655	0	0
1511	12	uridine_five_oxyacetic_acid	Uridine_5_oxyacetic_acid is a modified uridine base feature.	2100	0	0
1423	12	snRNA_gene	\N	1933	0	0
42809	17	petal	A phyllome (PO:0006001) that is part of the corolla (PO:0009059), and is usually colored (not green).	97436	0	0
1583	12	expressed_sequence_assembly	A sequence assembly derived from expressed sequences.	2223	0	0
1194	12	arginyl_tRNA	A tRNA sequence that has an arginine anticodon, and a 3' arginine binding region.	1539	0	0
2268	12	encodes_different_polypeptides_different_stop	A gene that is alternately spliced, and encodes more than one polypeptide, that have overlapping peptide sequences, but use different stop codons.	3080	0	0
59202	17	stem tegument layer	A portion of shoot axis tegument layer (PO:0025609) that a tough, protective outer layer on a stem (PO:0009047) and includes as parts a stem hypodermis (PO:0025610) and a stem epidermis (PO:0025178).	3080703	0	0
1366	12	translational_frameshift	The region of mRNA (not divisible by 3 bases) that is skipped during the process of translational frameshifting (GO:0006452), causing the reading frame to be different.	1855	0	0
1338	12	iron_responsive_element	A regulatory sequence found in the 5' and 3' UTRs of many mRNAs which encode iron-binding proteins. It has a hairpin structure and is recognized by trans-acting proteins known as iron-regulatory proteins.	1811	0	0
2223	12	sequence_variant_causing_gain_of_function_of_polypeptide (obsolete SO:1000125)	\N	3033	1	0
1398	12	miRNA_primary_transcript_region	A part of an miRNA primary_transcript.	1902	0	0
42843	17	connective	The part of the stamen that connects the microsporangia/pollen sacs.	97557	0	0
1455	12	N6_isopentenyladenosine	N6_isopentenyladenosine is a modified adenosine.	1988	0	0
2310	12	distant_three_prime_recoding_signal	A recoding signal that is found many hundreds of nucleotides 3' of a redefined stop codon.	3129	0	0
1379	12	silenced_by_histone_deacetylation	An attribute describing an epigenetic process where a gene is inactivated by histone deacetylation.	1872	0	0
1289	12	beta_turn	A motif of four consecutive residues that may contain one H-bond, which, if present, is between the main-chain CO of the first residue and the main-chain NH of the fourth. It is characterized by the dihedral angles of the second and third residues, which are the basis for sub-categorization.	1729	0	0
986	12	micronuclear_chromosome	A chromosome originating in a micronucleus.	1289	0	0
546	12	RNase_MRP_RNA	The RNA molecule essential for the catalytic activity of RNase MRP, an enzymatically active ribonucleoprotein with two distinct roles in eukaryotes. In mitochondria it plays a direct role in the initiation of mitochondrial DNA replication. In the nucleus it is involved in precursor rRNA processing, where it cleaves the internal transcribed spacer 1 between 18S and 5.8S rRNAs.	718	0	0
1795	12	genetic_marker	A measurable sequence feature that varies within a population.	2473	0	0
42877	17	plant embryo axis	A plant axis (PO:0025004) that is the axial part of a plant embryo (PO:0009009).	97618	0	0
59170	17	leaf lamina tip	A leaf tip (PO:0025142) that is the distal portion of the leaf lamina (PO:0020039).	3080643	0	0
43069	17	branch	A shoot axis (PO:00025029) that develops from an axillary bud meristem (PO:0000232) or from equal divisions of a meristematic apical cell (PO:0030007).	97916	0	0
1818	12	distal_promoter_element	\N	2501	0	0
487	12	rRNA_large_subunit_primary_transcript	A primary transcript encoding a large ribosomal subunit RNA.	626	0	0
1334	12	pyrrolysine_tRNA_primary_transcript	A primary transcript encoding pyrrolysyl tRNA (SO:0000766).	1802	0	0
43473	17	prothallial cell	A native plant cell (PO:0025606) which is vegetative and develops from the division of the microspore (PO:0020048) of vascular plants other than angiosperms.	98439	0	0
886	12	transit_peptide	The transit_peptide is a short region at the N-terminus of the peptide that directs the protein to an organelle (chloroplast, mitochondrion, microbody or cyanelle).	1168	0	0
1146	12	circular	A quality of a nucleotide polymer that has no terminal nucleotide residues.	1467	0	0
615	12	rasiRNA	A 17-28-nt, small interfering RNA derived from transcripts of repetitive elements.	834	0	0
305	12	assembly_component	A region of known length which may be used to manufacture a longer region.	379	0	0
1773	12	UTR_variant	A transcript variant that is located within the UTR.	2447	0	0
1935	12	U_box	An U-box is a conserved T-rich region upstream of a retroviral polypurine tract that is involved in PPT primer creation during reverse transcription.	2634	0	0
343	12	translated_nucleotide_match	A match against a translated sequence.	441	0	0
42907	17	raphe	A cardinal organ part (PO:0025001) that is a ridge on a plant ovule (PO:0020003) where a funicle (PO:0020006) is or was fused to the ovule.	97678	0	0
43000	17	plant axis	An axial plant organ (PO:0009008).	90031	0	0
1125	12	circular_single_stranded_RNA_chromosome	Structural unit composed of a self-replicating, single-stranded, circular DNA molecule.	1442	0	0
1055	12	translationally_regulated_gene	A gene that is translationally regulated.	1367	0	0
1044	12	stop_codon_redefined_as_selenocysteine	A stop codon redefined to be the new amino acid, selenocysteine.	1355	0	0
862	12	possible_base_call_error	A region of sequence where the validity of the base calling is questionable.	1135	0	0
939	12	pseudogenic_tRNA	A non functional descendent of a tRNA.	1237	0	0
2121	12	T_to_C_transition	\N	2911	0	0
2207	12	mutation_causing_out_of_frame_polypeptide_N_terminal_elongation (obsolete SO:1000107)	\N	3015	1	0
2155	12	sequence_variation_affecting_transcript (obsolete SO:1000049)	Any change in mature, spliced and processed, RNA that results from a change in the corresponding DNA sequence.	2958	1	0
43091	17	shoot axis internode elongation zone	A plant axis elongation zone (PO:0025180) that is part of a shoot axis internode (PO:0005005).	97951	0	0
1466	12	N6_N6_dimethyladenosine	N6_N6_dimethyladenosine is a modified adenosine.	2010	0	0
793	12	monocistronic_primary_transcript	A primary transcript encoding for one gene product.	1047	0	0
310	12	supercontig	One or more contigs that have been ordered and oriented using end-read information. Contains gaps that are filled with N's.	385	0	0
55472	12	scaRNA	A ncRNA, specific to the Cajal body, that has been demonstrated to function as a guide RNA in the site-specific synthesis of 2'-O-ribose-methylated nucleotides and pseudouridines in the RNA polymerase II-transcribed U1, U2, U4 and U5 spliceosomal small nuclear RNAs (snRNAs).	3073826	0	0
42869	17	long lateral tassel branch meristem	The meristem that gives rise to the long lateral branch in the maize tassel.	97609	0	0
42807	17	carpel	A megasporophyll, almost always at the center of a flower, its margins more or less fused together or with other carpels to enclose the ovule(s).	97430	0	0
1267	12	beta_strand	A beta strand describes a single length of polypeptide chain that forms part of a beta sheet. A single continuous stretch of amino acids adopting an extended conformation of hydrogen bonds between the N-O and the C=O of another part of the peptide. This forms a secondary protein structure in which two or more extended polypeptide regions are hydrogen-bonded to one another in a planar array.	1680	0	0
42287	17	epidermal cork cell	One of the two types of short cells in the epidermis of grasses and bamboos. It is usually paired with silica cell.	96725	0	0
42486	17	carpel vascular system	A phyllome vascular system that includes the totality of the portions of vascular tissue in their specific arrangement in a carpel.	97008	0	0
43552	17	spore capsule calyptra	A cardinal organ part (PO:0025001) that develops from an archegonium (PO:0025126) and is a cap or hood enclosing the sporangium (syn: spore capsule; PO:0025094).	98552	0	0
1872	12	H3K36_trimethylation_site	A kind of histone modification site, whereby the 36th residue (a lysine), from the start of the H3 histone protein is tri-methylated.	2564	0	0
42522	17	vascular cambium	A cambium (PO:0005597) that is located between and gives rise to secondary xylem (PO:0005848) and secondary phloem (PO:0005043).	90030	0	0
42677	17	seed chalaza	A remnant of the ovular chalaza that is part of the seed.	97248	0	0
1534	12	five_taurinomethyl_two_thiouridine	5_taurinomethyl_2_thiouridineis a modified uridine base feature.	2146	0	0
483	12	mRNA_with_plus_1_frameshift	An mRNA with a plus 1 frameshift.	622	0	0
1537	12	five_isopentenylaminomethyl_two_prime_O_methyluridine	5_isopentenylaminomethyl_2prime_O_methyluridine is a modified uridine base feature.	2152	0	0
1243	12	cross_link (obsolete SO:0001087)	Posttranslationally formed amino acid bonds.	1627	1	0
55478	12	8_oxoadenine	A modified DNA adenine base,at the 8 carbon, often the product of DNA damage.	3073836	0	0
55515	12	signature	A region of  sequence where developer information is encoded.	3073879	0	0
55416	12	sense_overlap_ncRNA	A non-coding transcript that contains a protein coding gene within its intronic sequence on the same strand, with no overlap of exonic sequence.	3073759	0	0
286	12	transcriptionally_constitutive	Expressed in relatively constant amounts without regard to cellular environmental conditions such as the concentration of a particular substrate.	356	0	0
42428	17	ray secondary xylem parenchyma	A portion of secondary xylem parenchyma (PO:0004532) that is part of a ray system (PO:0025411) and has as parts ray secondary xylem parenchyma cells (PO:0004527).	96934	0	0
466	12	type_II_enzyme_restriction_site (obsolete SO:0000304)	The recognition site is either palindromic, partially palindromic or an interrupted palindrome. Cleavage occurs within the recognition site.	598	1	0
43190	17	branch stele	A shoot axis stele that is part of a branch.	98079	0	0
43508	17	protoxylem tracheary element	A primary xylem tracheary element (PO:0025444) with predominately annular or helical secondary wall thickening that are the first formed tracheary elements (PO:0000290) at a particular location.	98489	0	0
55487	12	pseudogenic_transcript_with_retained_intron	A transcript supported by EST and/or mRNA evidence that aligns unambiguously to the pseudogene locus; has retained intronic sequence compared to a reference transcript sequence.	3073846	0	0
1427	12	tRNA_gene	\N	1937	0	0
1753	12	complex_change_of_translational_product_variant	\N	2427	0	0
234	12	end_overlapping_gene (obsolete SO:0000072)	\N	294	1	0
1751	12	complex_3D_structural_variant	A sequence variant that changes the resulting polypeptide structure.	2425	0	0
2074	12	telomeric_transcript	A non-coding transcript derived from thetranscript of the telomere.	2856	0	0
680	12	V_DJ_J_cluster	Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one DJ-gene and one J-gene.	903	0	0
43442	17	bract primordium	A phyllome primordium (PO:0025487) that is committed to the development of a flower bract (PO:0009055).	98394	0	0
182	12	asymmetric_RNA_internal_loop	An internal RNA loop where one of the strands includes more bases than the corresponding region on the other strand.	221	0	0
1259	12	polypeptide_zinc_ion_contact_site	A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with zinc ions.	1662	0	0
42901	17	integument	A portion of plant tissue (PO:0009007) that usually covers a plant ovule (PO:0020003), enveloping a nucellus (PO:0020020) and forming a micropyle (PO:0020025) at the apex.	89932	0	0
1604	12	lysine	\N	2245	0	0
547	12	RNase_P_RNA	The RNA component of Ribonuclease P (RNase P), a ubiquitous endoribonuclease, found in archaea, bacteria and eukarya as well as chloroplasts and mitochondria. Its best characterized activity is the generation of mature 5 prime ends of tRNAs by cleaving the 5 prime leader elements of precursor-tRNAs. Cellular RNase Ps are ribonucleoproteins. RNA from bacterial RNase Ps retains its catalytic activity in the absence of the protein subunit, i.e. it is a ribozyme. Isolated eukaryotic and archaeal RNase P RNA has not been shown to retain its catalytic function, but is still essential for the catalytic activity of the holoenzyme. Although the archaeal and eukaryotic holoenzymes have a much greater protein content than the bacterial ones, the RNA cores from all the three lineages are homologous. Helices corresponding to P1, P2, P3, P4, and P10/11 are common to all cellular RNase P RNAs. Yet, there is considerable sequence variation, particularly among the eukaryotic RNAs.	720	0	0
42380	17	primary root differentiation zone	A root differentiation zone that is part of a primary root.	96873	0	0
1644	12	noncontiguous_finished	The status of a whole genome sequence, where the assembly is high quality, closure approaches have been successful for most gaps, misassemblies and low quality regions.	2293	0	0
42816	17	glume	One of a pair of inflorescence bracts that is part of a spikelet and subtends the two florets.	97471	0	0
42702	17	lower glume of ear spikelet	A lower glume that is part of an ear spikelet.	97283	0	0
43461	17	phyllome lamina tooth	A cardinal organ part (PO:0025001) that is an angular projection on a phyllome margin (PO:0025018) for which the corresponding phyllome sinus (PO:0025383) extends less than one quarter of the distance to the center of the long axis of the phyllome lamina (PO:0025396).	98425	0	0
319	12	phagemid	A plasmid which carries within its sequence a bacteriophage replication origin. When the host bacterium is infected with "helper" phage, a phagemid is replicated along with the phage DNA and packaged into phage capsids.	399	0	0
42899	17	megaspore	The larger, in general, of the two kinds of spores produced after meiosis in the life cycle of a heterosporous plant, and on germination giving rise to the female gametophyte (embryo sac).	97659	0	0
667	12	D_DJ_J_C_cluster	Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one D-gene, one DJ-gene, one J-gene and one C-gene.	890	0	0
42800	17	meristem L3 layer	A portion of meristem tissue (PO:0009013) beneath a meristem L2 layer (PO:0009021) in a shoot apical meristem (PO:0020148) which gives rise to internal tissues of leaf and stem.	97420	0	0
1090	12	anchor_region	A region of a guide_RNA that base-pairs to a target mRNA.	1405	0	0
887	12	repeat_unit	The simplest repeated component of a repeat region. A single repeat.	1170	0	0
2201	12	mutation_causing_polypeptide_C_terminal_elongation (obsolete SO:1000101)	.	3009	1	0
43532	17	spore capsule mouth	A plant anatomical space that is the opening on the apical end of a spore capsule.	98521	0	0
981	12	chloroplast_chromosome	A chromosome originating in a chloroplast.	1284	0	0
42713	17	lower glume of sessile spikelet of tassel	A lower glume of tassel spikelet that is part of a tassel sessile spikelet.	97294	0	0
278	12	edited	An attribute describing a sequence that is modified by editing.	347	0	0
43380	17	albuminous cell	A parenchyma cell (PO:0000074) that is morphologically and physiologically associated with a sieve cell (PO:0025415) but does is not derived from the same initial cell (PO:0004011) as the sieve cell.	98322	0	0
55494	12	non_coding_transcript_intron_variant	A transcript variant occurring within an intron of a non coding transcript.	3073853	0	0
43545	17	perichaetal bract	A bract (PO:0009055) that subtends an archegonium (PO:0025126).	98542	0	0
2196	12	sequence_variant_causing_amino_acid_insertion (obsolete SO:1000096)	The insertion of one or more amino acids from the polypeptide, without affecting the surrounding sequence.	3004	1	0
42762	17	trichome branch (obsolete PO:0008031)	OBSOLETE. The branch on a trichome.	97349	1	0
1223	12	compositionally_biased_region_of_peptide	Polypeptide region that is rich in a particular amino acid or homopolymeric and greater than three residues in length.	1583	0	0
245	12	macronuclear_sequence	\N	306	0	0
43365	17	palisade mesophyll intercellular space	A leaf mesophyll intercellular space that is part of a palisade mesophyll.	98303	0	0
55535	12	LINE1_deletion	A deletion of a LINE1 mobile element with respect to a reference.	3073903	0	0
42492	17	plant ovary wall middle layer	A portion of chlorenchyma tissue (PO:0005426) that is part of the plant ovary wall (PO:0005022) and is composed of mesophyll cells (PO:0004006).	97017	0	0
43364	17	phyllome lamina	A plant organ lamina (PO:0025513) that is part of a phyllome (PO:0006001).	98302	0	0
151	12	started_by	\N	177	0	1
42826	17	spikelet	A reproductive shoot system (PO:0025082) that is the ultimate and congested inflorescence branch (PO:0009081) of the grasses.	97500	0	0
42724	17	lower glume of pedicellate spikelet of ear	A lower glume of ear spikelet that is part of an ear pedicellate spikelet.	97305	0	0
55338	12	short_tandem_repeat_variation	A variation that expands or contracts a tandem repeat with regard to a reference.	3073650	0	0
1712	12	polypeptide_localization_variant	A sequence variant which changes the localization of a polypeptide with respect to a reference sequence.	2371	0	0
1734	12	coding_sequence_variant	A sequence variant that changes the coding sequence.	2395	0	0
55489	12	lncRNA_gene	A gene that encodes a long non-coding RNA.	3073848	0	0
138	12	non_functional_homolog_of	\N	164	0	1
2003	12	CCAAT_motif	A promoter element with consensus sequence CCAAT, bound by a protein complex that represses transcription in response to low iron levels.	2754	0	0
1393	12	amino_acid	A sequence feature that corresponds to a single amino acid residue in a polypeptide.	1895	0	0
43140	17	petal tip	A phyllome tip that is part of a petal apex.	98019	0	0
42976	17	tassel inflorescence	A staminate inflorescence (PO:0025601) in Zea species that bears the tassel spikelet (PO:0006309) on a terminal inflorescence axis (PO:0020122).	97789	0	0
43372	17	phyllome marginal meristem	A portion of meristem (PO:0009013) tissue that is part of a phyllome margin (PO:0025018) of an expanding phyllome (PO:0006001) and has as parts marginal and submarginal initials.	98311	0	0
904	12	apicoplast_sequence	\N	1194	0	0
42399	17	silica cell	Cells with deposits of silica in them. One of the two types of short cells in the epidermis of grasses and bamboos. It is usually paired with epidermal cork cell.	96898	0	0
1182	12	haplotype	A haplotype is one of a set of coexisting sequence variants of a haplotype block.	1521	0	0
165	12	satellite_DNA	The many tandem repeats (identical or related) of a short basic repeating unit; many have a base composition or other property different from the genome average that allows them to be separated from the bulk (main band) genomic DNA.	194	0	0
43373	17	leaf marginal meristem	A portion of phyllome marginal meristem (PO:0025404) tissue that is part of a leaf margin (PO:0025009) of a vascular leaf (PO:0009025) during a leaf expansion stage (PO:0001052) and has parts marginal and submarginal initials.	98313	0	0
55443	12	five_prime_sticky_end_restriction_enzyme_cleavage_site	A restriction enzyme recognition site that, when cleaved, results in 5 prime overhangs.	3073794	0	0
1505	12	four_thiouridine	4_thiouridine is a modified uridine base feature.	2089	0	0
970	12	invalidated_cDNA_clone	A cDNA clone that is invalid.	1270	0	0
43557	17	peristome	A single or double circle of peristome teeth inside a sporangium mouth.	98562	0	0
1580	12	ligation_based_read	A read produced by ligation based sequencing technologies.	2219	0	0
1081	12	substitute_C_to_U (obsolete SO:0000922)	An edit to substitute an U for a C.	1396	1	0
2104	12	peptide_coil	Irregular, unstructured regions of a protein's backbone, as distinct from the regular region (namely alpha helix and beta strand - characterised by specific patterns of main-chain hydrogen bonds).	2892	0	0
43193	17	microsporangium	A sporangium (PO:0025094) in which microspores (PO:0020048) are produced.	98083	0	0
43015	17	carpel margin	The margin of a carpel.	97839	0	0
385	12	methionine_tRNA_primary_transcript	A primary transcript encoding methionyl tRNA (SO:0000266).	493	0	0
847	12	translocation_element	A chromosomal translocation whereby the chromosomes carrying non-homologous centromeres may be recovered independently. These chromosomes are described as translocation elements. This occurs for some translocations, particularly but not exclusively, reciprocal translocations.	1118	0	0
135	12	lost	\N	161	0	1
55356	12	sequence_length_variant	A sequence variant that changes the length of one or more sequence features.	3073673	0	0
1925	12	somatic_variant	\N	2623	0	0
1311	12	beta_turn_type_eight	A motif of four consecutive peptide residues that may contain one H-bond, which, if present, is between the main-chain CO of the first residue and the main-chain NH of the fourth and is characterized by the dihedral angles: Residue(i+1): phi ~ -60 degrees, psi ~ -30 degrees. Residue(i+2): phi ~ -120 degrees, psi ~ 120 degrees.	1770	0	0
1290	12	beta_turn_left_handed_type_one	Left handed type I:A motif of four consecutive residues that may contain one H-bond, which, if present, is between the main-chain CO of the first residue and the main-chain NH of the fourth. It is characterized by the dihedral angles:- Residue(i+1): -140 degrees > phi > -20 degrees, -90 degrees > psi > +40 degrees. Residue(i+2): -140 degrees > phi > -20 degrees, -90 degrees > psi > +40 degrees.	1731	0	0
1006	12	tmRNA_region	A region of a tmRNA.	1312	0	0
1242	12	sequence_uncertainty	Describes the positions in a sequence where the authors are unsure about the sequence assignment.	1625	0	0
2250	12	unoriented_insertional_duplication	An insertional duplication where a copy of the segment between the first two breaks listed is inserted at the third break; the orientation of the insertion with respect to its flanking segments is not recorded.	3062	0	0
139	12	orthologous_to	\N	165	0	1
43188	17	stele	A cardinal organ part (PO:0025001) that is the central column of a plant axis that consists of the primary vascular tissue and associated ground tissue.	98076	0	0
55491	12	dominant_negative_variant	A variant where the mutated gene product adversely affects the other (wild type) gene product.	3073850	0	0
1944	12	centromeric_repeat	A repeat region found within the modular centromere.	2649	0	0
1761	12	elongated_polypeptide_C_terminal	A sequence variant with in the CDS that causes elongation of the resulting polypeptide sequence at the C terminus.	2435	0	0
42706	17	ear apical meristem	An inflorescence apical meristem that gives rise to the maize ear.	97287	0	0
570	12	binding_site	A biological_region of sequence that, in the molecule, interacts selectively and non-covalently with other molecules. A region on the surface of a molecule that may interact with another molecule. When applied to polypeptides: Amino acids involved in binding or interactions. It can also apply to an amino acid bond which is represented by the positions of the two flanking amino acids.	777	0	0
1987	12	GATA_box	A GATA transcription factor element containing the consensus sequence WGATAR (in which W indicates A/T and R indicates A/G).	2713	0	0
924	12	fosmid_clone (obsolete SO:0000763)	\N	1216	1	0
640	12	trans_spliced_transcript	A transcript that is trans-spliced.	862	0	0
59182	17	ear infructescence axis	A first order infructescence axis (PO:0025244) in an ear infructescence (PO:0025597) that bears kernels (i.e. caryopsis fruit; PO:0030104).	3080667	0	0
42576	17	sepal epidermis	A portion of phyllome epidermis (PO:0025157) that is part of a sepal (PO:0009031).	97127	0	0
42577	17	petal epidermis	A portion of phyllome epidermis (PO:0025157) that is part of a petal (PO:0009032).	97128	0	0
2018	12	PCB	A promoter element with consensus sequence GNAACR, bound by the transcription factor complex PBF (PCB-binding factor) and found in promoters of genes expressed during the M/G1 transition of the cell cycle.	2781	0	0
389	12	threonine_tRNA_primary_transcript	A primary transcript encoding threonyl tRNA (SO:000270).	497	0	0
1443	12	N4_acetyl_2_prime_O_methylcytidine	N4-acetyl-2'-O-methylcytidine is a modified cytidine.	1963	0	0
43537	17	gametophore stem	A stem that is part of a gametophore.	98529	0	0
505	12	match	A region of sequence, aligned to another sequence with some statistical significance, using an algorithm such as BLAST or SIM4.	652	0	0
42948	17	seed as dispersal unit (obsolete PO:0020081)	OBSOLETE.	97742	1	0
721	12	D_J_cluster	Genomic DNA of immunoglobulin/T-cell receptor gene in germline configuration including at least one D-gene and one J-gene.	950	0	0
293	12	translationally_regulated	An attribute describing a gene that is regulated as it is translated.	363	0	0
42572	17	leaflet margin	A cardinal organ part (PO:0025001) that is the edge of a leaflet (PO:0020049) and the area immediately internally adjacent to it.	97120	0	0
523	12	invalidated_by_chimeric_cDNA	A cDNA clone constructed from more than one mRNA. Usually an experimental artifact.	677	0	0
55559	12	modified_guanine	A modified guanine DNA base feature.	3073933	0	0
42346	17	protoxylem	A portion of primary xylem (PO:0000272) tissue that has as part one or more protoxylem tracheary elements (PO:0025575) embedded in parenchyma (PO:0005421) tissue.	96817	0	0
1533	12	five_taurinomethyluridine	5_taurinomethyluridine is a modified uridine base feature.	2144	0	0
670	12	D_J_C_cluster	Genomic DNA of immunoglobulin/T-cell receptor gene in germline configuration including at least one D-gene, one J-gene and one C-gene.	893	0	0
675	12	J_nonamer	9 nucleotide recombination site (e.g. GGTTTTTGT), part of a J-gene recombination feature of an immunoglobulin/T-cell receptor gene.	898	0	0
1955	12	mitochondrial_targeting_signal	A polypeptide region that targets a polypeptide to the mitochondrion.	2670	0	0
1064	12	status	An attribute describing the status of a feature, based on the available evidence.	1377	0	0
2183	12	sequence_variant_affecting_rate_of_transcription (obsolete SO:1000081)	A mutation that alters the rate a which transcription of the sequence occurs.	2989	1	0
963	12	assortment_derived_deficiency	A multi-chromosome deficiency aberration generated by reassortment of other aberration components.	1263	0	0
1998	12	iron_repressed_GATA_element	A GATA promoter element with consensus sequence WGATAA, found in promoters of genes repressed in the presence of iron.	2743	0	0
1995	12	homol_D_box	A core promoter element that has the consensus sequence CAGTCACA (or its inverted form TGTGACTG), and plays the role of a TATA box in promoters that do not contain a canonical TATA sequence.	2736	0	0
43167	17	stem trichome	A shoot axis trichome that is part of a stem epidermis.	98053	0	0
855	12	SNP	SNPs are single base pair positions in genomic DNA at which different sequence alternatives exist in normal individuals in some population(s), wherein the least frequent variant has an abundance of 1% or greater.	1127	0	0
42292	17	seminal root	An embryo root (PO:0000045) formed within the scutellar node (PO:0004708) of the plant embryo (PO:0009009) in some monocotyledonous plants.	96733	0	0
42571	17	palea apiculus	A cardinal organ part (PO:0025001) which is a short, abrupt, flexible point at the apex of the palea (PO:0009038).	97119	0	0
42532	17	salt gland	A specialized tissue where excess salt absorbed in water from the soil is concentrated, being stores or excreted.	97066	0	0
2150	12	chromosomal_translocation	An interchromosomal mutation. Rearrangements that alter the pairing of telomeres are classified as translocations.	2951	0	0
1409	12	polyploid	A kind of chromosome variation where the chromosome complement is an exact multiple of the haploid number and is greater than the diploid number.	1914	0	0
502	12	chromosome	Structural unit composed of a nucleic acid molecule which controls its own replication through the interaction of specific proteins at one or more origins of replication.	647	0	0
1363	12	T7_RNA_Polymerase_Promoter	A region (DNA) to which the T7 RNA polymerase binds, to begin transcription.	1851	0	0
43003	17	collective plant organ structure	A collective plant structure (PO:0025497) that is a proper part of a whole plant (PO:0000003), and is composed of two or more adjacent plant organs (PO:0009008) and the associated portions of plant tissue (PO:0009007).	97823	0	0
2279	12	orphan_CDS	A CDS whose predicted amino acid sequence is unsupported by any experimental evidence or by any match with any other known sequence.	3091	0	0
1853	12	H3K4_monomethylation_site	A kind of histone modification, whereby the 4th residue (a lysine), from the start of the H3 protein is mono-methylated.	2543	0	0
1946	12	regional_centromere_outer_repeat_region	The heterochromatic outer repeat region of a modular centromere. These repeats exist in tandem arrays on both chromosome arms.	2651	0	0
1477	12	seven_aminomethyl_seven_deazaguanosine	7_aminomethyl_7_deazaguanosine is a modified 7-deazoguanosine.	2032	0	0
1402	12	synthetic_oligo	An oligo composed of synthetic nucleotides.	1906	0	0
430	12	prolyl_tRNA	A tRNA sequence that has a proline anticodon, and a 3' proline binding region.	546	0	0
1076	12	insert_U (obsolete SO:0000917)	An edit to insert a U.	1391	1	0
42643	17	endotegmen	A portion of seed coat epidermis (PO:0006048) which is part of the seed coat (PO:0009088) and develops from the inner epidermis of the inner integument (PO:0020022).	97208	0	0
43208	17	carpel stomatal complex	A phyllome stomatal complex that is part of a carpel.	98101	0	0
1078	12	substitute_A_to_I (obsolete SO:0000919)	An edit to substitute an I for an A.	1393	1	0
893	12	predicted	An attribute describing an unverified region.	1178	0	0
1028	12	plus_2_framshift	A frameshift caused by inserting two bases.	1339	0	0
917	12	cDNA	DNA synthesized by reverse transcriptase using RNA as a template.	1208	0	0
42664	17	spikelet pedicel	Inflorescence branch that terminates in a spikelet.	97231	0	0
1285	12	asx_turn_left_handed_type_one	Left handed type I (dihedral angles):- Residue(i): -140 degrees < chi (1) -120 degrees < -20 degrees, -90 degrees < psi +120 degrees < +40 degrees. Residue(i+1): -140 degrees < phi < -20 degrees, -90 degrees < psi < +40 degrees.	1721	0	0
42562	17	leaf adaxial epidermis	A portion of leaf epidermis (PO:0006016) that covers the adaxial/upper surface of a leaf.	97109	0	0
1431	12	modified_guanosine	\N	1941	0	0
1687	12	cryptic_splice_site	A splice site that is in part of the transcript not normally spliced. They occur via mutation or transcriptional error.	2345	0	0
42757	17	petiole distal end	The region of the petiole distal to its stem attachment site or proximal to the leaf lamina.	97344	0	0
1131	12	RNA_replication_mode (obsolete SO:0000972)	\N	1449	1	0
43240	17	leaf sheath abaxial epidermis	A portion of leaf sheath epidermis that covers the abaxial/lower surface of a leaf sheath.	98137	0	0
43016	17	stamen margin	The margin of a stamen.	97840	0	0
1910	12	variant_origin	A quality inhering in a variant by virtue of its origin.	2608	0	0
42672	17	spikelet meristem	An inflorescence apical meristem that gives rise to the two or more florets of a grass inflorescence.	97242	0	0
2278	12	CDS_independently_known	A CDS with the evidence status of being independently known.	3090	0	0
999	12	repeat_component	A region of a repeated sequence.	1305	0	0
701	12	DJ_J_C_cluster	Genomic DNA in rearranged configuration including at least one D-J-GENE, one J-GENE and one C-GENE.	924	0	0
1060	12	unequally_crossed_over (obsolete SO:0000901)	An attribute describing a pseudogene that was created by tandem duplication and unequal crossing over during recombination.	1372	1	0
2033	12	transcript_fusion	A feature fusion where the deletion brings together transcript regions.	2799	0	0
43187	17	basal endosperm transfer layer	A portion of plant tissue (PO:0009007) that is part of an endosperm (PO:0009089) and is composed of basal endosperm transfer cells (PO:0009018).	98075	0	0
43336	17	pneumatorhiza	A small lateral root that grows from a prop root and has a mealy surface texture.	98260	0	0
42852	17	pistillode	A sterile pistil, often rudimentary.	97581	0	0
2289	12	mRNA_recoded_by_translational_bypass	A recoded_mRNA where translation was suspended at a particular codon and resumed at a particular non-overlapping downstream codon.	3103	0	0
59169	17	megasporangiate strobilus	A strobilus (PO:0025083) that bears only plant ovules (PO:0020003).	3080642	0	0
461	12	specific_recombination_site	\N	592	0	0
575	12	invalidated_by_genomic_contamination	An attribute to describe a feature that is invalidated due to genomic contamination.	786	0	0
1939	12	non_coding_exon_variant	A sequence variant that changes non-coding exon sequence.	2642	0	0
43332	17	cladode	A shoot axis that is flattened and expanded.	98254	0	0
1203	12	cointegrated_plasmid	A MGE region consisting of two fused plasmids resulting from a replicative transposition event.	1552	0	0
844	12	exonic_splice_enhancer	Exonic splicing enhancers (ESEs) facilitate exon definition by assisting in the recruitment of splicing factors to the adjacent intron.	1114	0	0
55521	12	start_lost	A codon variant that changes at least one base of the canonical start codon.	3073887	0	0
1588	12	cassette_pseudogene	A cassette pseudogene is a kind of gene in an inactive form which may recombine at a telomeric locus to form a functional copy.	2229	0	0
1684	12	lysosomal_localization_signal	A polypeptide region that targets a polypeptide to the lysosome.	2340	0	0
43479	17	phloem sap	A plant sap (PO:0025538) that is an aqueous solution which may contain sugars, mineral elements, and plant hormones, and is transported through the phloem sieve elements (PO:0025406).	98451	0	0
42439	17	epicormic shoot system	A shoot-borne shoot system (PO:0004546) developing from a stem (PO:0009047).	96950	0	0
364	12	three_prime_coding_exon	The coding exon that is most 3-prime on a given transcript.	468	0	0
42403	17	epidermal cell	A native plant cell (PO:0025606) that is part of a portion of epidermis (PO:0005679).	96904	0	0
43284	17	seedling mesocotyl	A mesocotyl (PO:0020037) that develops from an embryo mesocotyl (PO:0025294).	98187	0	0
43487	17	rosette paraclade	A primary inflorescence branch (PO:0006321) borne on the compacted first order inflorescence axis (PO:0025104), forming the rosette.	98464	0	0
42687	17	pollen tube (obsolete PO:0006345)	OBSOLETE. A tubular cell extension formed by the germinating pollen grain; carries the male gametes into the ovule.	97266	1	0
43247	17	primary root elongation zone	A root elongation zone (PO:0025181) that is part of a primary root tip (PO:0000026).	98144	0	0
1897	12	SL4_acceptor_site	A SL2_acceptor_site which appends the SL4 RNA leader sequence to the 5' end of an mRNA. SL4 acceptor sites occur in genes in internal segments of polycistronic transcripts.	2594	0	0
2085	12	gene_array	An array includes two or more genes, or two or more gene subarrays, contiguously arranged where the individual genes, or subarrays, are either identical in sequence, or essentially so.	2870	0	0
42440	17	subterranean shoot axis tuber	A shoot axis tuber (PO:0004543) that develops below ground.	96951	0	0
59205	17	capsule fruit	A fruit (PO:0009001) which develops from a gynoecium (PO:0009062) and at maturity comprises a dry exocarp (PO:0009085), dry mesocarp (PO:0009087), and dry endocarp (PO:0009086) that usually dehisce.	3080706	0	0
668	12	pseudogenic_exon	A non functional descendant of an exon, part of a pseudogene.	891	0	0
42465	17	hypocotyl-root junction	A cardinal organ part (PO:0025001) that is the part of a plant axis (PO:0025004) where a radicle (PO:0020031) joins a hypocotyl (PO:0020100).	96977	0	0
43289	17	embryo hypocotyl-root junction	A hypocotyl-root junction (PO:0004724) that is part of an plant embryo axis (PO:0019018).	98193	0	0
43344	17	leaf rachis tendril	A leaf rachis that is slender and coiling and lacks a lamina.	98269	0	0
2090	12	selenocysteine_tRNA_primary_transcript	A primary transcript encoding seryl tRNA (SO:000269).	2877	0	0
859	12	gene_with_stop_codon_redefined_as_pyrrolysine	A gene encoding an mRNA that has the stop codon redefined as pyrrolysine.	1132	0	0
130	12	has_quality	\N	156	0	1
869	12	SL1_acceptor_site	A trans_splicing_acceptor_site which appends the 22nt SL1 RNA leader sequence to the 5' end of most mRNAs.	1145	0	0
55541	12	RNA_thermometer	An RNA_thermometer is a cis element in the 5' end of an mRNA that can change its secondary structure in response to temperature and coordinate temperature-dependent gene expression.	3073911	0	0
43593	17	rhizoid	A plant structure (PO:0009011) that is a uniseriate filament with positive geotropism that grows from an epidermis (PO:0005679) or protonema (PO:0030003).	98624	0	0
1980	12	V_region	The variable region of an immunoglobulin polypeptide sequence.	2704	0	0
1002	12	bacterial_RNApol_promoter_region (obsolete SO:0000843)	A region which is part of a bacterial RNA polymerase promoter.	1308	1	0
958	12	natural_transposable_element	TE that exists (or existed) in nature.	1257	0	0
868	12	trans_splice_donor_site	The 5' five prime splice site region of the donor RNA.	1144	0	0
42560	17	leaf epidermis	A portion of phyllome epidermis (PO:0025157) that is part of a leaf (PO:0025034).	97107	0	0
410	12	sequence_length_variation	\N	522	0	0
59195	17	staminate flower	A flower (PO:0009046) that includes as part an androecium (PO:0009061), and the gynoecium (PO:0009062) is absent or has aborted during development.	3080690	0	0
2215	12	sequence_variant_affecting_polypeptide_function (obsolete SO:1000117)	\N	3025	1	0
1482	12	two_prime_O_methylguanosine	2prime_O_methylguanosine is a modified guanosine base feature.	2042	0	0
1831	12	sequence_motif	A sequence motif is a nucleotide or amino-acid sequence pattern that may have biological significance.	2516	0	0
909	12	proplastid_sequence	\N	1199	0	0
42787	17	plant organ	A multi-tissue plant structure (PO:0025496) that is a functional unit, is a proper part of a whole plant (PO:0000003), and includes portions of plant tissue (PO:0009007) of at least two different types that derive from a common developmental path.	97399	0	0
1986	12	CSL_response_element	A promoter element with consensus sequence GTGRGAA, bound by CSL (CBF1/RBP-JK/Suppressor of Hairless/LAG-1) transcription factors.	2711	0	0
578	12	polypeptide_domain	A structurally or functionally defined protein region. In proteins with multiple domains, the combination of the domains determines the function of the protein. A region which has been shown to recur throughout evolution.	789	0	0
42722	17	rachilla of pedicellate spikelet of ear	The axis of the ear pedicellate spikelet, above the glumes.	97303	0	0
43390	17	gelatinous fiber cell	A xylem fiber cell (PO:0000274) in which the inner-most layer of the secondary cell wall (GO:0009531) contains abundant cellulose and is poor in lignin.	98331	0	0
2048	12	AACCCT_box	A conserved 17-bp sequence (5'-ATCA(C/A)AACCCTAACCCT-3') commonly present upstream of the start site of histone transcription units functioning as a transcription factor binding site.	2816	0	0
1804	12	metal_binding_site	A binding site that, in the molecule, interacts selectively and non-covalently with metal ions.	2486	0	0
727	12	V_VJ_J_C_cluster	Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one VJ-gene, one J-gene and one C-gene.	956	0	0
42957	17	polar nucleus (obsolete PO:0020095)	OBSOLETE. Usually two nuclei in the center of the eight-nucleate embryo sac that fuse, and subsequently fuse with one of the male gametes to produce the endosperm.	97757	1	0
42607	17	primary phloem	A portion of phloem (PO:0005417) tissue that develops from the procambium (PO:0025275).	97165	0	0
42893	17	tectum (obsolete PO:0020013)	OBSOLETE. The layer of sexine, which forms a roof over the columellae, granules or other infratectal elements.	97653	1	0
42812	17	nectary	A portion of secretory tissue (PO:0005656) which is a multicellular glandular structure secreting a liquid containing organic substances, including sugars.	97443	0	0
42567	17	bundle sheath	A portion of ground tissue (PO:0025059) which comprises a layer or layers of cells surrounding the vascular bundles (PO:0005020) of leaves. It may consist of parenchyma (PO:0005421) or sclerenchyma (PO:0005427).	97115	0	0
42601	17	petal parenchyma	A portion of parenchyma (PO:0005421) tissue that is part of a petal (PO:0009032).	97157	0	0
43451	17	multi-tissue plant structure	A plant structure (PO:0009011) that has as parts two or more portions of plant tissue (PO:0009007) of at least two different types and which through specific morphogenetic processes forms a single structural unit demarcated by primarily bona-fide boundaries from other structural units of different types.	98404	0	0
1758	12	conservative_amino_acid_substitution	A sequence variant of a codon causing the substitution of a similar amino acid for another in the resulting polypeptide.	2432	0	0
43520	17	chloronema	A portion of protonema tissue that consists of only chloronema cells.	98507	0	0
1033	12	edited_transcript_by_A_to_I_substitution	A transcript that has been edited by A to I substitution.	1344	0	0
42535	17	epidermis	A portion of plant tissue (PO:0009007) composed of epidermal cells (PO:0004013) that develops from the protoderm (PO:0006210) and covers the surface of a plant structure (PO:0009011).	97069	0	0
42887	17	funicle	A stalk (PO:0025066) that attaches a plant ovule (PO:0020003) to a placenta (PO:0025078).	97645	0	0
1093	12	miRNA_target_site	A miRNA target site is a binding site where the molecule is a micro RNA.	1409	0	0
1903	12	SL10_acceptor_site	A SL2_acceptor_site which appends the SL10 RNA leader sequence to the 5' end of an mRNA. SL10 acceptor sites occur in genes in internal segments of polycistronic transcripts.	2600	0	0
2056	12	frameshift_elongation	A frameshift variant that causes the translational reading frame to be extended relative to the reference feature.	2828	0	0
43321	17	disk flower	A small flower (PO:0009046) in the center of a head-type (capitulum) inflorescence (PO:0009049).	98236	0	0
272	12	sequence_feature	An extent of biological sequence.	340	0	0
43448	17	non-pericyclic lateral root primordium	A lateral root primordium (PO:0000016) that develops from a portion of plant tissue (PO:0009007) other than a pericycle (PO:0006203) and is committed to the development of a non-pericyclic lateral root (PO:0025495).	98400	0	0
1232	12	membrane_peptide_loop	Polypeptide region localized within the lipid bilayer where both ends traverse the same membrane.	1601	0	0
412	12	modified_RNA_base_feature	A post_transcriptionally modified base.	524	0	0
1884	12	H3K9_methylation_site	A kind of histone modification site, whereby the 9th residue (a lysine), from the start of the H3 histone protein is methylated.	2577	0	0
2013	12	BAC_read_contig	A contig of BAC reads.	2775	0	0
435	12	valyl_tRNA	A tRNA sequence that has a valine anticodon, and a 3' valine binding region.	551	0	0
55560	12	H2BK15_acetylation_site	A kind of histone modification site, whereby the 15th residue (a lysine), from the start of the H2B histone protein is acetylated.	3073934	0	0
42924	17	hyperphyll	The unifacial terete apical portion of a monocot cotyledon, sometimes also visible on other leaves.	97710	0	0
1012	12	homologous_region	A region that is homologous to another region.	1318	0	0
767	12	editing_domain	Edited mRNA sequence mediated by two or more overlapping guide RNAs (SO:0000602).	1014	0	0
347	12	primary_transcript	A transcript that in its initial state requires modification to be functional.	446	0	0
521	12	codon	A set of (usually) three nucleotide bases in a DNA or RNA sequence, which together code for a unique amino acid or the termination of translation and are contained within the CDS.	673	0	0
367	12	three_prime_UTR	A region at the 3' end of a mature transcript (following the stop codon) that is not translated into a protein.	472	0	0
42490	17	plant ovary abaxial epidermis	A portion of ovary epidermis (PO:0006063) which is the outer surface of a plant ovary (PO:0009072)..	97015	0	0
2216	12	sequence_variant_causing_loss_of_function_of_polypeptide (obsolete SO:1000118)	\N	3026	1	0
1622	12	three_prime_RST	A tag produced from a single sequencing read from a 3'-RACE product; typically a few hundred base pairs long.	2265	0	0
328	12	enhancer_bound_by_factor	An enhancer bound by a factor.	418	0	0
1126	12	circular_double_stranded_RNA_chromosome	Structural unit composed of a self-replicating, double-stranded, circular RNA molecule.	1443	0	0
59208	17	loculicidal capsule fruit	A capsule fruit (PO:0030091) which at maturity dehisces through fruit locules (PO:0025270).	3080710	0	0
2065	12	5_methylcytosine	A cytosine methylated at the 5 carbon.	2843	0	0
42512	17	schizo-lysigenous aerenchyma (obsolete PO:0005349)	OBSOLETE. Aerenchyma, originating by a combination of two processes, separation and degradation of cell walls.	97043	1	0
43172	17	root elongation zone	A plant axis elongation zone (PO:0025180) that is part of a root tip (PO:0000025) and located proximal to a root apical meristem (PO:0020147).	98058	0	0
43384	17	sieve tube	A portion of phloem tissue (PO:0005417) that has as parts a series of sieve tube elements (PO:0000289) arranged end to end and interconnected through sieve plates.	98325	0	0
997	12	rRNA_primary_transcript_region	A region of an rRNA primary transcript.	1300	0	0
42436	17	shoot axis tuber	A shoot axis (PO:0025029) that develops from a branch (PO:0025073) and is radially enlarged for storage.	96946	0	0
42635	17	protoderm	A portion of meristem tissue (PO:0009013) that is the outer layer of an apical meristem (PO:0020144), or the outer layer of a plant embryo proper (PO:0000001), and gives rise to a portion of epidermis (PO:0005679).	97199	0	0
2145	12	direct_tandem_duplication	A tandem duplication where the individual regions are in the same orientation.	2944	0	0
43588	17	exothecium	A portion of epidermis (PO:0005679) that is the outermost layer of a sporangium wall (PO:0025306).	98616	0	0
1351	12	R_GNA_oligo	An oligo composed of (R)-GNA residues.	1837	0	0
42273	17	lateral root tip	A root tip (PO:0000025) of a lateral root (PO:0020121).	96703	0	0
42481	17	embryo cortex	A portion of cortex (PO:0005708) that is part of a plant embryo (PO:0009009).	96999	0	0
627	12	V_gene_segment	Germline genomic DNA including L-part1, V-intron and V-exon, with the 5' UTR and 3' UTR.	849	0	0
1585	12	cryptic_gene	A gene that is not transcribed under normal conditions and is not critical to normal cellular functioning.	2225	0	0
1389	12	methylinosine	A modified RNA base in which methylhypoxanthine is bound to the ribose ring.	1888	0	0
2109	12	polypeptide_conserved_motif	A conserved motif is a short (up to 20 amino acids) region of biological interest that is conserved in different proteins. They may or may not have functional or structural significance within the proteins in which they are found.	2897	0	0
220	12	assortment_derived_aneuploid (obsolete SO:0000058)	\N	278	1	0
43522	17	meristematic apical cell	A single meristematic cell (PO:0004010) at the tip of a plant structure where apical growth occurs.	98509	0	0
42857	17	pericarp	A portion of plant tissue (PO:0009007) that is the outer layer (wall) of a fruit (PO:0009001), and develops from a plant ovary (PO:0009072) or a carpel (PO:0009030) wall.	97591	0	0
2264	12	sequence_variant_causing_cryptic_splice_acceptor_activation (obsolete SO:1001186)	\N	3076	1	0
816	12	ncRNA	An RNA transcript that does not encode for a protein rather the RNA molecule is the gene product.	1081	0	0
186	12	symmetric_RNA_internal_loop	An internal RNA loop where the extent of the loop on both stands is the same size.	227	0	0
1832	12	experimental_feature_attribute	An attribute of an experimentally derived feature.	2518	0	0
2010	12	GTT_trinucleotide_repeat	A trinucleotide repeat region composed of GTT repeating elements.	2769	0	0
43331	17	areole bud	An axillary vegetative bud (PO:0004712) that is not elongated, in which the vascular leaves (PO:0009025) develop as spine leaves (PO:0025173).	98252	0	0
42645	17	articulated laticifer cell	A laticifer cell (PO:0025031) that is joined longitudinally to other articulated laticifer cells to form a tube.	97210	0	0
55456	12	incomplete_transcript_coding_splice_variant	A sequence variant that intersects the coding sequence near a splice region of an incompletely annotated transcript.	3073807	0	0
1708	12	polypeptide_function_variant	A sequence variant which changes polypeptide functioning with respect to a reference sequence.	2367	0	0
995	12	mRNA_region	A region of an mRNA.	1298	0	0
42788	17	plant embryo	A whole plant (PO:0000003) that participates in the plant embryo stage (PO:0007631).	97401	0	0
55523	12	exonic_splice_region_variant	A sequence variant in which a change has occurred within the exonic region of the splice site, 1-2 bases from boundary.	3073890	0	0
42679	17	seed obturator	An outgrowth of the seed funicle, that forms a bridge between the seed micropyle and other tissues. It is also a remnant form of the obturator found in the ovular funicle.	97250	0	0
1347	12	TNA_oligo	An oligo composed of TNA residues.	1829	0	0
1787	12	rRNA_gene	A gene that encodes for ribosomal RNA.	2461	0	0
932	12	QTL	A quantitative trait locus (QTL) is a polymorphic locus which contains alleles that differentially affect the expression of a continuously distributed phenotypic trait. Usually it is a marker described by statistical association to quantitative variation in the particular phenotypic trait that is thought to be controlled by the cumulative action of alleles at multiple loci.	1227	0	0
43132	17	phyllome tip	The apical most portion of a phyllome apex.	98010	0	0
991	12	promoter_region (obsolete SO:0000832)	A region of sequence which is part of a promoter.	1294	1	0
1685	12	nuclear_export_signal	A polypeptide region that targets a polypeptide to he cytoplasm.	2341	0	0
197	12	riboswitch	A riboswitch is a part of an mRNA that can act as a direct sensor of small molecules to control their own expression. A riboswitch is a cis element in the 5' end of an mRNA, that acts as a direct sensor of metabolites.	244	0	0
1774	12	5_prime_UTR_variant	A UTR variant of the 5' UTR.	2448	0	0
1024	12	frameshift	An attribute describing a sequence that contains a mutation involving the deletion or insertion of one or more bases, where this number is not divisible by 3.	1334	0	0
43492	17	exarch protoxylem	A portion of protoxylem (PO:0000272) tissue in which the maturation of primary xylem (PO:0005849) progresses centripetally, the oldest elements (protoxylem) are farthest from the center of the plant axis (PO:0025004).	98473	0	0
42681	17	juvenile vascular leaf	A vascular leaf that is distinct from adult leaves, being characterized by particular anatomical traits namely, wax and trichome distribution, presence or absence of epidermal cell types, cell wall shape and biochemistry.	97252	0	0
880	12	ultracontig	An ordered and oriented set of scaffolds based on somewhat weaker sets of inferential evidence such as one set of mate pair reads together with supporting evidence from ESTs or location of markers from SNP or microsatellite maps, or cytogenetic localization of contained markers.	1159	0	0
55393	12	L_box	An orientation dependent  regulatory promoter element, with consensus sequence of TTGCACAN4TTGCACA, found in plants.	3073728	0	0
43221	17	columella	A portion of plant tissue (PO:0009007) that forms the central axis of a plant structure such as a fruit (PO:0009001) or moss capsule (sporangium; PO:0025094).	98114	0	0
2135	12	G_to_T_transversion	A transversion from guanine to thymine.	2926	0	0
1780	12	splice_region_variant	A sequence variant in which a change has occurred within the region of the splice site, either within 1-3 bases of the exon or 3-8 bases of the intron.	2454	0	0
2132	12	A_to_C_transversion	A transversion from adenine to cytidine.	2923	0	0
1300	12	st_turn_right_handed_type_one	The peptide twists in an clockwise, right handed manner. The dihedral angles for this turn are: Residue(i): -140 degrees < chi(1) -120 degrees < -20 degrees, -90 degrees psi +120 degrees < +40 degrees, residue(i+1): -140 degrees < phi < -20 degrees, -90 < psi < +40 degrees.	1751	0	0
42700	17	glume of ear spikelet	A glume that is part of an ear spikelet.	97280	0	0
1068	12	supported_by_EST_or_cDNA	An attribute to describe a feature that has been predicted using sequence similarity to EST or cDNA data.	1381	0	0
42704	17	upper glume of ear spikelet	An upper glume that is part of an ear spikelet.	97285	0	0
2057	12	frameshift_truncation	A frameshift variant that causes the translational reading frame to be shortened relative to the reference feature.	2829	0	0
1109	12	attC_site	An attC site is a sequence required for the integration of a DNA of an integron.	1426	0	0
965	12	engineered_region	A region that is engineered.	1265	0	0
42856	17	reproductive structures (obsolete PO:0009083)	OBSOLETE. Aggregation of gamete producing structures.	97590	1	0
43090	17	embryo plant structure	A plant structure (PO:0009011) that is part of an plant embryo (PO:0009009).	97949	0	0
43110	17	plant axis differentiation zone	A cardinal organ part that is part of a plant axis and is located behind the elongation zone and contains cells that are differentiating into their final form and function.	97973	0	0
1353	12	S_GNA_oligo	An oligo composed of (S)-GNA residues.	1840	0	0
244	12	processed_transcript_attribute (obsolete SO:0000082)	\N	305	1	0
191	12	sugar_edge_base_pair	A type of non-canonical base-pairing.	234	0	0
43355	17	plant cuticle proper	A portion of plant substance (PO:0025161) that is the inner layer of a plant cuticle (PO:0000022), composed primarily of cutin (PO:0025385), embedded and overlayed with cuticular wax (PO:0025386).	98286	0	0
1016	12	homologous	Similarity due to common ancestry.	1325	0	0
648	12	VDJ_J_C_cluster	Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one VDJ-gene, one J-gene and one C-gene.	870	0	0
55354	12	interchromosomal_translocation	A translocation where the regions involved are from different chromosomes.	3073671	0	0
574	12	sequence_difference	A region where the sequence differs from that of a specified sequence.	785	0	0
371	12	rRNA_primary_transcript	A primary transcript encoding a ribosomal RNA.	479	0	0
1864	12	histone_ubiqitination_site	A histone modification site where ubiquitin may be added.	2555	0	0
593	12	U5_three_prime_LTR_region	\N	810	0	0
42493	17	root giant cell	Multinucleate cell developed by a series of events involving kayokinesis but not cytokinesis of the initial feeding cell. The events are induced by root knot nematodes (e.g., Meloidogyne sp. ) entering the feeding cells (any cells) of the root vascular system.	97018	0	0
1264	12	beta_bulge_loop	A motif of three residues within a beta-sheet consisting of two H-bonds. Beta bulge loops often occur at the loop ends of beta-hairpins.	1673	0	0
1891	12	copy_number_loss	A sequence alteration whereby the copy number of a given region is less than the reference sequence.	2586	0	0
850	12	cDNA_match	A match against cDNA sequence.	1121	0	0
1052	12	silenced	An attribute describing an epigenetic process where a gene is inactivated at transcriptional or translational level.	1363	0	0
1471	12	seven_deazaguanosine	7-deazaguanosine is a moddified guanosine.	2020	0	0
2133	12	A_to_T_transversion	A transversion from adenine to thymine.	2924	0	0
1768	12	polypeptide_truncation	A sequence variant of the CD that causes a truncation of the resulting polypeptide.	2442	0	0
42916	17	epiblast	A portion of plant tissue (PO:0009007) that is a flap-like projection of the coleorhiza (PO:0020034), inserted opposite the scutellum (PO:0020110).	97697	0	0
172	12	non_protein_coding	\N	205	0	0
772	12	branch_site	A pyrimidine rich sequence near the 3' end of an intron to which the 5'end becomes covalently bound during nuclear splicing. The resulting structure resembles a lariat.	1020	0	0
42277	17	lenticel	A portion of periderm tissue (PO:0005046) characterized by the presence of intercellular spaces between the cells of the phellem (PO:0004003) and phelloderm (PO:0005050)	96710	0	0
43309	17	cotyledonary node rhizoid	An epidermal rhizoid that grows form a cotyledonary node.	98216	0	0
1843	12	restriction_enzyme_single_strand_overhang	A terminal region of DNA sequence where the end of the region is not blunt ended.	2529	0	0
1327	12	rRNA_21S	A component of the large ribosomal subunit in mitochondrial rRNA.	1792	0	0
314	12	YAC	Yeast Artificial Chromosome, a vector constructed from the telomeric, centromeric, and replication origin sequences needed for replication in yeast cells.	392	0	0
42673	17	spikelet pair meristem	The meristem that produces two spikelet meristems, each of which produces two floral meristems.	97243	0	0
973	12	polyA_primed_cDNA_clone	A cDNA clone invalidated by polyA priming.	1273	0	0
2178	12	sequence_variant_affecting_editing (obsolete SO:1000075)	Sequence variant affects the editing of the transcript.	2984	1	0
439	12	bound_by_factor	An attribute describing a sequence that is bound by another molecule.	562	0	0
55325	12	mating_type_region_replication_fork_barrier	A DNA motif that is found in eukaryotic rDNA repeats, and is a site of replication fork pausing.	3073632	0	0
1883	12	H3K79_methylation_site	A kind of histone modification site, whereby the 79th residue (a lysine), from the start of the H3 histone protein is methylated.	2576	0	0
43570	17	pseudopodium	A gametophore axis that is a leafless extension of a gametophore stem or branch on which a sporophyte is borne.	98584	0	0
350	12	intron	A region of a primary transcript that is transcribed, but removed from within the transcript by splicing together the sequences (exons) on either side of it.	450	0	0
2037	12	transcript_regulatory_region_fusion	A feature fusion where the deletion brings together a regulatory region and a transcript region.	2803	0	0
42827	17	flower pedicel	An inflorescence branch (PO:0009081) that supports an individual flower (PO:0009046) in an inflorescence (PO:0009049).	97502	0	0
1963	12	non_synonymous	\N	2681	0	0
155	12	transcribed_from	\N	181	0	1
42889	17	ectexine (obsolete PO:0020009)	OBSOLETE. The outer part of the exine, which stains positively with basic fuchsin in optical microscopy and has higher electron density in conventionally prepared TEM sections.	97649	1	0
524	12	floxed_gene	A transgene that is floxed.	678	0	0
1549	12	modified_L_glutamine	A post translationally modified glutamine amino acid feature.	2173	0	0
1273	12	alpha_helix	The helix has 3.6 residues per turn which corersponds to a translation of 1.5 angstroms (= 0.15 nm) along the helical axis. Every backbone N-H group donates a hydrogen bond to the backbone C=O group of the amino acid four residues earlier.	1693	0	0
1999	12	mating_type_M_box	A promoter element with consensus sequence ACAAT, found in promoters of mating type M-specific genes in fission yeast and bound by the transcription factor Mat1-Mc.	2746	0	0
271	12	sequence_variant_obs (obsolete SO:0000109)	A sequence_variant is a non exact copy of a sequence_feature or genome exhibiting one or more sequence_alteration.	339	1	0
42285	17	shoot axis vascular system	A vascular system that includes the totality of the portions of vascular tissue in their specific arrangement in a shoot axis.	96722	0	0
42960	17	microgametophyte vegetative cell	A native plant cell (PO:0025606) that is the larger cell of a microgametophyte (PO:0025280) in seed plants. It does not divide further and develops into a pollen tube cell (PO:0025195).	97763	0	0
42384	17	central root cap of lateral root	A central root cap that is part of a root cap of lateral root.	96877	0	0
211	12	translocate (obsolete SO:0000049)	To translocate a subsection of sequence.	264	1	0
55529	12	Z1_region	A mating type region motif, one of two segments of homology found at all three mating loci (HML, MAT, and HMR).	3073897	0	0
42820	17	bracteole	A small leaf or leaves borne singly or in pairs on the pedicel, the prophyll(s) of the flower-shoot (pedicel plus flower).	97478	0	0
626	12	inversion_derived_deficiency_plus_duplication	A chromosome deletion whereby a chromosome is generated by recombination between two inversions; there is a deficiency at one end of the inversion and a duplication at the other end of the inversion.	848	0	0
1404	12	fragment_assembly	A fragment assembly is a genome assembly that orders overlapping fragments of the genome based on landmark sequences. The base pair distance between the landmarks is known allowing additivity of lengths.	1909	0	0
55479	12	conserved_intergenic_variant	A sequence variant located in a conserved intergenic region, between genes.	3073837	0	0
59172	17	silique fruit	A fruit (PO:0009001) which develops from a gynoecium (PO:0009062) and at maturity comprises a dry exocarp (PO:0009085), dry mesocarp (PO:0009087), and dry endocarp (PO:0009086), that dehisce along two fruit valves (PO:0000033) and separate from a persistent fruit replum (PO:0025267).	3080648	0	0
253	12	apicoplast_gene	A gene from apicoplast sequence.	316	0	0
1677	12	duplication_attribute	\N	2332	0	0
1619	12	three_prime_UST	A UST located in the 3'UTR of a protein-coding transcript.	2262	0	0
265	12	clone_insert_end	The end of the clone insert.	330	0	0
126	12	guides	\N	152	0	1
633	12	tiling_path	A set of regions which overlap with minimal polymorphism to form a linear sequence.	855	0	0
1233	12	transmembrane_polypeptide_region	Polypeptide region traversing the lipid bilayer.	1603	0	0
362	12	five_prime_coding_exon	The 5' most coding exon.	465	0	0
42246	17	plant embryo proper	An embryonic plant structure (PO:0025099) that is the body of a developing plant embryo (PO:0009009) attached to the maternal tissue in an plant ovule (PO:0020003) by a suspensor (PO:0020108).	96654	0	0
1582	12	cis_regulatory_frameshift_element	A structural region in an RNA molecule which promotes ribosomal frameshifting of cis coding sequence.	2221	0	0
43493	17	root system exarch protoxylem	A portion of exarch protoxylem (PO:002554) tissue in which the maturation of primary xylem (PO:0005849) of the root system (PO:0025025) progresses centripedally, with the oldest elements (protoxylem) farthest from the center of the plant axis (PO:0025004).	98474	0	0
401	12	flanking_region	The sequences extending on either side of a specific region.	512	0	0
467	12	modified_DNA_base	A modified nucleotide, i.e. a nucleotide other than A, T, C. G.	599	0	0
827	12	mobile_intron	An intron (mitochondrial, chloroplast, nuclear or prokaryotic) that encodes a double strand sequence specific endonuclease allowing for mobility.	1094	0	0
43232	17	infructescence axis	A shoot axis (PO:0025029) that is part of an infructescence (PO:0006342).	98127	0	0
576	12	invalidated_by_genomic_polyA_primed_cDNA	An attribute to describe a feature that is invalidated due to polyA priming.	787	0	0
1408	12	sonicate_fragment	A DNA fragment generated by sonication. Sonication is a technique used to sheer DNA into smaller fragments.	1913	0	0
43130	17	phyllome apex	The apical portion of a phyllome.	98008	0	0
340	12	operon	A group of contiguous genes transcribed as a single (polycistronic) mRNA from a single regulatory region.	435	0	0
1170	12	DNAzyme	A DNA sequence with catalytic activity.	1500	0	0
2181	12	sequence_variation_affecting_transcript_sequence (obsolete SO:1000079)	\N	2987	1	0
2288	12	plus_1_translationally_frameshifted	An attribute describing a translational frameshift of +1.	3102	0	0
43265	17	shoot procambium	A portion of procambium (PO:0025275) tissue that is part of a shoot system (PO:0009006).	98166	0	0
55364	12	I-box	A plant regulatory promoter motif,  composed of a highly conserved hexamer GATAAG (I-box core).	3073682	0	0
643	12	vertebrate_immunoglobulin_T_cell_receptor_gene_cluster	\N	865	0	0
43295	17	sporangium wall	A cardinal organ part (PO:0025001) that is composed of the outer layers of a sporangium (PO:0025094) and bounds the archesporium (PO:0030074) or plant spores (PO:0025017).	98199	0	0
55481	12	vaultRNA_primary_transcript	A primary transcript encoding a  vaultRNA.	3073839	0	0
250	12	mt_gene	A gene located in mitochondrial sequence.	312	0	0
1789	12	RNase_P_RNA_gene	A gene that encodes an RNase P RNA.	2463	0	0
1610	12	pyrrolysine	\N	2251	0	0
59171	17	proteoid root	A root (PO:0009005) that forms one or more clusters of closely spaced lateral roots (PO:0020121) of limited growth along its length.	3080645	0	0
43450	17	non-pericyclic lateral root	A lateral root (PO:0025495) that develops from a non-pericyclic lateral root primordium (PO:0025493).	98403	0	0
2026	12	feature_ablation	A sequence variant, caused by an alteration of the genomic sequence, where the deletion, is greater than the extent of the underlying genomic features.	2792	0	0
1651	12	X_element	The X element is a conserved region, of the telomere, of ~475 bp that contains an ARS sequence and in most cases an Abf1p binding site.	2302	0	0
745	12	tmRNA	A tmRNA liberates a mRNA from a stalled ribosome. To accomplish this part of the tmRNA is used as a reading frame that ends in a translation stop signal. The broken mRNA is replaced in the ribosome by the tmRNA and translation of the tmRNA leads to addition of a proteolysis tag to the incomplete protein enabling recognition by a protease. Recently a number of permuted tmRNAs genes have been found encoded in two parts. TmRNAs have been identified in eubacteria and some chloroplasts but are absent from archeal and Eukaryote nuclear genomes.	979	0	0
43517	17	chloronema cell	A chlorenchyma cell that is part of a chloronema and has cross walls of adjacent cells that are perpendicular to the protonema axis.	98503	0	0
43328	17	palea awn	An awn that is part of a palea.	98247	0	0
907	12	cyanelle_sequence	\N	1197	0	0
1297	12	serine_threonine_turn	A motif of three consecutive residues and one H-bond in which: residue(i) is Serine (S) or Threonine (T), the side-chain O of residue(i) is H-bonded to the main-chain NH of residue(i+2).	1745	0	0
1392	12	base	A base is a sequence feature that corresponds to a single unit of a nucleotide polymer.	1893	0	0
42279	17	fruit valve	A valve that is a part of a fruit that splits apart when the fruit dehisces.	95031	0	0
968	12	engineered_tag	A tag that is engineered.	1268	0	0
618	12	interchromosomal_duplication	A chromosome duplication involving an insertion from another chromosome.	839	0	0
42386	17	central root cap of primary root	A central root cap that is part of a root cap of primary root.	96879	0	0
525	12	transposable_element_flanking_region	The region of sequence surrounding a transposable element.	679	0	0
1898	12	SL5_acceptor_site	A SL2_acceptor_site which appends the SL5 RNA leader sequence to the 5' end of an mRNA. SL5 acceptor sites occur in genes in internal segments of polycistronic transcripts.	2595	0	0
55461	12	T_cell_receptor_pseudogene	A pseudogene derived from a T-cell receptor gene.	3073812	0	0
59209	17	ground meristem	A portion of meristem tissue (PO:0009013) that gives rise to a portion of ground tissue (PO:0025059).	3080711	0	0
1486	12	two_prime_O_ribosylguanosine_phosphate	2prime_O_ribosylguanosine_phosphate is a modified guanosine base feature.	2050	0	0
59219	17	vegetative shoot system	A shoot system (PO:0009006) that has as parts only vegetative tissues and organs.	3080728	0	0
42359	17	epidermal initial cell	An initial cell (PO:0004011) that is part of an epidermis (PO:0005679) and gives rise to specialized cell types of the epidermis.	96844	0	0
2163	12	sequence_variant_causing_conservative_missense_codon_change_in_transcript (obsolete SO:1000060)	The amino acid change following from the codon change does not change the gross properties (size, charge, hydrophobicity) of the amino acid at that position.	2968	1	0
2059	12	copy_number_decrease	A sequence variant where copies of a feature are decreased relative to the reference.	2831	0	0
1954	12	KEN_box	A conserved polypeptide motif that can be recognized by FZR/Cdh1-activated anaphase-promoting complex/cyclosome (APC/C) and targets a protein for ubiquitination and subsequent degradation by the APC/C. The consensus sequence is KENXXXN.	2666	0	0
42725	17	lower glume of sessile spikelet of ear	A lower glume of ear spikelet that is part of an ear sessile spikelet.	97306	0	0
43401	17	root vascular cambium	A vascular cambium (PO:0005598) that is part of a root (PO:0009005).	98346	0	0
42525	17	lacunar collenchyma (obsolete PO:0005632)	OBSOLETE. A collenchyma characterized by intercellular spaces and cell wall thickenings facing the intercellular spaces.	97058	1	0
43170	17	branch epidermis	A portion of shoot axis epidermis (PO:0006035) that is part of a branch (PO:0025073).	98056	0	0
42935	17	leaf rachis	A stalk that is the main axis of a pinnate or more highly compound leaf, that bears leaflets or divisions of the axis.	97726	0	0
378	12	glutamic_acid_tRNA_primary_transcript	A primary transcript encoding glutaminyl tRNA (SO:0000260).	486	0	0
1997	12	HSE	A promoter element that consists of at least three copies of the pentanucleotide NGAAN, bound by the heat shock transcription factor HSF.	2740	0	0
43343	17	stem apex tendril	A shoot axis that arises from the apical part of a stem and is slender and coiling.	98268	0	0
43275	17	plant embryo coleoptile	A coleoptile (PO:0020033) that is part of a plant embryo (PO:0009009).	98178	0	0
42986	17	leaf apex	A phyllome apex (PO:0025139) that is part of a leaf (PO:0025034).	97804	0	0
42701	17	glume of tassel spikelet	A glume that is part of a tassel spikelet.	97282	0	0
1265	12	beta_bulge_loop_five	A motif of three residues within a beta-sheet consisting of two H-bonds in which: the main-chain NH of residue(i) is H-bonded to the main-chain CO of residue(i+4), the main-chain CO of residue i is H-bonded to the main-chain NH of residue(i+3), these loops have an RL nest at residues i+2 and i+3.	1676	0	0
764	12	group_II_intron	Group II introns are found in rRNA, tRNA and mRNA of organelles in fungi, plants and protists, and also in mRNA in bacteria. They are large self-splicing ribozymes and have 6 structural domains (usually designated dI to dVI). A subset of group II introns also encode essential splicing proteins in intronic ORFs. The length of these introns can therefore be up to 3kb. Splicing occurs in almost identical fashion to nuclear pre-mRNA splicing with two transesterification steps. The 2' hydroxyl of a bulged adenosine in domain VI attacks the 5' splice site, followed by nucleophilic attack on the 3' splice site by the 3' OH of the upstream exon. Protein machinery is required for splicing in vivo, and long range intron-intron and intron-exon interactions are important for splice site positioning. Group II introns are further sub-classified into groups IIA and IIB which differ in splice site consensus, distance of bulged A from 3' splice site, some tertiary interactions, and intronic ORF phylogeny.	1008	0	0
59196	17	vascular leaf founder cell	A phyllome founder cell (PO:0025586) that is part of a vascular leaf anlagen (PO:0025431).	3080691	0	0
687	12	V_cluster	Genomic DNA of immunoglobulin/T-cell receptor gene in germline configuration including more than one V-gene.	910	0	0
508	12	loxP_site	\N	655	0	0
159	12	variant_of	\N	185	0	1
1621	12	RST	A tag produced from a single sequencing read from a RACE product; typically a few hundred base pairs long.	2264	0	0
43437	17	bract anlagen	A phyllome anlagen (PO:0025430) that will give rise to a bract primordium (PO:0025487) and is part of a peripheral zone (PO:000225) of a reproductive shoot apical meristem (PO:0008028).	98389	0	0
481	12	stop_codon	In mRNA, a set of three nucleotides that indicates the end of information for protein synthesis.	619	0	0
55352	12	telomeric_D_loop	A telomeric D-loop is a three-stranded DNA displacement loop that forms at the site where the telomeric 3' single-stranded DNA overhang (formed of the repeat sequence TTAGGG in mammals) is tucked back inside the double-stranded component of telomeric DNA molecule, thus forming a t-loop or telomeric-loop and protecting the chromosome terminus.	3073666	0	0
42430	17	fruit pedicel	An infructescence branch (PO:0025243) that supports an individual fruit (PO:0009001).	96936	0	0
42746	17	hypocotyl vascular system	Vascular system of the hypocotyl.	97332	0	0
953	12	cloned_cDNA (obsolete SO:0000792)	\N	1251	1	0
43495	17	endarch protoxylem	A portion of protoxylem (PO:0000272) tissue in which the maturation of primary xylem (PO:0005849) of the shoot system (PO:0009006) progresses centrifugally, with the oldest elements (protoxylem) towards the center of the plant axis (PO:0025004).	98476	0	0
59183	17	drupe fruit	A fruit (PO:0009001) which develops from a carpel (PO:0009030) and at maturity comprises a fleshy exocarp (PO:0009085), fleshy mesocarp (PO:0009087), and a stony endocarp (PO:0009086).	3080669	0	0
42683	17	primary shoot system	A shoot system (PO:0009006) that develops from an embryo shoot apical meristem (PO:0006362).	97256	0	0
453	12	trinucleotide_repeat_microsatellite_feature	\N	581	0	0
152	12	starts	\N	178	0	1
43342	17	branch tendril	A branch that is slender and coiling.	98267	0	0
365	12	UTR	Messenger RNA sequences that are untranslated and lie five prime or three prime to sequences which are translated.	469	0	0
1550	12	modified_L_methionine	A post translationally modified methionine amino acid feature.	2175	0	0
42740	17	abaxial nucellar projection	A portion of plant tissue (PO:0009007) that is the abaxial/lower portion of the nucellus (PO:0020020) overlying vascular strands in a caryopsis fruit (PO:0030104).	97326	0	0
551	12	telomerase_RNA	The RNA component of telomerase, a reverse transcriptase that synthesizes telomeric DNA.	730	0	0
248	12	gene_by_organelle_of_genome (obsolete SO:0000086)	\N	309	1	0
894	12	feature_attribute	An attribute describing a located_sequence_feature.	1180	0	0
2020	12	interchromosomal_breakpoint	A rearrangement breakpoint between two different chromosomes.	2785	0	0
42775	17	floral guard cell (obsolete PO:0008045)	OBSOLETE. One of a pair of cells flanking the stomatal pore of floral organs.	97363	1	0
1434	12	one_two_prime_O_dimethylinosine	1,2'-O-dimethylinosine is a modified inosine.	1945	0	0
42561	17	helobial endosperm	A portion of endosperm (PO:0009089) tissue in which the first karyokinetic event is accompanied by the formation of a horizontal wall which divides the embryo sac central cell (PO:0020090) into unequal regions. The larger one is the micropylar chamber in which cytokinesis does not occur and the smaller one is the chalazal chamber.	97108	0	0
43107	17	fifth order infructescence branch	An infructescence branch (PO:0025243) arising from a fourth order infructescence branch (PO:0025115).	97969	0	0
1491	12	wyosine	Wyosine is a modified guanosine base feature.	2060	0	0
238	12	three_prime_five_prime_overlap	An attribute to describe a gene when the 3' region overlaps with another gene's 5' region.	298	0	0
1330	12	anticodon	A sequence of three nucleotide bases in tRNA which recognizes a codon in mRNA.	1796	0	0
42765	17	plerome	A meristem forming the core of the axis composed of the primary vascular tissues and associated ground tissue, such as pith and interfascicular regions.	97352	0	0
43314	17	wing petal	One of two lateral petals (PO:0009032) that is adjacent to the banner petal of a papilionaceous corolla (PO:0009059).	98227	0	0
59175	17	gemma	A portion of plant tissue (PO:0009007) which is a small ball of cells born on a thallus (PO:0030027) and is involved in asexual reproduction.	3080653	0	0
55469	12	trinucleotide_repeat_expansion	A short tandem repeat expansion with an increase in a sequence of three nucleotide units repeated in tandem compared to a reference sequence.	3073821	0	0
43398	17	shoot axis cork cambium	A cork cambium (PO:0005599) that is part of a shoot axis (PO:0025029).	98343	0	0
42847	17	plant ovary	A plant structure (PO:0009011) that is the basal portion of a carpel (PO:0009030) or group of fused carpels (gynoecium; PO:0009062) and encloses the plant ovule(s) (PO:0020003).	97570	0	0
689	12	V_D_DJ_cluster	Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one D-gene, one DJ-gene.	912	0	0
42347	17	xylem element (obsolete PO:0000273)	OBSOLETE. A cell making up xylem tissue.	96820	1	0
608	12	five_prime_UTR_intron	An intron located in the 5' UTR.	827	0	0
42715	17	upper glume of pedicellate spikelet of tassel	An upper glume of tassel spikelet that is part of a tassel pedicellate spikelet.	97296	0	0
475	12	stem_loop	A double-helical region of nucleic acid formed by base-pairing between adjacent (inverted) complementary sequences.	608	0	0
1058	12	nuclear_mitochondrial (obsolete SO:0000899)	An attribute describing a nuclear pseudogene of a mitochndrial gene.	1370	1	0
1179	12	chromosome_breakpoint	\N	1516	0	0
825	12	introgressed_chromosome_region	\N	1092	0	0
1349	12	GNA_oligo	An oligo composed of GNA residues.	1833	0	0
642	12	terminal_inverted_repeat	An inverted repeat (SO:0000294) occurring at the termini of a DNA transposon.	864	0	0
42300	17	petal vascular system	A phyllome vascular system (PO:0025206) that includes the totality of the portions of vascular tissue in their specific arrangement in a petal (PO:0025218).	96741	0	0
42813	17	lodicule	A phyllome that is part of a grass floret and is one of two or three tiny scales or flaps of tissue outside the stamens.	97444	0	0
747	12	tmRNA_primary_transcript	A primary transcript encoding a tmRNA (SO:0000584).	983	0	0
42276	17	septum	A collective organ part structure composed of two or more layers of various tissues that is a partition that divides a cavity formed by the fusion of two or more organs.	96707	0	0
497	12	mRNA_with_minus_2_frameshift	A mRNA with a minus 2 frameshift.	639	0	0
55457	12	intrachromosomal_translocation	A translocation where the regions involved are from the same chromosome.	3073808	0	0
777	12	transcription_end_site	The base where transcription ends.	1027	0	0
55436	12	pseudogene_processed_transcript	A processed_transcript supported by EST and/or mRNA evidence that aligns unambiguously to a pseudogene locus (i.e. alignment to the pseudogene locus clearly better than alignment to parent locus).	3073784	0	0
55484	12	5_prime_UTR_premature_start_codon_loss_variant	A 5' UTR variant where a premature start codon is lost.	3073842	0	0
1062	12	endogenous_retroviral_sequence	\N	1375	0	0
415	12	tRNA	Transfer RNA (tRNA) molecules are approximately 80 nucleotides in length. Their secondary structure includes four short double-helical elements and three loops (D, anti-codon, and T loops). Further hydrogen bonds mediate the characteristic L-shaped molecular structure. Transfer RNAs have two regions of fundamental functional importance: the anti-codon, which is responsible for specific mRNA codon recognition, and the 3' end, to which the tRNA's corresponding amino acid is attached (by aminoacyl-tRNA synthetases). Transfer RNAs cope with the degeneracy of the genetic code in two manners: having more than one tRNA (with a specific anti-codon) for a particular amino acid; and 'wobble' base-pairing, i.e. permitting non-standard base-pairing at the 3rd anti-codon position.	529	0	0
55514	12	meiotic_recombination_region	A genomic region in which there is an exchange of genetic material as a result of the repair of meiosis-specific double strand breaks that occur during meiotic prophase.	3073878	0	0
42745	17	filament vascular system	A vascular system that includes the totality of the portions of vascular tissue in their specific arrangement in a filament.	97331	0	0
43218	17	tetrad of megaspores	A portion of plant tissue consisting of four megaspores that remained joined together shortly after meiosis. One cell will give rise to a female gametophyte.	98111	0	0
2190	12	sequence_variant_affecting_translational_product (obsolete SO:1000088)	A sequence variant causing a change in primary translation product of a transcript.	2996	1	0
42769	17	stem base	The basal part of stem.	97356	0	0
2281	12	CDS_supported_by_sequence_similarity_data	A CDS that is supported by sequence similarity data.	3093	0	0
43299	17	megasporangium endothecium	A sporangium wall endothecium (PO:0030049) that is part of a megasporangium wall.	98203	0	0
43136	17	sepal apex	A phyllome apex that is part of a sepal.	98015	0	0
2050	12	intronic_lncRNA	A lnc_RNA totally contained within an intron.	2820	0	0
1405	12	fingerprint_map	A fingerprint_map is a physical map composed of restriction fragments.	1910	0	0
555	12	U4atac_snRNA	An snRNA required for the splicing of the minor U12-dependent class of eukaryotic nuclear introns. It forms a base paired complex with U6atac_snRNA (SO:0000397).	742	0	0
1635	12	RAPD	RAPD is a 'PCR product' where a sequence variant is identified through the use of PCR with random primers.	2281	0	0
2298	12	CTG_start_codon	A non-canonical start codon of sequence CTG.	3114	0	0
559	12	U11_snRNA	U11 snRNA plays a role in splicing of the minor U12-dependent class of eukaryotic nuclear introns, similar to U1 snRNA in the major class spliceosome it base pairs to the conserved 5' splice site sequence.	751	0	0
55532	12	T_cell_receptor_gene	A T-cell receptor germline gene.	3073900	0	0
790	12	five_prime_open_reading_frame	\N	1044	0	0
42286	17	adventitious root nodule	Enlargement or swelling at position of dormant adventitious root primordium (on the stem), inhabited by nitrogen-fixing bacteria.	96723	0	0
43233	17	infructescence branch	An infructescence axis (PO:0025242) that is a branch (PO:0025073) from a primary or higher order infructescence axis.	98128	0	0
55442	12	NMD_polymorphic_pseudogene_transcript	A polymorphic pseudogene transcript that contains a CDS but has one or more splice junctions >50bp downstream of stop codon. Premature stop codon is not introduced, directly or indirectly, as a result of the variation i.e. must be present in both protein_coding and pseudogenic alleles.	3073793	0	0
741	12	methylation_guide_snoRNA_primary_transcript	A primary transcript encoding a methylation guide small nucleolar RNA.	973	0	0
1597	12	glycine	\N	2238	0	0
443	12	engineered_foreign_gene	A gene that is engineered and foreign.	566	0	0
1731	12	complex_transcript_variant	A transcript variant with a complex INDEL- Insertion or deletion that spans an exon/intron border or a coding sequence/UTR border.	2391	0	0
1816	12	proximal_promoter_element	\N	2499	0	0
1067	12	supported_by_domain_match	An attribute to describe a feature that has been predicted using sequence similarity of a known domain.	1380	0	0
42341	17	endodermis	A portion of ground tissue (PO:0025059) that is the inner most layer of a cortex (PO:0005708) and has a casparian strip in its anticlinal cell walls.	96809	0	0
42778	17	scutellar epithelium	A continuous layer of cylindrical cells covering the endosperm side of the scutellum. Thought to act as a secretory and absorptive organ.	97366	0	0
1694	12	level_of_transcript_variant	A sequence variant which alters the level of a transcript.	2353	0	0
42267	17	petal primordium	A phyllome primordium (PO:0025128) that develops from a petal anlagen (PO:0025484) and is committed to the development of a petal (PO:0009032).	96696	0	0
42450	17	scutellar node	A stem node (PO:0020141) that is part of a plant embryo axis (PO:0019018) where the scutellum (PO:0020110) is attached.	96962	0	0
1515	12	five_methoxycarbonylmethyluridine	Five_methoxycarbonylmethyluridine is a modified uridine base feature.	2108	0	0
43163	17	thorn	A branch that is a sclerified, pointed outgrowth.	98046	0	0
828	12	insertion	The sequence of one or more nucleotides added between two adjacent nucleotides in the sequence.	1095	0	0
43404	17	root cambial zone	A cambial zone that is part of a root (PO:0009005).	98350	0	0
43254	17	anther locule	A sporangium locule that is part of an anther and is a cavity within a single pollen sac or two or more fused pollen sacs.	98153	0	0
202	12	genomic_clone	A clone of a DNA region of a genome.	254	0	0
1188	12	forward	Forward is an attribute of the feature, where the feature is in the 5' to 3' direction.	1530	0	0
2049	12	splice_region	A region surrounding a cis_splice site, either within 1-3 bases of the exon or 3-8 bases of the intron.	2819	0	0
42870	17	inflorescence branch meristem	An inflorescence meristem (PO:0009108) that gives rise to an inflorescence branch (PO:0009081).	97610	0	0
1138	12	minicircle	A minicircle is a replicon, part of a kinetoplast, that encodes for guide RNAs.	1457	0	0
112	12	connects_on	\N	138	0	1
55353	12	mt_rRNA	Mitochondrial ribosomal RNA.	3073670	0	0
43013	17	plant spore	A whole plant (PO:0000003) that arises through meiosis and is contained in a spore wall.	97836	0	0
2009	12	GT_dinucleotide_repeat	A dinucleotide repeat region composed of GT repeating elements.	2768	0	0
2237	12	deficient_translocation	A chromosomal deletion whereby a translocation occurs in which one of the four broken ends loses a segment before re-joining.	3049	0	0
280	12	transcript_with_translational_frameshift	A transcript with a translational frameshift.	349	0	0
407	12	mRNA_by_polyadenylation_status (obsolete SO:0000245)	\N	519	1	0
55384	12	intronic_splicing_enhancer (obsolete SO:0002057)	\N	3073718	1	0
1524	12	five_carboxymethylaminomethyluridine	5_carboxymethylaminomethyluridine is a modified uridine base feature.	2126	0	0
42675	17	seed raphe	A cardinal part of multi-tissue plant structure (PO:0025498) that is a ridge on a seed (PO:0009010) that develops from a raphe (PO:0020027).	97246	0	0
140	12	overlaps	\N	166	0	1
785	12	telomere	A specific structure at the end of a linear chromosome, required for the integrity and maintenance of the end.	1036	0	0
1112	12	oriC	An origin of bacterial chromosome replication.	1429	0	0
42622	17	organogenic callus	A cultured plant callus that is capable of forming plant organs.	97182	0	0
2174	12	sequence_variant_affecting_splicing (obsolete SO:1000071)	A sequence_variant_effect where the way in which the primary transcriptional product is processed to form the mature transcript, specifically by the removal (splicing) of intron sequences is changed.	2980	1	0
59178	17	lateral root spine	A lateral root (PO:0020121) that is sclerified and pointed.	3080659	0	0
2167	12	sequence_variation_affecting_reading_frame (obsolete SO:1000064)	An umbrella term for terms describing an effect of a sequence variation on the frame of translation.	2972	1	0
637	12	contig_read	A DNA sequencer read which is part of a contig.	859	0	0
43499	17	tetrarch protoxylem	A portion of root exarch protoxylem (PO:0025555) tissue in which the primary xylem (PO:0005849) of the root system (PO:0025025) has four protoxylem strands or poles, and differentiation progresses centripetally, with the oldest elements (protoxylem) farthest from the center of the plant axis (PO:0025004).	98480	0	0
442	12	engineered_gene	A gene that is engineered.	565	0	0
42830	17	bract	A phyllome that subtends a reproductive structure.	38965	0	0
1958	12	phosphorylation_site	A post-translationally modified region in which residues of the protein are modified by phosphorylation.	2676	0	0
1320	12	DPE1_motif	A promoter motif with consensus sequence CGGACGT.	1784	0	0
1159	12	rRNA_23S	A large polynucleotide in Bacteria and Archaea, which functions as the large subunit of the ribosome.	1483	0	0
1013	12	paralogous_region	A homologous_region that is paralogous to another region.	1320	0	0
59161	17	receptacle cortex	A portion of cortex (PO:0005708) that is part of a receptacle (PO:0009064).	3080627	0	0
1120	12	RNA_chromosome	Structural unit composed of a self-replicating, RNA molecule.	1437	0	0
1074	12	engineered_insert	A clone insert that is engineered.	1389	0	0
55375	12	LINE1_insertion	An insertion from the Line1 family of mobile elements.	3073706	0	0
1792	12	mathematically_defined_repeat	A mathematically defined repeat (MDR) is a experimental feature that is determined by querying overlapping oligomers of length k against a database of shotgun sequence data and identifying regions in the query sequence that exceed a statistically determined threshold of repetitiveness.	2466	0	0
878	12	reading_frame	A nucleic acid sequence that when read as sequential triplets, has the potential of encoding a sequential string of amino acids. It need not contain the start or stop codon.	1156	0	0
852	12	cleaved_initiator_methionine	The initiator methionine that has been cleaved from a mature polypeptide sequence.	1123	0	0
2224	12	sequence_variant_affecting_transcript_secondary_structure (obsolete SO:1000126)	A sequence variant that affects the secondary structure (folding) of the RNA transcript molecule.	3034	1	0
550	12	spot_42_RNA	A 109-nucleotide RNA of E. coli that seems to have a regulatory role on the galactose operon. Changes in Spot 42 levels are implicated in affecting DNA polymerase I levels.	727	0	0
43054	17	perimedullary zone	A portion of parenchyma (PO:0005421) that is the outer layer of the pith (PO:0006109).	97896	0	0
2182	12	sequence_variant_increasing_rate_of_transcription (obsolete SO:1000080)	\N	2988	1	0
2094	12	molecular_contact_region	A region that is involved a contact with another molecule.	2882	0	0
357	12	coding_exon	An exon whereby at least one base is part of a codon (here, 'codon' is inclusive of the stop_codon).	460	0	0
43600	17	protosporangium endothecium	A portion of ground tissue (PO:0025059) that is the tissue internal to an amphithecium early in sporangium development.	98633	0	0
1668	12	direct	A quality of an insertion where the insert is not in a cytologically inverted orientation.	2323	0	0
472	12	predicted_ab_initio_computation (obsolete SO:0000310)	\N	605	1	0
42420	17	axial secondary xylem parenchyma cell	A secondary xylem parenchyma cell (PO:0004525) that is part of a portion of axial secondary xylem parenchyma (PO:0004533).	96925	0	0
1876	12	H3K9_dimethylation_site	A kind of histone modification site, whereby the 9th residue (a lysine), from the start of the H3 histone protein may be dimethylated.	2568	0	0
43270	17	pollen	A microgametophyte (PO:0025280) that develops from a microspore (PO:0020048) is located in a pollen sac (PO:0025277).	90736	0	0
235	12	five_prime_three_prime_overlap	An attribute to describe a gene when the five prime region overlaps with another gene's 3' region.	295	0	0
766	12	intergenic_region	A region containing or overlapping no genes that is bounded on either side by a gene, or bounded by a gene and the end of the chromosome.	1012	0	0
42688	17	leaf intercalary meristem	An intercalary meristem (PO:0006073) that is part of a leaf (PO:0006346) and is intercalated between two portions of non-meristematic tissue between a leaf apex (PO:0020137) and a leaf base (PO:0020040).	97267	0	0
42605	17	intercalary meristem	A shoot system meristem (PO:0006079) that is intercalated between two portions of non-meristematic tissue and results in an increase in length as part of primary growth.	97161	0	0
1880	12	H3K27_methylation_site	A kind of histone modification site, whereby the 27th residue (a lysine), from the start of the H3 histone protein is methylated.	2573	0	0
1252	12	polypeptide_copper_ion_contact_site	A binding site that, in the polypeptide molecule, interacts selectively and non-covalently with copper ions.	1648	0	0
59211	17	rosette	A collective leaf structure (PO:0025022) consisting of a group of rosette leaves (PO:0000014), generally borne at the base of the plant, that are separated by very short stem internodes (PO:0020142).	3080713	0	0
2200	12	mutation_causing_polypeptide_N_terminal_elongation (obsolete SO:1000100)	.	3008	1	0
42942	17	elaiosome	A cardinal organ part that is an oil-secreting outgrowth of a seed or fruit.	97736	0	0
42786	17	portion of plant tissue	A plant structure (PO:0009011) that consists predominantly of similarly specialized plant cells (PO:0009002) of one or more types.	97397	0	0
55500	12	X_region	One of two segments of homology found at all three mating loci (HML, MAT and HMR).	3073859	0	0
1418	12	ncRNA_gene	\N	1928	0	0
751	12	SRP_RNA	The signal recognition particle (SRP) is a universally conserved ribonucleoprotein. It is involved in the co-translational targeting of proteins to membranes. The eukaryotic SRP consists of a 300-nucleotide 7S RNA and six proteins: SRPs 72, 68, 54, 19, 14, and 9. Archaeal SRP consists of a 7S RNA and homologues of the eukaryotic SRP19 and SRP54 proteins. In most eubacteria, the SRP consists of a 4.5S RNA and the Ffh protein (a homologue of the eukaryotic SRP54 protein). Eukaryotic and archaeal 7S RNAs have very similar secondary structures, with eight helical elements. These fold into the Alu and S domains, separated by a long linker region. Eubacterial SRP is generally a simpler structure, with the M domain of Ffh bound to a region of the 4.5S RNA that corresponds to helix 8 of the eukaryotic and archaeal SRP S domain. Some Gram-positive bacteria (e.g. Bacillus subtilis), however, have a larger SRP RNA that also has an Alu domain. The Alu domain is thought to mediate the peptide chain elongation retardation function of the SRP. The universally conserved helix which interacts with the SRP54/Ffh M domain mediates signal sequence recognition. In eukaryotes and archaea, the SRP19-helix 6 complex is thought to be involved in SRP assembly and stabilizes helix 8 for SRP54 binding.	989	0	0
43363	17	floral organ	A plant organ (PO:0009008) that is part of a flower (PO:0009046).	38605	0	0
606	12	five_prime_noncoding_exon	Non-coding exon in the 5' UTR.	825	0	0
55511	12	SVA_insertion	An insertion of sequence from the SVA family of mobile elements.	3073875	0	0
2039	12	TFBS_amplification	A feature amplification of a region containing a transcription factor binding site.	2805	0	0
42691	17	ear sessile spikelet	Ultimate sessile inflorescence branch of the maize ear that develops from the spikelet pair meristem.	97270	0	0
55424	12	monomeric_repeat	A repeat_region containing repeat_units of 1 bp that is repeated multiple times in tandem.	3073770	0	0
1829	12	recombination_regulatory_region	A regulatory region that is involved in the control of the process of recombination.	2514	0	0
553	12	U2_snRNA	U2 is a small nuclear RNA (snRNA) component of the spliceosome (involved in pre-mRNA splicing). Complementary binding between U2 snRNA (in an area lying towards the 5' end but 3' to hairpin I) and the branchpoint sequence (BPS) of the intron results in the bulging out of an unpaired adenine, on the BPS, which initiates a nucleophilic attack at the intronic 5' splice site, thus starting the first of two transesterification reactions that mediate splicing.	736	0	0
42331	17	nectary epidermis	A portion of shoot system epidermis (PO:0006035) that is part of a nectary (PO:0009035) .	96790	0	0
469	12	CpG_island	Regions of a few hundred to a few thousand bases in vertebrate genomes that are relatively GC and CpG rich; they are typically unmethylated and often found near the 5' ends of genes.	601	0	0
517	12	haplotype_block	A region of the genome which is co-inherited as the result of the lack of historic recombination within it.	668	0	0
59177	17	nut fruit	A fruit (PO:0009001) which develops from a gynoecium (PO:0009062) and at maturity comprises a dry exocarp (PO:0009085), dry mesocarp (PO:0009087), and dry endocarp (PO:0009086) that are not fused to a seed coat (PO:0009088).	3080657	0	0
43231	17	second order infructescence	A reproductive shoot system that is part of an infructescence and has as parts a second order infructescence axis and any infructescence axes and fruits that arise from it.	98126	0	0
1911	12	variant_frequency	A physical quality which inheres to the variant by virtue of the number instances of the variant within a population.	2609	0	0
749	12	autocatalytically_spliced_intron	A self spliced intron.	987	0	0
2115	12	complex_substitution	When no simple or well defined DNA mutation event describes the observed DNA change, the keyword "complex" should be used. Usually there are multiple equally plausible explanations for the change.	2904	0	0
710	12	inversion_derived_duplication_plus_aneuploid	A chromosome generated by recombination between two inversions; has a duplication at one end and presumed to have a deficiency or duplication at the other end of the inversion.	936	0	0
703	12	V_DJ_C_cluster	Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one DJ-gene and one C-gene.	926	0	0
298	12	paternally_imprinted	The paternal copy of the gene is modified, rendering it transcriptionally silent.	369	0	0
43416	17	secondary phloem sieve element	A sieve element (PO:0025406) that is part of a portion of secondary phloem (PO:0005043).	98362	0	0
2043	12	transposable_element_CDS	A CDS that is part of a transposable element.	2809	0	0
2114	12	substitution	A sequence alteration where the length of the change in the variant is the same as that of the reference.	2902	0	0
43478	17	xylem sap	A plant sap (PO:0025538) that is an aqueous solution which may contain mineral elements, nutrients, and plant hormones, and is transported from the root system (PO:0025025) toward the leaves through the tracheary elements (PO:0000290) of the xylem.	98450	0	0
198	12	matrix_attachment_site	A DNA region that is required for the binding of chromatin to the nuclear matrix.	247	0	0
2296	12	archaeal_intron	An intron characteristic of Archaeal tRNA and rRNA genes, where intron transcript generates a bulge-helix-bulge motif that is recognised by a splicing endoribonuclease.	3111	0	0
1979	12	immunoglobulin_region	A region of immunoglobulin sequence, either constant or variable.	2703	0	0
1046	12	translationally_frameshifted	Recoding by frameshifting a particular site.	1357	0	0
55409	12	inducible_promoter	A promoter whereby activity is induced by the presence or absence of biotic or abiotic factors.	3073748	0	0
1335	12	U3_snoRNA	U3 snoRNA is a member of the box C/D class of small nucleolar RNAs. The U3 snoRNA secondary structure is characterised by a small 5' domain (with boxes A and A'), and a larger 3' domain (with boxes B, C, C', and D), the two domains being linked by a single-stranded hinge. Boxes B and C form the B/C motif, which appears to be exclusive to U3 snoRNAs, and boxes C' and D form the C'/D motif. The latter is functionally similar to the C/D motifs found in other snoRNAs. The 5' domain and the hinge region act as a pre-rRNA-binding domain. The 3' domain has conserved protein-binding sites. Both the box B/C and box C'/D motifs are sufficient for nuclear retention of U3 snoRNA. The box C'/D motif is also necessary for nucleolar localization, stability and hypermethylation of U3 snoRNA. Both box B/C and C'/D motifs are involved in specific protein interactions and are necessary for the rRNA processing functions of U3 snoRNA.	1803	0	0
911	12	amplification_origin	An origin_of_replication that is used for the amplification of a chromosomal nucleic acid sequence.	1201	0	0
1229	12	cytoplasmic_polypeptide_region	Polypeptide region that is localized inside the cytoplasm.	1595	0	0
1823	12	A_box_type_1	An A box within an RNA polymerase III type 1 promoter.	2507	0	0
42811	17	flower bract	A bract (PO:0009055) that subtends a perianth (PO:0009058) that is part of a flower (PO:0009046).	97441	0	0
1108	12	dif_site	A site at which replicated bacterial circular chromosomes are decatenated by site specific resolvase.	1425	0	0
1595	12	phenylalanine	\N	2236	0	0
1970	12	conservative_inframe_insertion	An inframe increase in cds length that inserts one or more codons into the coding sequence between existing codons.	2692	0	0
1661	12	variant_collection	A collection of one or more sequences of an individual.	2316	0	0
55527	12	H4K12_acetylation_site	A kind of histone modification site, whereby the 12th residue (a lysine), from the start of the H4 histone protein is acetylated.	3073895	0	0
1733	12	transcript_sequence_variant (obsolete SO:0001579)	\N	2394	1	0
43447	17	pericyclic lateral root primordium	A lateral root primordium (PO:0000016) that develops from a portion of pericycle tissue (PO:0006203) and is committed to the development of a pericyclic lateral root (PO:0025494).	98399	0	0
1121	12	single_stranded_RNA_chromosome	Structural unit composed of a self-replicating, single-stranded RNA molecule.	1438	0	0
1119	12	circular_single_stranded_DNA_chromosome	Structural unit composed of a self-replicating, single-stranded, circular DNA molecule.	1436	0	0
43262	17	stem procambium	A portion of shoot axis procambium gives rise to the primary vascular tissue of a stem.	98163	0	0
43038	17	subterranean tuber axillary vegetative bud	A tuber axillary vegetative bud that is part of a subterranean tuber.	97874	0	0
43383	17	sieve cell	A sieve element (PO:0025406) in which the sieve areas are not aggregated into sieve plates (GO:0097218).	76737	0	0
42932	17	megaphyll (obsolete PO:0020052)	OBSOLETE. Literally a large leaf, a leaf of any size whose vascular supply leaves one or more gaps as it departs from the stem vascular tissue.	97723	1	0
42302	17	flower bud	A bud that develops into a flower.	96744	0	0
1501	12	five_two_prime_O_dimethyluridine	5_2_prime_O_dimethyluridine is a modified uridine base feature.	2081	0	0
59222	17	staminate inflorescence	An inflorescence (PO:0009049) that includes as part only staminate flowers (PO:0025600).	3080733	0	0
1560	12	modified_L_tyrosine	A post translationally modified tyrosine amino acid feature.	2195	0	0
744	12	pre_edited_region	The region of a transcript that will be edited.	977	0	0
42355	17	cambial initial cell	An initial cell (PO:0004011) that is part of the vascular cambium (PO:0005598) or cork cambium (PO:0005599), and by periclinal divisions, produces cells to the outside or inside of the cambial axis.	96838	0	0
874	12	DNA_motif	A motif that is active in the DNA form of the sequence.	1151	0	0
1810	12	RNA_polymerase_III_TATA_box	A TATA box core promoter of a gene transcribed by RNA polymerase III.	2493	0	0
1185	12	genotype	A genotype is a variant genome, complete or incomplete.	1526	0	0
42365	17	mucilage cell (obsolete PO:0000373)	OBSOLETE. Cell containing mucilages or gums or similar carbohydrate material characterized by the property of swelling in water.	96850	1	0
43288	17	calyptra perianth (obsolete PO:0025299)	OBSOLETE. A fused perianth that is composed of fused sepals or petals and located on top of a gynoecium that contains an inferior ovary.	98191	1	0
1797	12	kozak_sequence	A kind of ribosome entry site, specific to Eukaryotic organisms that overlaps part of both 5' UTR and CDS sequence.	2476	0	0
1129	12	theta_replication (obsolete SO:0000970)	\N	1447	1	0
677	12	pseudogenic_transcript	A non functional descendant of a transcript, part of a pseudogene.	900	0	0
43116	17	antheridium	A multicellular plant gametangium (PO:0025124) that produces antheridium sperm cells (PO:0025120) and has as parts an antheridium jacket layer (PO:0030053) and an antheridium stalk (PO:0030035).	97981	0	0
55361	12	intragenic_variant	A variant that occurs within a gene but falls outside of all transcript features. This occurs when alternate transcripts of a gene do not share overlapping  sequence.	3073679	0	0
1001	12	gene_component_region	\N	1307	0	0
128	12	has_origin	\N	154	0	1
42696	17	ear floret	A small, pistillate flower (PO:0025599) that is part of a ear spikelet (PO:0006320).	97276	0	0
42771	17	stem internode elongation zone	A shoot axis internode elongation zone  (PO:0025100) that is part of a stem internode (PO:0009047).	97358	0	0
43211	17	stamen stomatal complex	A phyllome stomatal complex that is part of a stamen.	98104	0	0
1484	12	N2_2_prime_O_dimethylguanosine	N2_2prime_O_dimethylguanosine is a modified guanosine base feature.	2046	0	0
42791	17	portion of meristem tissue	A portion of plant tissue (PO:0009007) in which plant cells (PO:0009002) have retained their embryonic characteristics, or have reverted to them secondarily, and that divide to produce new cells that can undergo differentiation to form mature tissues, i.e. they have a capacity for morphogenesis and growth.	97407	0	0
1798	12	nested_transposon	A transposon that is disrupted by the insertion of another element.	2478	0	0
1557	12	modified_L_selenocysteine	A post translationally modified selenocysteine amino acid feature.	2189	0	0
1988	12	polymorphic_pseudogene	Pseudogene owing to a SNP/DIP but in other individuals/haplotypes/strains the gene is translated.	2715	0	0
59207	17	silk	A collective organ part structure (PO:0025269) that has as parts an elongated stigma (PO:0009073) with stigma papilla (GO:0090397), and an elongated style (PO:0009074).	3080708	0	0
43148	17	phyllome epidermis	A portion of shoot system epidermis (PO:0006035) that is part of a phyllome (PO:0006001).	98029	0	0
55414	12	SHP_box	A conserved Cdc48/p97 interaction motif with strict consensus sequence F[PI]GKG[TK][RK]LG[GT] and relaxed consensus sequence FXGKGX[RK]LG.	3073754	0	0
1854	12	H3K4_trimethylation	A kind of histone modification site, whereby the 4th residue (a lysine), from the start of the H3 protein is tri-methylated.	2544	0	0
1160	12	rRNA_25S	A large polynucleotide which functions as part of the large subunit of the ribosome in some eukaryotes.	1484	0	0
2046	12	dh_repeat	A repeat region which is part of the regional centromere outer repeat region.	2813	0	0
393	12	snRNA_primary_transcript	A primary transcript encoding a small nuclear RNA (SO:0000274).	501	0	0
55349	12	mitotic_recombination_region	A genomic region where there is an exchange of genetic material with another genomic region, occurring in somatic cells.	3073662	0	0
175	12	INR_motif	A sequence element characteristic of some RNA polymerase II promoters required for the correct positioning of the polymerase for the start of transcription. Overlaps the TSS. The mammalian consensus sequence is YYAN(T|A)YY; the Drosophila consensus sequence is TCA(G|T)t(T|C). In each the A is at position +1 with respect to the TSS. Functionally similar to the TATA box element.	209	0	0
1916	12	fixed_variant	\N	2614	0	0
444	12	mRNA_with_minus_1_frameshift	An mRNA with a minus 1 frameshift.	567	0	0
55466	12	duplication_artifact	A duplication that is the result of base-calling or assembly error.	3073818	0	0
1542	12	modified_L_alanine	A post translationally modified alanine amino acid feature.	2159	0	0
55359	12	3_prime_UTR_elongation	A sequence variant that causes the extension of 3' UTR, with regard to the reference sequence.	3073677	0	0
431	12	seryl_tRNA	A tRNA sequence that has a serine anticodon, and a 3' serine binding region.	547	0	0
55413	12	incomplete_transcript_5UTR_variant	A sequence variant that intersects the 5' UTR of an incompletely annotated transcript.	3073752	0	0
1973	12	disruptive_inframe_deletion	An inframe decrease in cds length that deletes bases from the coding sequence starting within an existing codon.	2695	0	0
988	12	nucleomorphic_chromosome	A chromosome originating in a nucleomorph.	1291	0	0
124	12	genome_of	\N	150	0	1
117	12	edited_from	\N	143	0	1
42611	17	shoot system meristem	A portion of meristem tissue (PO:0009013) that is part of a shoot system (PO:0009006).	97169	0	0
43204	17	leaf abaxial pavement cell	A leaf pavement cell that is part of a leaf abaxial epidermis.	98097	0	0
927	12	pyrrolysyl_tRNA	A tRNA sequence that has a pyrrolysine anticodon, and a 3' pyrrolysine binding region.	1219	0	0
1123	12	linear_double_stranded_RNA_chromosome	Structural unit composed of a self-replicating, double-stranded, linear RNA molecule.	1440	0	0
42728	17	leaf abscission zone	An abscission zone (PO:0000146) at the base of a vascular leaf (PO:0009025) where it separates during leaf abscission (GO:0060866).	97309	0	0
673	12	inversion_derived_deficiency_plus_aneuploid	A chromosomal deletion whereby a chromosome generated by recombination between two inversions; has a deficiency at one end and presumed to have a deficiency or duplication at the other end of the inversion.	896	0	0
1675	12	reciprocal	\N	2330	0	0
208	12	insert (obsolete SO:0000046)	To insert a subsection of sequence.	261	1	0
42414	17	libriform fiber cell	A xylem fiber cell (PO:0000274) with simple pits.	96918	0	0
42381	17	lateral root differentiation zone	A root differentiation zone that is part of a lateral root.	96874	0	0
43366	17	phyllome substomatal cavity	A substomatal cavity that is part of a phyllome.	98304	0	0
43280	17	seedling hypocotyl	A hypocotyl (PO:0020100) that is part of a whole plant (PO:0000003) in the seedling development stage (PO:0007131).	98183	0	0
43406	17	root secondary thickening meristem	A secondary thickening meristem (PO:0025414) that is part of a root (PO:0009005).	98352	0	0
624	12	encodes_alternately_spliced_transcripts	A gene that encodes more than one transcript.	846	0	0
1645	12	finished_genome	The status of a whole genome sequence, with less than 1 error per 100,000 base pairs.	2294	0	0
2079	12	rRNA_cleavage_RNA	An ncRNA that is part of a ribonucleoprotein that cleaves the primary pre-rRNA transcript in the process of producing mature rRNA molecules.	2863	0	0
901	12	plastid_sequence	\N	1187	0	0
388	12	serine_tRNA_primary_transcript	A primary transcript encoding seryl tRNA (SO:000269).	496	0	0
42698	17	ear spikelet pair meristem	An ear inflorescence branch meristem (PO:0009110) that produces two ear spikelet meristems (PO:0006378), each of which produces two flower meristems (PO:0000229) in an ear inflorescence (PO:0020136).	97278	0	0
42509	17	shoot axis endodermis	A portion of endodermis (PO:0000252) that is part of a shoot axis cortex (PO:0000223).	97040	0	0
2284	12	CDS_supported_by_EST_or_cDNA_data	A CDS that is supported by similarity to EST or cDNA data.	3096	0	0
43108	17	plant anatomical space	An anatomical space that is part of a plant.	97970	0	0
43507	17	free petal	A petal (PO:0009032) that is part of a perianth (PO:0009058) that contains fused sepals (PO:0025584) and/or fused petals (PO:0025583), but is separate from the other sepals (PO:0009031) and petals (PO:0009032).	98488	0	0
910	12	plasmid_location	\N	1200	0	0
43500	17	pentarch protoxylem	A portion of root exarch protoxylem (PO:0025555) tissue in which the primary xylem (PO:0005849) of the root system (PO:0025025) has five protoxylem strands or poles, and differentiation progresses centripetally, with the oldest elements (protoxylem) farthest from the center of the plant axis (PO:0025004).	98481	0	0
42547	17	scale leaf	A phyllome that is reduced in size relative to a vascular leaf on the same plant and is often associated with a perennating or dormant bud or a vegetatively propagating organ such as a rhizome.	97086	0	0
42772	17	stem internode differentiation zone	A shoot internode differentiation zone that is part of a stem internode.	97359	0	0
1670	12	free	The quality of a duplication where the new region exists independently of the original.	2325	0	0
581	12	five_prime_terminal_inverted_repeat	\N	798	0	0
42553	17	anther wall outer secondary parietal cell layer	An anther wall secondary parietal cell layer (PO:0006007) formed towards the outside, after an anther wall primary parietal cell layer (An anther wall secondary parietal cell layer (PO:0006006) undergoes a periclinal division.	97099	0	0
1216	12	promoter_targeting_sequence	A transcriptional_cis_regulatory_region that restricts the activity of a CRM to a single promoter and which functions only when both itself and an insulator are located between the CRM and the promoter.	1567	0	0
1896	12	SL3_acceptor_site	A SL2_acceptor_site which appends the SL3 RNA leader sequence to the 5' end of an mRNA. SL3 acceptor sites occur in genes in internal segments of polycistronic transcripts.	2593	0	0
1646	12	intronic_regulatory_region	A regulatory region that is part of an intron.	2295	0	0
42978	17	leaf margin	A phyllome margin (PO:0025018) that is part of a leaf (PO:0025034).	97792	0	0
837	12	canonical_three_prime_splice_site	The canonical 3' splice site has the sequence "AG".	1107	0	0
2143	12	chromosomal_duplication	An extra chromosome.	2941	0	0
42517	17	parenchyma	A portion of ground tissue (PO:0025059) composed of polyhedral cells typically with thin, non-lignified cellulosic cell walls and nucleate, living protoplasts.	76747	0	0
42595	17	style epidermis	A portion of carpel epidermis (PO:0025096) that is part of a style (PO:0009074).	97149	0	0
42911	17	radicle	An embryo root (PO:0000045) that is the basal continuation of a hypocotyl (PO:0020100) in a plant embryo (PO:0009009) or a seedling (PO:0000003).	97685	0	0
560	12	U12_snRNA	The U12 small nuclear (snRNA), together with U4atac/U6atac, U5, and U11 snRNAs and associated proteins, forms a spliceosome that cleaves a divergent class of low-abundance pre-mRNA introns.	754	0	0
43175	17	tepal epidermis	A portion of phyllome epidermis (PO:0025157) that is part of a tepal (PO:0009033).	98062	0	0
1420	12	miRNA_gene	\N	1930	0	0
42566	17	bundle sheath extension	A portion of ground tissue (PO:0025059) which forms a strip along the leaf veins and extending from the bundle sheath (PO:0006023) to the epidermis. It may be present on one or both sides of the vein and may consist of parenchyma or sclerenchyma.	97114	0	0
723	12	nonamer_of_recombination_feature_of_vertebrate_immune_system_gene	\N	952	0	0
1858	12	H3K79_monomethylation_site	A kind of histone modification site, whereby the 79th residue (a lysine), from the start of the H3 histone protein is mono- methylated.	2548	0	0
1000	12	spliceosomal_intron_region	A region within an intron.	1306	0	0
1847	12	dCAPS_primer	A primer with one or more mis-matches to the DNA template corresponding to a position within a restriction enzyme recognition site.	2534	0	0
42323	17	shoot axis epidermis	A portion of shoot system epidermis (PO:0006035) that is part of a shoot axis (PO:0025029).	96776	0	0
55399	12	Alu_deletion	A deletion of an Alu mobile element with respect to a reference.	3073735	0	0
903	12	maxicircle	A maxicircle is a replicon, part of a kinetoplast, that contains open reading frames and replicates via a rolling circle method.	1192	0	0
694	12	V_heptamer	7 nucleotide recombination site (e.g. CACAGTG), part of V-gene recombination feature of an immunoglobulin/T-cell receptor gene.	917	0	0
42375	17	obsolete primary root elongation zone (obsolete PO:0003003)	OBSOLETE. A zone of small, densely cytoplasmic cells that are dividing and expanding in size located behind the zone of cell division in the primary root.	96865	1	0
43273	17	embryo apical cell	A sporophyte meristematic apical cell that is part of a plant embryo and is the uppermost cell formed after the first division of a zygote.	98175	0	0
335	12	GC_rich_promoter_region	A conserved GC-rich region located upstream of the start point of eukaryotic transcription units which may occur in multiple copies or in either orientation; consensus=GGGCGG.	428	0	0
1007	12	LTR_component	\N	1313	0	0
817	12	stRNA_encoding	\N	1083	0	0
42692	17	upper floret of pedicellate spikelet of ear	An ear floret that is the upper of the two florets of a pedicellate spikelet rachilla of an ear inflorescence.	97271	0	0
1339	12	morpholino_backbone	An attribute describing a sequence composed of nucleobases bound to a morpholino backbone. A morpholino backbone consists of morpholine (CHEBI:34856) rings connected by phosphorodiamidate linkages.	1815	0	0
1500	12	two_prime_O_methyluridine	2prime_O_methyluridine is a modified uridine base feature.	2079	0	0
43012	17	sporophyll margin	A phyllome margin (PO:0025018) that is part of a sporophyll (PO:0009026).	97835	0	0
976	12	mini_gene	By definition, minigenes are short open-reading frames (ORF), usually encoding approximately 9 to 20 amino acids, which are expressed in vivo (as distinct from being synthesized as peptide or protein ex vivo and subsequently injected). The in vivo synthesis confers a distinct advantage: the expressed sequences can enter both antigen presentation pathways, MHC I (inducing CD8+ T- cells, which are usually cytotoxic T-lymphocytes (CTL)) and MHC II (inducing CD4+ T-cells, usually 'T-helpers' (Th)); and can encounter B-cells, inducing antibody responses. Three main vector approaches have been used to deliver minigenes: viral vectors, bacterial vectors and plasmid DNA.	1276	0	0
1848	12	histone_modification	Histone modification is a post translationally modified region whereby residues of the histone protein are modified by methylation, acetylation, phosphorylation, ubiquitination, sumoylation, citrullination, or ADP-ribosylation.	2536	0	0
353	12	interior_intron	\N	454	0	0
316	12	PAC	The P1-derived artificial chromosome are DNA constructs that are derived from the DNA of P1 bacteriophage. They can carry large amounts (about 100-300 kilobases) of other sequences for a variety of bioengineering purposes. It is one type of vector used to clone DNA fragments (100- to 300-kb insert size; average, 150 kb) in Escherichia coli cells.	394	0	0
891	12	gap	A gap in the sequence of known length. The unknown bases are filled in with N's.	1176	0	0
1723	12	cryptic_splice_site_variant	A sequence variant causing a new (functional) splice site.	2383	0	0
42940	17	caruncle	An arilloid that is an outgrowth of a seed next to the micropyle.	97733	0	0
43560	17	stereid	A ground tissue cell with thickened cell walls.	98567	0	0
730	12	retrotransposed	An attribute of a feature that occurred as the product of a reverse transcriptase mediated event.	959	0	0
1395	12	minor_TSS	\N	1898	0	0
1215	12	enhanceosome (obsolete SO:0001057)	\N	1566	1	0
42290	17	prop root	A shoot-borne nodal root (PO:0003005) formed at a stem node (PO:0020141) above the ground and growing directly into the soil.	96731	0	0
1309	12	beta_turn_type_six_a_two	\N	1768	0	0
631	12	J_gene_segment	Germline genomic DNA of an immunoglobulin/T-cell receptor gene including J-region with 5' UTR (SO:0000204) and 3' UTR (SO:0000205), also designated as J-segment.	853	0	0
1762	12	elongated_polypeptide_N_terminal	A sequence variant with in the CDS that causes elongation of the resulting polypeptide sequence at the N terminus.	2436	0	0
269	12	sequencing_primer	\N	337	0	0
1380	12	gene_silenced_by_RNA_interference	A gene that is silenced by RNA interference.	1873	0	0
301	12	ribosome_entry_site	Region in mRNA where ribosome assembles.	372	0	0
541	12	hammerhead_ribozyme	A small catalytic RNA motif that catalyzes self-cleavage reaction. Its name comes from its secondary structure which resembles a carpenter's hammer. The hammerhead ribozyme is involved in the replication of some viroid and some satellite RNAs.	707	0	0
334	12	CAAT_signal	Part of a conserved sequence located about 75-bp upstream of the start point of eukaryotic transcription units which may be involved in RNA polymerase binding; consensus=GG(C|T)CAATCT.	426	0	0
1495	12	one_two_prime_O_dimethylguanosine	1_2prime_O_dimethylguanosine is a modified guanosine base feature.	2068	0	0
42951	17	multiple fruit (obsolete PO:0020086)	OBSOLETE. Fruit on a common axis derived from the ovaries of several flowers.	97745	1	0
229	12	gene_to_gene_feature	\N	289	0	0
1350	12	R_GNA	An attribute describing a GNA sequence in the (R)-GNA enantiomer.	1835	0	0
42389	17	stolon	A branch that is slender, prostrate or trailing and above-ground and produces roots and sometimes erect shoots at its nodes.	96882	0	0
1029	12	trans_spliced	An attribute describing transcript sequence that is created by splicing exons from diferent genes.	1340	0	0
43348	17	leaf mesophyll intercellular space	An intercellular space that is part of a leaf mesophyll.	98274	0	0
42516	17	phloem	A portion of vascular tissue (PO:0009015) that has as parts sieve elements (PO:0025406).	97050	0	0
302	12	attenuator	A sequence segment located within the five prime end of an mRNA that causes premature termination of translation.	373	0	0
55390	12	H3K56_acetylation_site	A kind of histone modification site, whereby the 56th residue (a lysine), from the start of the H3 histone protein is acetylated.	3073725	0	0
2101	12	lipoprotein_signal_peptide	A peptide that acts as a signal for both membrane translocation and lipid attachment in prokaryotes.	2889	0	0
1639	12	Y_prime_element	A Y' element is a repeat region (SO:0000657) located adjacent to telomeric repeats or X element combinatorial repeats, either as a single copy or tandem repeat of two to four copies.	2286	0	0
572	12	rescue_region	A region that rescues.	782	0	0
679	12	V_DJ_cluster	Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene and one DJ-gene.	902	0	0
42835	17	calyx	A collective phyllome structure (PO:0025023) that is composed of one or more sepals (PO:0009031), and comprises the outer whorl of non-reproductive floral organs (PO:0025395).	97516	0	0
55316	12	priRNA	A small RNA molecule, 22-23 nt in size, that is the product of a longer RNA. The production of priRNAs is independent of dicer and involves binding of RNA by argonaute and trimming by triman. In fission yeast, priRNAs trigger the establishment of heterochromatin. PriRNAs are primarily generated from centromeric transcripts (dg and dh repeats), but may also be produced from degradation products of primary transcripts.	3073616	0	0
1348	12	GNA	An attribute describing a sequence consisting of nucleobases attached to a repeating unit made of an acyclic three-carbon propylene glycol connected to a phosphate backbone. It has two enantiomeric forms, (R)-GNA and (S)-GNA.	1831	0	0
43234	17	first order infructescence axis	An infructescence axis (PO:0025242) that is the primary or main axis of an infructescence (PO:0006342).	98130	0	0
2172	12	sequence_variant_causing_minus_2_frameshift (obsolete SO:1000069)	A mutation causing a disruption of the translational reading frame, due to the deletion of two nucleotides.	2978	1	0
43017	17	collective tepal structure	A perianth (PO:0009058) consisting of one or more tepals (PO:0009033).	97841	0	0
43311	17	hydathode pore	A plant anatomical space that is an opening in a hydathode.	98220	0	0
2241	12	bipartite_inversion	A chromosomal inversion caused by three breaks in the same chromosome; both central segments are inverted in place (i.e., they are not transposed).	3053	0	0
59192	17	fruit pedicel abscission zone	An abscission zone (PO:0000146) that forms as a swelling or joint on the fruit pedicel (PO:0004536).	3080684	0	0
43534	17	gametophore meristematic apical cell	A shoot meristematic apical cell that is part of a gametophore.	98525	0	0
43322	17	ensiform vascular leaf	A unifacial leaf that is flat in cross section due to a lamina that develops in a median plane (perpendicular to the axis), rather a transverse plane (tangent to the axis) throughout all of part of the length of the leaf.	98237	0	0
42708	17	tassel spikelet meristem	Apical meristem that gives rise to the upper and lower florets of the maize tassel spikelets.	97289	0	0
1614	12	insulator_binding_site	A binding site that, in an insulator region of a nucleotide molecule, interacts selectively and non-covalently with polypeptide residues.	2256	0	0
734	12	rRNA_encoding	\N	965	0	0
42973	17	root cap	A portion of root parenchyma (PO:0025095) tissue that is part of the root tip (PO:0000025) and covers the root apical meristem (PO:0020147).	97785	0	0
42804	17	megasporophyll	A structure upon which (or in the axil of which) one or more megasporangia are borne; in flowering plants, a carpel.	97425	0	0
1520	12	five_methylaminomethyl_two_thiouridine	5_methylaminomethyl_2_thiouridine is a modified uridine base feature.	2118	0	0
42825	17	inflorescence	A reproductive shoot system (PO:0025082) that has as parts all of the shoot axes (PO:0025029) distal to the most distal foliage leaf (PO:0009025) of a shoot axis and all of the flowers (PO:0009046) borne by those axes. Must have two or more flowers as parts.	97486	0	0
2031	12	regulatory_region_translocation	A feature translocation where the region contains a regulatory region.	2797	0	0
1459	12	N6_glycinylcarbamoyladenosine	N6_glycinylcarbamoyladenosine is a modified adenosine.	1996	0	0
422	12	glutamyl_tRNA	A tRNA sequence that has a glutamic acid anticodon, and a 3' glutamic acid binding region.	538	0	0
42283	17	shoot apex	A shoot axis (PO:0025029) that is the most distal part of a shoot system (PO:0009006) and has as parts a shoot apical meristem (PO:0020148) and the youngest primordia (PO:0025127).	96719	0	0
1413	12	octamer_motif	A sequence element characteristic of some RNA polymerase II promoters with sequence ATTGCAT that binds Pou-domain transcription factors.	1921	0	0
1360	12	Phage_RNA_Polymerase_Promoter	A region (DNA) to which Bacteriophage RNA polymerase binds, to begin transcription.	1848	0	0
1313	12	DMv4_motif	A sequence element characteristic of some RNA polymerase II promoters, located immediately upstream of some TATA box elements with respect to the TSS (+1). Consensus sequence is YGGTCACACTR. Marked spatial preference within core promoter; tend to occur near the TSS, although not as tightly as INR (SO:0000014).	1773	0	0
1540	12	modified_amino_acid_feature	A post translationally modified amino acid feature.	2156	0	0
42284	17	primary endosperm cell	Cell produced by the fusion of sperm cell nucleus and two polar nuclei of the central cell (or diploid secondary endosperm nucleus, in cases where two polar nuclei fuse together before double fertilization). The first cell of the endosperm, often triploid.	96721	0	0
43082	17	gynoecium ridge	A gynoecium in the early stages of development, characterized as a ridge on the abaxial surface of the floral meristem that develops from a gynoecium primordium.	97931	0	0
1662	12	alteration_attribute	\N	2317	0	0
43181	17	leaf abaxial stomatal complex	A leaf stomatal complex (PO:0025183) that is part of a leaf abaxial epidermis (PO:0006019).	98068	0	0
1649	12	centromere_DNA_Element_III	A centromere DNA Element I (CDEI) is a conserved region, part of the centromere, consisting of a consensus region that consists of a 25-bp which enables binding by the centromere DNA binding factor 3 (CBF3) complex.	2299	0	0
42367	17	plant zygote	A native plant cell (PO:0025606) which is a whole plant (PO:0000003) in the plant zygote stage (PO:0001097).	96852	0	0
2162	12	sequence_variant_causing_missense_codon_change_in_transcript (obsolete SO:1000059)	The nucleotide change in the codon leads to a new codon coding for a new amino acid.	2967	1	0
645	12	three_prime_coding_exon_noncoding_region	The sequence of the 3' exon that is not coding.	867	0	0
1990	12	CRE	A promoter element with consensus sequence TGACGTCA; bound by the ATF/CREB family of transcription factors.	2721	0	0
43059	17	subterranean tuber perimedullary zone	A tuber perimedullary zone that is part of a subterranean tuber pith.	97903	0	0
724	12	vertebrate_immune_system_gene_recombination_spacer	\N	953	0	0
1538	12	histone_binding_site	A binding site that, in the nucleotide molecule, interacts selectively and non-covalently with polypeptide residues of a histone.	2154	0	0
2124	12	G_to_A_transition	A transition of a guanine to an adenine.	2914	0	0
2069	12	mitochondrial_supercontig	A scaffold composed of mitochondrial contigs.	2849	0	0
42784	17	root	A plant axis (PO:0025004) that lacks shoot axis nodes (PO:0005004) and usually grows indeterminately.	76301	0	0
1152	12	consensus_region	\N	1474	0	0
43020	17	branch node	A shoot axis node (PO:0005004) that is part of a branch (PO:0025073).	97847	0	0
926	12	cosmid_clone (obsolete SO:0000765)	\N	1218	1	0
1676	12	insertional	\N	2331	0	0
1316	12	DMv3_motif	A sequence element characteristic of some RNA polymerase II promoters, usually located between -30 and +15 relative to the TSS. Consensus sequence is KNNCAKCNCTRNY. Tends to co-occur with DMv2 (SO:0001161). Tends to not occur with DPE motif (SO:0000015) or MTE (0001162).	1778	0	0
372	12	tRNA_primary_transcript	A primary transcript encoding a transfer RNA (SO:0000253).	480	0	0
43374	17	sieve element	A native plant cell (PO:0025606) that is part of a portion of phloem tissue (PO:0005417), has sieve areas in its walls, and lacks a nucleus in its mature protoplast.	98314	0	0
2293	12	recoding_stimulatory_region	A site in an mRNA sequence that stimulates the recoding of a region in the same mRNA.	3107	0	0
2168	12	frameshift_sequence_variation (obsolete SO:1000065)	A mutation causing a disruption of the translational reading frame, because the number of nucleotides inserted or deleted is not a multiple of three.	2973	1	0
1015	12	conserved	\N	1324	0	0
1479	12	one_methylguanosine	1_methylguanosine is a modified guanosine base feature.	2036	0	0
1426	12	tmRNA_gene	\N	1936	0	0
811	12	small_subunit_rRNA	Ribosomal RNA transcript that structures the small subunit of the ribosome.	1073	0	0
303	12	terminator	The sequence of DNA located either at the end of the transcript that causes RNA polymerase to terminate transcription.	376	0	0
1671	12	inversion_attribute	\N	2326	0	0
1632	12	promoter_trap_construct	A promoter trap construct is a type of engineered plasmid which is designed to integrate into a genome and express a reporter when inserted in close proximity to a promoter element. Promoter traps typically do not contain promoter elements and are mutagenic.	2277	0	0
55498	12	incomplete_transcript_splice_region_variant	A sequence variant that intersects the splice region of an incompletely annotated transcript.	3073857	0	0
482	12	intronic_splice_enhancer	Sequences within the intron that modulate splice site selection for some introns.	621	0	0
1569	12	insertion_breakpoint	The point within a chromosome where a insertion begins or ends.	2207	0	0
43039	17	shoot axis tuber periderm	A portion of shoot axis periderm (PO:0005048) that is part of a shoot axis tuber (PO:0004543).	97875	0	0
1096	12	vertebrate_immune_system_feature (obsolete SO:0000937)	\N	1413	1	0
1701	12	decreased_transcript_stability_variant	A sequence variant that decreases transcript stability with respect to a reference sequence.	2360	0	0
1419	12	gRNA_gene	\N	1929	0	0
42761	17	trichome cell	A plant cell (PO:0009002) that is part of a multicellular trichome (PO:0000282).	97348	0	0
43551	17	archegonium stalk	A stalk that the basal part of an archegonium.	98551	0	0
43435	17	shoot-borne root primordium	A root primordium (PO:0005029) that is committed to the development of a shoot-borne root (PO:0000042).	98386	0	0
262	12	endogenous_retroviral_gene	A proviral gene with origin endogenous retrovirus.	325	0	0
400	12	foldback_element	A transposable element with extensive secondary structure, characterized by large modular imperfect long inverted repeats.	511	0	0
754	12	C_D_box_snoRNA	Most box C/D snoRNAs also contain long (>10 nt) sequences complementary to rRNA. Boxes C and D, as well as boxes C' and D', are usually located in close proximity, and form a structure known as the box C/D motif. This motif is important for snoRNA stability, processing, nucleolar targeting and function. A small number of box C/D snoRNAs are involved in rRNA processing; most, however, are known or predicted to serve as guide RNAs in ribose methylation of rRNA. Targeting involves direct base pairing of the snoRNA at the rRNA site to be modified and selection of a rRNA nucleotide a fixed distance from box D or D'.	995	0	0
43420	17	secondary phloem sieve tube element	A sieve tube element (PO:0000289) that is part of a portion of secondary phloem (PO:0005043).	98366	0	0
1788	12	piRNA_gene	A gene that encodes for an piwi associated RNA.	2462	0	0
204	12	pseudogene_attribute (obsolete SO:0000042)	An attribute of a pseudogene (SO:0000336).	256	1	0
43076	17	branch internode	A shoot axis internode (PO:0005005) that is part of a branch (PO:0025073).	97925	0	0
55334	12	pseudogenic_CDS	A non functional descendant of the coding portion of a coding transcript, part of a pseudogene.	3073645	0	0
42810	17	tepal	A phyllome (PO:0006001) that is part of a perianth (PO:0009058) where it is not possible to distinguish between the petals (PO:0009032) and sepals (PO:0009031).	97439	0	0
171	12	protein_coding	\N	204	0	0
55337	12	intronic_splicing_silencer	An intronic  splicing regulatory element that functions to recruit trans acting splicing factors suppress the transcription of the gene or genes they control.	3073648	0	0
43035	17	aerial tuber storage parenchyma	A portion of tuber storage parenchyma (PO:0025036) that is part of an aerial tuber (PO:0004548).	97870	0	0
43509	17	metaxylem tracheary element	A primary xylem tracheary element (PO:0025444) that may have helical, scalariform, reticulate and/or pitted secondary wall thickening.	98491	0	0
1936	12	mating_type_region	A specialized region in the genomes of some yeast and fungi, the genes of which regulate mating type.	2638	0	0
607	12	UTR_intron	Intron located in the untranslated region.	826	0	0
740	12	edited_transcript_feature	A locatable feature on a transcript that is edited.	972	0	0
684	12	V_VJ_C_cluster	Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one VJ-gene and one C-gene.	907	0	0
1763	12	elongated_in_frame_polypeptide_C_terminal	A sequence variant with in the CDS that causes in frame elongation of the resulting polypeptide sequence at the C terminus.	2437	0	0
892	12	fragmentary	An attribute to describe a feature that is incomplete.	1177	0	0
2098	12	catmat_right_handed_three	A motif of 3 consecutive residues with dihedral angles as follows: res i: phi -90 bounds -120 to -60, res i: psi -10 bounds -50 to 30, res i+1: phi -75 bounds -100 to -50, res i+1: psi 140 bounds 110 to 170. An extra restriction of the length of the O to O distance would be useful, that it be less than 5 Angstrom. More precisely these two oxygens are the main chain carbonyl oxygen atoms of residues i-1 and i+1.	2886	0	0
1739	12	stop_gained	A sequence variant whereby at least one base of a codon is changed, resulting in a premature stop codon, leading to a shortened transcript.	2408	0	0
765	12	editing_block	Edited mRNA sequence mediated by a single guide RNA (SO:0000602).	1011	0	0
2103	12	cleaved_peptide_region	The cleaved_peptide_regon is the a region of peptide sequence that is cleaved during maturation.	2891	0	0
1919	12	disease_associated_variant	\N	2617	0	0
43094	17	branch internode differentiation zone	A shoot internode differentiation zone that is part of a branch internode.	97954	0	0
2142	12	inversion	A continuous nucleotide sequence is inverted in the same position.	2939	0	0
1372	12	endonuclease_spliced_intron	An intron that spliced via endonucleolytic cleavage and ligation rather than transesterification.	1864	0	0
42834	17	corolla	A collective phyllome structure (PO:0025023) that is composed of one or more petals (PO:0009032), comprising the inner whorl of non-reproductive floral organs (PO:0025395) and surrounds the androecium (PO:0009061) and the gynoecium (PO:0009062).	97514	0	0
42881	17	tracheid bar	A portion of xylem (PO:0005352) tissue that is a distinct ring-like structure composed of tracheids (PO:0000301), that is part of a seed (PO:0009010) and surrounds the hilum (PO:0020063) and forms a groove in the surface of the pericarp (PO:0009084) immediately adjacent to the hilum.	97624	0	0
831	12	chromosome_breakage_sequence	A sequence within the micronuclear DNA of ciliates at which chromosome breakage and telomere addition occurs during nuclear differentiation.	1100	0	0
947	12	reagent_attribute (obsolete SO:0000786)	\N	1245	1	0
43591	17	archegonium head	An umbrella-shaped cardinal organ part that is the apical portion of an archegoniophore and bears archegonia.	98621	0	0
836	12	canonical_splice_site (obsolete SO:0000675)	The major class of splice site with dinucleotides GT and AG for donor and acceptor sites, respectively.	1106	1	0
513	12	synthetic_sequence	An attribute to decide a sequence of nucleotides, nucleotide analogs, or amino acids that has been designed by an experimenter and which may, or may not, correspond with any natural sequence.	663	0	0
1305	12	alternate_sequence_site	Description of sequence variants produced by alternative splicing, alternative promoter usage, alternative initiation and ribosomal frameshifting.	1761	0	0
1117	12	circular_double_stranded_DNA_chromosome	Structural unit composed of a self-replicating, double-stranded, circular DNA molecule.	1434	0	0
613	12	transgene_attribute (obsolete SO:0000452)	\N	832	1	0
2127	12	C_to_A_transversion	A transversion from cytidine to adenine.	2918	0	0
1302	12	polypeptide_variation_site	A site of sequence variation (alteration). Alternative sequence due to naturally occuring events such as polymorphisms and altermatve splicing or experimental methods such as site directed mutagenesis.	1755	0	0
416	12	alanyl_tRNA	A tRNA sequence that has an alanine anticodon, and a 3' alanine binding region.	532	0	0
922	12	phagemid_clone (obsolete SO:0000761)	\N	1214	1	0
43327	17	awn	A cardinal organ part that is a slender, more or less straight and stiff, fine-pointed, terminal or subterminal appendage of a glume, lemma, or palea.	98245	0	0
43518	17	caulonema cell	A chlorenchyma cell that is part of a caulonema and has cross walls of adjacent cells that are oblique to the protonema axis.	98505	0	0
1974	12	mRNA_read	A sequencer read of an mRNA substrate.	2696	0	0
659	12	five_prime_D_spacer	12 or 23 nucleotide spacer between the 5' D-heptamer (SO:0000496) and 5' D-nonamer (SO:0000497) of a 5' D-recombination signal sequence (SO:0000556) of an immunoglobulin/T-cell receptor gene.	881	0	0
1664	12	intrachromosomal	\N	2319	0	0
2265	12	alternatively_spliced_transcript	A transcript that is alternatively spliced.	3077	0	0
42511	17	leaf endodermis	A portion of endodermis that is part of a vascular leaf.	97042	0	0
554	12	U4_snRNA	U4 small nuclear RNA (U4 snRNA) is a component of the major U2-dependent spliceosome. It forms a duplex with U6, and with each splicing round, it is displaced from U6 (and the spliceosome) in an ATP-dependent manner, allowing U6 to refold and create the active site for splicing catalysis. A recycling process involving protein Prp24 re-anneals U4 and U6.	739	0	0
1805	12	ligand_binding_site	A binding site that, in the molecule, interacts selectively and non-covalently with a small molecule such as a drug, or hormone.	2487	0	0
42707	17	tassel apical meristem	An inflorescence apical meristem that gives rise to the maize tassel.	97288	0	0
1247	12	non_covalent_binding_site (obsolete SO:0001091)	Binding site for any chemical group (co-enzyme, prosthetic group, etc.).	1636	1	0
42895	17	sculpture elements (obsolete PO:0020015)	OBSOLETE. Third layer of sexine.	97655	1	0
2304	12	flanking_three_prime_quadruplet_recoding_signal	Four base pair sequence immediately downstream of the redefined region. The redefined region is a frameshift site. The quadruplet is 2 overlapping codons.	3122	0	0
685	12	V_VJ_cluster	Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene and one VJ-gene.	908	0	0
1130	12	DNA_replication_mode (obsolete SO:0000971)	\N	1448	1	0
42652	17	L3 (obsolete PO:0006305)	OBSOLETE. The innermost layer of the tunica.	97218	1	0
43505	17	root system phloem sap	A phloem sap (PO:0025540) that is located in the root system (PO:0025025).	98486	0	0
1489	12	hydroxywybutosine	Hydroxywybutosine is a modified guanosine base feature.	2056	0	0
43033	17	fruit storage parenchyma	A portion of storage parenchyma that is part of a fruit.	97868	0	0
1037	12	monocistronic	An attribute describing a sequence that contains the code for one gene product.	1348	0	0
1868	12	epigenetically_modified_region	A biological region implicated in inherited changes caused by mechanisms other than changes in the underlying DNA sequence.	2559	0	0
1498	12	N2_7_2prirme_O_trimethylguanosine	N2_7_2prirme_O_trimethylguanosine is a modified guanosine base feature.	2074	0	0
1729	12	splice_donor_variant	A splice variant that changes the2 base region at the 5' end of an intron.	2389	0	0
42642	17	exotegmen	A portion of seed coat epidermis (PO:0006048) which is part of the seed coat (PO:0009088) and develops from the outer surface of the inner integument (PO:0020022).	97207	0	0
1552	12	modified_L_phenylalanine	A post translationally modified phenylalanine amino acid feature.	2179	0	0
184	12	K_turn_RNA_motif	The kink turn (K-turn) is an RNA structural motif that creates a sharp (~120 degree) bend between two continuous helices.	223	0	0
43223	17	portion of embryo plant tissue	A portion of plant tissue (PO:0009007) that is part of a plant embryo (PO:0009009).	98116	0	0
55407	12	splice_polypyrimidine_tract_variant	A sequence variant that falls in the polypyrimidine tract at 3' end of intron between 17 and 3 bases from the end (acceptor -3 to acceptor -17).	3073746	0	0
55507	12	polymorphic_pseudogene_with_retained_intron	A polymorphic  pseudogene in the reference genome, containing a retained intron,  known to be intact in the genomes of other individuals of the same species. The annotation process has confirmed that the pseudogenisation event is not a genomic sequencing error.	3073868	0	0
1162	12	low_complexity	\N	1486	0	0
778	12	RNApol_III_promoter_type_1	\N	1028	0	0
43097	17	fourth order inflorescence branch	An inflorescence branch (PO:0009081) arising from a third order inflorescence branch (PO:0025105).	97957	0	0
42240	17	derives_by_manipulation_from	\N	96646	0	1
43506	17	root system xylem sap	A xylem sap (PO:0025539) that is located in the root system (PO:0025025).	98487	0	0
1881	12	H3K36_methylation_site	A kind of histone modification site, whereby the 36th residue (a lysine), from the start of the H3 histone protein is methylated.	2574	0	0
233	12	inside_intron_parallel	An attribute to describe a gene when it is located within the intron of another gene and on the same strand.	293	0	0
533	12	enzymatic_RNA	An RNA sequence that has catalytic activity with or without an associated ribonucleoprotein.	689	0	0
55490	12	FRE	A FRE is an enhancer element necessary and sufficient to confer filamentation associated expression in S. cerevisiae.	3073849	0	0
1150	12	BAC_cloned_genomic_insert	\N	1472	0	0
1871	12	H3K36_dimethylation_site	A kind of histone modification site, whereby the 36th residue (a lysine), from the start of the H3 histone protein is dimethylated.	2563	0	0
341	12	clone_insert_start	The start of the clone insert.	437	0	0
42779	17	pulvinus	A cardinal organ part (PO:0025001) at the apex or base of a petiole, petiolule, leaf sheath, or branch that is differentiated from the remaining organ parts by its enlarged cross section.	97367	0	0
652	12	VJ_J_cluster	Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one VJ-gene and one J-gene.	874	0	0
519	12	flanked	An attribute describing a region that is bounded either side by a particular kind of region.	670	0	0
42836	17	androecium	A collective phyllome structure (PO:0025023) composed all of the stamens (PO:0009029) in a flower (PO:0009046).	97517	0	0
2270	12	encodes_disjoint_polypeptides	A gene that is alternately spliced, and encodes more than one polypeptide, that do not have overlapping peptide sequences.	3082	0	0
2006	12	STREP_motif	A promoter element with consensus sequence CCCCTC, bound by the PKA-responsive zinc finger transcription factor Rst2.	2760	0	0
43514	17	fused petal	A petal (PO:0009032) that is part of a fused corolla (PO:0025581) or a fused perianth (PO:0025580).	98499	0	0
2233	12	laevosynaptic_chromosome	LS is an autosynaptic chromosome carrying the two left (L = levo) telomeres.	3045	0	0
42549	17	carpel anlagen	A phyllome anlagen (PO:0025430) that will give rise to a carpel primordium (PO:0004703) and is part of a peripheral zone (PO:000225) of a flower meristem (PO:0000229).	97091	0	0
42269	17	casparian strip (obsolete PO:0000023)	OBSOLETE. A band-like wall formation within primary walls that contains suberin and lignin; typical of endodermal cells in roots, in which it occurs in radial and transverse anticlinal walls.	96699	1	0
43409	17	primary xylem tracheid	A tracheid (PO:0000301) that is part of a xylem tissue (PO:0005849).	98355	0	0
1590	12	valine	\N	2231	0	0
2309	12	three_prime_repeat_recoding_signal	A recoding stimulatory signal, downstream sequence important for recoding that contains repetitive elements.	3128	0	0
733	12	DJ_gene_segment	Genomic DNA of immunoglobulin/T-cell receptor gene in partially rearranged genomic DNA including D-J-region with 5' UTR and 3' UTR, also designated as D-J-segment.	964	0	0
43072	17	axillary strobilus bud	An axillary reproductive bud that develops into a strobilus.	97921	0	0
187	12	RNA_junction_loop	\N	228	0	0
1463	12	N6_hydroxynorvalylcarbamoyladenosine	N6_hydroxynorvalylcarbamoyladenosine is a modified adenosine.	2004	0	0
55448	12	IG_D_gene	A gene that rearranges at the DNA level and codes the diversity region of the variable domain of an immunoglobuin (IG) gene.	3073799	0	0
42452	17	axillary flower bud	An axillary bud that develops into a flower.	96964	0	0
1136	12	template_region	A region of a guide_RNA that specifies the insertions and deletions of bases in the editing of a target mRNA.	1455	0	0
42665	17	ear spikelet	A spikelet (PO:0009051) that is part of the ear inflorescence (PO:0020136) and bears a single ear floret (PO:0006354) at maturity.	97233	0	0
43145	17	bract apex	A phyllome apex (PO:0025139) that is part of a bract (PO:0009055).	98024	0	0
614	12	chromosomal_transposition	A chromosome structure variant whereby a region of a chromosome has been transferred to another position. Among interchromosomal rearrangements, the term transposition is reserved for that class in which the telomeres of the chromosomes involved are coupled (that is to say, form the two ends of a single DNA molecule) as in wild-type.	833	0	0
42814	17	lemma	The lower, usually larger, of the pair of flower bracts (PO:0009034) enclosing a (PO:0009082) spikelet floret.	97448	0	0
163	12	G_quartet	G-quartets are unusual nucleic acid structures consisting of a planar arrangement where each guanine is hydrogen bonded by hoogsteen pairing to another guanine in the quartet.	190	0	0
59159	17	samara fruit	A fruit (PO:0009001) which develops from a carpel (PO:0009030) and at maturity comprises a dry exocarp (PO:0009085), dry mesocarp (PO:0009087), and dry endocarp (PO:0009086) that are elongated into a wing-like structure.	3080623	0	0
43315	17	keel petal	A petal (PO:0009032) that is one of the two lowest petals of a papilionaceous corolla (PO:0025324).	98228	0	0
42519	17	chlorenchyma	Chloroplast-containing parenchyma tissue.	97053	0	0
1851	12	H3K9_acetylation_site	A kind of histone modification site, whereby the 9th residue (a lysine), from the start of the H3 histone protein is acylated.	2540	0	0
42542	17	secondary xylem	A portion of xylem (PO:0005352) tissue that develops from a vascular cambium (PO:0005598).	97077	0	0
1940	12	clone_end	A read from an end of the clone sequence.	2643	0	0
2205	12	sequence_variant_affecting_polypeptide_amino_acid_sequence (obsolete SO:1000105)	\N	3013	1	0
351	12	non_LTR_retrotransposon	A retrotransposon without long terminal repeat sequences.	452	0	0
1625	12	RST_match	A match against an RST sequence.	2268	0	0
43219	17	valve	A cardinal organ part that is a part of a plant structure that splits apart when the structure dehisces.	98112	0	0
43042	17	shoot axis tuber epidermis	A portion of shoot axis epidermis (PO:0000112) that is part of a shoot axis tuber (PO:0004543).	97880	0	0
1184	12	genome	A genome is the sum of genetic material within a cell or virion.	1524	0	0
2248	12	inverted_intrachromosomal_transposition	An intrachromosomal transposition whereby the segment between the first two breaks listed is removed and inserted at the third break; the insertion is in cytologically inverted orientation with respect to its flanking segments.	3060	0	0
42573	17	shoot system epidermis	A portion of epidermis (PO:0005679) that is part of a shoot system (PO:0009006) and arises from the meristem L1 layer (PO:0009020).	97121	0	0
2136	12	intrachromosomal_mutation	A chromosomal structure variation within a single chromosome.	2927	0	0
42996	17	quiescent center	A portion of meristem tissue (PO:0009013) that is part of a root apical meristem (PO:0020147) and consists of mitotically and metabolically inactive cells and is located behind the protoderm (PO:0006210) of the root (PO:0009005).	97814	0	0
55313	12	conserved_intron_variant	A transcript variant occurring within a conserved region of an intron.	3073611	0	0
1453	12	two_prime_O_methyladenosine	2prime_O_methyladenosine is a modified adenosine.	1984	0	0
1025	12	minus_1_frameshift	A frameshift caused by deleting one base.	1336	0	0
1813	12	DCE_SI	A sub element of the DCE core promoter element, with consensus sequence CTTC.	2496	0	0
42662	17	lower floret of sessile spikelet of tassel	A tassel floret that is the lower of the two florets of a sessile spikelet of a tassel inflorescence.	97229	0	0
735	12	VDJ_gene_segment	Rearranged genomic DNA of immunoglobulin/T-cell receptor gene including L-part1, V-intron and V-D-J-exon, with the 5'UTR (SO:0000204) and 3'UTR (SO:0000205).	966	0	0
55471	12	uORF	A short open reading frame that is found in the 5' untranslated region of an mRNA and plays a role in translational regulation.	3073823	0	0
42546	17	lower glume	A glume that is the proximal/basal of the two glumes subtending a pair of florets.	97083	0	0
42890	17	endexine (obsolete PO:0020010)	OBSOLETE. The inner part of the exine, which stains.	97650	1	0
799	12	transcribed_spacer_region	Part of an rRNA transcription unit that is transcribed but discarded during maturation, not giving rise to any part of rRNA.	1055	0	0
43213	17	reproductive shoot apex	A shoot apex that has as part a reproductive shoot apical meristem.	98106	0	0
1771	12	mature_miRNA_variant	A transcript variant located with the sequence of the mature miRNA.	2445	0	0
1143	12	double	\N	1464	0	0
42540	17	promeristem (obsolete PO:0005752)	OBSOLETE. Meristematic tissue consisting of apical initials, together with cells derived from them and which are still close to the initial.	97075	1	0
43164	17	spine leaf	A leaf that is a sclerified and pointed and lacks a lamina.	98048	0	0
552	12	U1_snRNA	U1 is a small nuclear RNA (snRNA) component of the spliceosome (involved in pre-mRNA splicing). Its 5' end forms complementary base pairs with the 5' splice junction, thus defining the 5' donor site of an intron. There are significant differences in sequence and secondary structure between metazoan and yeast U1 snRNAs, the latter being much longer (568 nucleotides as compared to 164 nucleotides in human). Nevertheless, secondary structure predictions suggest that all U1 snRNAs share a 'common core' consisting of helices I, II, the proximal region of III, and IV.	733	0	0
1711	12	polypeptide_gain_of_function_variant	A sequence variant which causes gain of polypeptide function with respect to a reference sequence.	2370	0	0
42610	17	primary vascular tissue (obsolete PO:0006078)	OBSOLETE. The vascular tissue of the primary plant body at the embryonic stage.	97168	1	0
42763	17	stomatal pore	A plant anatomical space that forms an opening in an epidermis, flanked by two guard cells.	97350	0	0
1976	12	mRNA_contig	A contig composed of mRNA_reads.	2698	0	0
1020	12	capped_primary_transcript	A primary transcript that is capped.	1330	0	0
1563	12	cleaved_for_gpi_anchor_region	The C-terminal residues of a polypeptide which are exchanged for a GPI-anchor.	2200	0	0
291	12	gene_silenced_by_DNA_methylation	A gene that is silenced by DNA methylation.	361	0	0
42663	17	upper floret of sessile spikelet of tassel	A tassel floret that is one of the two florets placed above the lower floret on a sessile spikelet rachilla of a tassel inflorescence.	97230	0	0
875	12	nucleotide_motif	A region of nucleotide sequence corresponding to a known motif.	1153	0	0
1922	12	quantitative_variant	\N	2620	0	0
42753	17	quaternary leaf vein	A leaf lamina vein (PO:0020138) arising from a tertiary leaf vein (PO:0008021).	97340	0	0
339	12	cross_genome_match	A nucleotide match against a sequence from another organism.	434	0	0
644	12	nc_primary_transcript	A primary transcript that is never translated into a protein.	866	0	0
43253	17	locule	A plant anatomical space (PO:0025117) that is a cavity a reproductive structure.	98150	0	0
42513	17	xylem	A portion of vascular tissue (PO:0009015) that has as part one or more tracheary elements (PO:0000290).	97044	0	0
1543	12	modified_L_asparagine	A post translationally modified asparagine amino acid feature.	2161	0	0
1371	12	coding_region_of_exon	The region of an exon that encodes for protein sequence.	1863	0	0
42299	17	petiole cortex	A portion of cortex (PO:0005708) that is part of a petiole (PO:0020038).	96740	0	0
42322	17	plant sperm cell	A gamete (PO:0025006) produced by an antheridium (PO:0025125) or a microgametophyte (PO:0025280).	96773	0	0
236	12	five_prime_five_prime_overlap	An attribute to describe a gene when the five prime region overlaps with another gene's five prime region.	296	0	0
42669	17	first order tassel inflorescence axis	A first order inflorescence axis (PO:0025104) that is the primary axis of a tassel inflorescence (PO:0020126).	97239	0	0
43083	17	dehiscence zone	A portion of plant tissue (PO:0009007) that is part of a plant structure and consists of a narrow band of cells that undergoes dehiscence upon maturation of the structure.	97939	0	0
1224	12	polypeptide_motif	A sequence motif is a short (up to 20 amino acids) region of biological interest. Such motifs, although they are too short to constitute functional domains, share sequence similarities and are conserved in different proteins. They display a common function (protein-binding, subcellular location etc.).	1585	0	0
304	12	DNA_sequence_secondary_structure	A folded DNA sequence.	378	0	0
42972	17	inflorescence axis	A shoot axis (PO:0025029) that is part of an inflorescence (PO:0009049).	97784	0	0
42591	17	cotyledon abaxial epidermis	The abaxial/lower epidermal cell layer of the cotyledon.	97143	0	0
634	12	negatively_autoregulated	The gene product is involved in its own transcriptional regulation where it decreases transcription.	856	0	0
1819	12	bacterial_RNApol_promoter_sigma_70	\N	2502	0	0
1440	12	N4_acetylcytidine	N4-acetylcytidine is a modified cytidine.	1957	0	0
110	12	associated_with	\N	136	0	1
775	12	bacterial_terminator	A terminator signal for bacterial transcription.	1025	0	0
877	12	dicistronic_mRNA	An mRNA that has the quality dicistronic.	1155	0	0
43095	17	first order inflorescence axis	An inflorescence axis (PO:0020122) that is the primary or main axis of an inflorescence (PO:0009049).	97955	0	0
43438	17	lodicule anlagen	A phyllome anlagen (PO:0025430) that will give rise to a lodicule primordium (PO:0008040) and is part of a peripheral zone (PO:000225) of a flower meristem (PO:0000229).	98390	0	0
2139	12	interchromosomal_mutation	A chromosomal structure variation whereby more than one chromosome is involved.	2932	0	0
1615	12	enhancer_binding_site	A binding site that, in the enhancer region of a nucleotide molecule, interacts selectively and non-covalently with polypeptide residues.	2257	0	0
59221	17	lemma apiculus	A cardinal organ part (PO:0025001) which is a short, abrupt, flexible point at the apex of the lemma (PO:0009037).	3080732	0	0
1201	12	attCtn_site	An attachment site located on a conjugative transposon and used for site-specific integration of a conjugative transposon.	1549	0	0
935	12	metabolic_island	A transmissible element containing genes involved in metabolism, analogous to the pathogenicity islands of gram negative bacteria.	1233	0	0
42423	17	procumbent ray secondary xylem parenchyma cell	A ray secondary xylem parenchyma cell (PO:0004527) that is oriented with its longest dimension radial to the plant axis (PO:0025004) in which it is found.	96928	0	0
43411	17	primary xylem vessel member	A xylem vessel member (PO:0002003) that is part of a primary xylem tissue (PO:0005849).	98357	0	0
113	12	contained_by	\N	139	0	1
43021	17	root system	A collective plant organ structure (PO:0025007) that produces root meristems (PO:0006085), the plant structures (PO:0009011) that arise from them and the parts thereof.	97848	0	0
55502	12	sgRNA	A small RNA oligo, typically about 20 bases, that guides the cas nuclease to a target DNA sequence in the CRISPR/cas mutagenesis method.	3073861	0	0
1113	12	DNA_chromosome	Structural unit composed of a self-replicating, DNA molecule.	1430	0	0
42249	17	in vitro plant structure	A plant structure (PO:0009011) that is grown or maintained in vitro.	96665	0	0
306	12	primary_transcript_attribute (obsolete SO:0000144)	\N	380	1	0
42900	17	nucellus	A megasporangium (PO:0025201) in a seed plant, composed of fleshy subepidermal tissue that is part of a plant ovule (PO:0020003) and surrounds a megasporocyte (PO:0000431).	97662	0	0
42377	17	shoot-borne nodal root	A shoot-borne root (PO:0000042) that forms at a shoot axis node (PO:0005004).	96868	0	0
1890	12	copy_number_gain	A sequence alteration whereby the copy number of a given regions is greater than the reference sequence.	2585	0	0
1145	12	linear	A quality of a nucleotide polymer that has a 3'-terminal residue and a 5'-terminal residue.	1466	0	0
55493	12	non_AUG_initiated_uORF	A uORF beginning with a codon other than AUG.	3073852	0	0
2262	12	sequence_variant_causes_intron_gain (obsolete SO:1000185)	A sequence variant effect, causing an intron to be gained by the processed transcript; usually a result of a donor acceptor mutation (SO:1000072).	3074	1	0
2185	12	sequence_variant_increasing_transcript_stability (obsolete SO:1000083)	Sequence variant increases the stability (half-life) of the transcript.	2991	1	0
931	12	tmRNA_acceptor_piece	The acceptor region of a two-piece tmRNA that when mature is charged at its 3' end with alanine. The tmRNA gene undergoes circular permutation in some groups of bacteria; processing of the transcripts from such a gene leaves the mature tmRNA in two pieces, base-paired together.	1226	0	0
43423	17	intermediary companion cell	A companion cell (PO:0000400) that has dense cytoplasm, a small vacuole, proplastids rather than chloroplasts, and abundant and highly branched plasmodesmata linking it to adjacent mesophyll cells.	98371	0	0
150	12	similar_to	\N	176	0	1
807	12	siRNA	A small RNA molecule that is the product of a longer exogenous or endogenous dsRNA, which is either a bimolecular duplex or very long hairpin, processed (via the Dicer pathway) such that numerous siRNAs accumulate from both strands of the dsRNA. SRNAs trigger the cleavage of their target molecules.	1066	0	0
1931	12	complex_structural_alteration	A structural sequence alteration or rearrangement encompassing one or more genome fragments.	2629	0	0
1638	12	X_element_combinatorial_repeat	An X element combinatorial repeat is a repeat region located between the X element and the telomere or adjacent Y' element.	2284	0	0
660	12	virtual_sequence	A continuous piece of sequence similar to the 'virtual contig' concept of the Ensembl database.	882	0	0
2078	12	methylation_guide_snoRNA	A snoRNA that specifies the site of 2'-O-ribose methylation in an RNA molecule by base pairing with a short sequence around the target residue.	2862	0	0
59186	17	spine petiole	A petiole (PO:0020038) that is sclerified and persistent.	3080675	0	0
1509	12	five_hydroxyuridine	5_hydroxyuridine is a modified uridine base feature.	2097	0	0
200	12	match_set (obsolete SO:0000038)	A collection of match parts.	252	1	0
42711	17	ear spikelet rachilla	The axis of the ear spikelet, above the glumes.	97292	0	0
2149	12	Robertsonian_fusion	A non reciprocal translocation whereby the participating chromosomes break at their centromeres and the long arms fuse to form a single chromosome with a single centromere.	2948	0	0
178	12	BREu_motif	A sequence element characteristic of some RNA polymerase II promoters, located immediately upstream of some TATA box elements at -37 to -32 with respect to the TSS (+1). Consensus sequence is (G|C)(G|C)(G|A)CGCC. Binds TFIIB.	215	0	0
455	12	engineered_foreign_repetitive_element	A repetitive element that is engineered and foreign.	583	0	0
59185	17	shoot axis tegument layer	A portion of plant tissue (PO:0009007) that forms a tough, protective outer layer on a shoot axis and includes as parts a shoot axis hypodermis (PO:0005057) and a shoot axis epidermis (PO:0000112).	3080673	0	0
42720	17	tassel peduncle	A peduncle of a maize tassel, below the lowest tassel node.	97301	0	0
55391	12	Z2_region	A mating type region motif, the rightmost segment of homology in the HML and MAT mating loci (not present in HMR).	3073726	0	0
43463	17	leaf lamina lobe	A phyllome lobe (PO:0025514) that is a projection on a leaf lamina margin (PO:0025009) for which the corresponding leaf sinus (PO:0025384) extends one quarter or more of the distance to the center of the long axis of the leaf lamina (PO:0020039).	98427	0	0
55446	12	Y_region	A segment of non-homology between a and alpha mating alleles, found at all three mating loci (HML, MAT, and HMR), has two forms (Ya and Yalpha).	3073797	0	0
1362	12	T3_RNA_Polymerase_Promoter	A DNA sequence to which the T3 RNA polymerase binds, to begin transcription.	1850	0	0
42372	17	xylem vessel member	A tracheary element (PO:0000290) that is part of a xylem vessel (PO:0025417) and has as parts perforation plates.	76743	0	0
55418	12	CArG_box	A promoter element bound by the MADS family of transcription factors with consensus 5'-(C/T)TA(T/A)4TA(G/A)-3'.	3073762	0	0
42733	17	fruit distal end	A cardinal part of multi-tissue plant structure (PO:0025498) that is the end of a fruit (PO:0009001) distal from a fruit pedicel (PO:0004536).	97316	0	0
42258	17	apical hook	Hook-like structure which develops at the apical part of the hypocotyl in dark-grown seedlings in dicots.	96681	0	0
55563	12	HAS_ORIGIN	\N	3073937	0	1
600	12	inverted_ring_chromosome	\N	818	0	0
42483	17	replum (obsolete PO:0005016)	OBSOLETE. A false septum formed by the ingrowth from the placenta of an ovary rather than from the carpel walls. This is formed post fertilization.	97002	1	0
42395	17	laticiferous cell (obsolete PO:0004005)	OBSOLETE. A specialized cells or ducts resembling vessels; they form branched networks of latex-secreting cells in the phloem and other parts of plants.	96892	1	0
42586	17	petal abaxial epidermis	A portion of petal epidermis that covers the abaxial/lower surface of a petal.	97138	0	0
2307	12	regulon	A group of genes, whether linked as a cluster or not, that respond to a common regulatory signal.	3125	0	0
55453	12	start_retained_variant	A sequence variant where at least one base in the start codon is changed, but the start remains.	3073804	0	0
1481	12	seven_methylguanosine	7_methylguanosine is a modified guanosine base feature.	2040	0	0
274	12	primer	An oligo to which new deoxyribonucleotides can be added by DNA polymerase.	342	0	0
43103	17	primary infructescence branch	An infructescence branch (PO:0025243) arising from a first order infructescence axis (PO:0025244).	97963	0	0
356	12	LINE_element	A dispersed repeat family with many copies, each from 1 to 6 kb long. New elements are generated by retroposition of a transcribed copy. Typically the LINE contains 2 ORF's one of which is reverse transcriptase, and 3'and 5' direct repeats.	459	0	0
638	12	polycistronic_gene (obsolete SO:0000477)	A gene that is polycistronic.	860	1	0
1294	12	gamma_turn	Gamma turns, defined for 3 residues i,( i+1),( i+2) if a hydrogen bond exists between residues i and i+2 and the phi and psi angles of residue i+1 fall within 40 degrees.	1739	0	0
42699	17	embryo shoot apical meristem	A vegetative shoot apical meristem at the apex of the embryonic axis.	97279	0	0
42727	17	upper glume of sessile spikelet of ear	An upper glume of ear spikelet that is part of an ear sessile spikelet.	97308	0	0
42710	17	tassel spikelet rachilla	The axis of the tassel spikelet, above the glumes.	97291	0	0
43176	17	leaf lamina stomatal complex	A leaf stomatal complex that is part of a leaf lamina.	98063	0	0
485	12	coding_start	The first base to be translated into protein.	624	0	0
2024	12	lnc_RNA	A non-coding RNA over 200nucleotides in length.	2789	0	0
2301	12	three_prime_recoding_site	The recoding stimulatory signal located downstream of the recoding site.	3119	0	0
43310	17	cotyledonary node	A stem node (PO:0020141) from which cotyledons (PO:0020030) may develop.	98219	0	0
589	12	U5_five_prime_LTR_region	\N	806	0	0
43439	17	petal anlagen	A phyllome anlagen (PO:0025430) that will give rise to a petal primordium (PO:0000021) and is part of a peripheral zone (PO:000225) of a flower meristem (PO:0000229).	98391	0	0
2140	12	indel	A sequence alteration which included an insertion and a deletion, affecting 2 or more bases.	2933	0	0
2141	12	duplication	One or more nucleotides are added between two adjacent nucleotides in the sequence; the inserted sequence derives from, or is identical in sequence to, nucleotides adjacent to insertion point.	2937	0	0
2001	12	smFISH_probe	A smFISH is a probe that binds RNA in a single molecule in situ hybridization experiment.	2750	0	0
43128	17	fused tepal	A tepal (PO:0009033) that is part of a fused collective tepal structure (PO:0025138) in which it is fused to at least one other tepal.	98004	0	0
1653	12	whole_genome_sequence_status	The status of whole genome sequence.	2305	0	0
43405	17	stem secondary thickening meristem	A secondary thickening meristem (PO:0025414) that is part of a stem (PO:0009047).	98351	0	0
1244	12	disulfide_bond (obsolete SO:0001088)	The covalent bond between sulfur atoms that binds two peptide chains or different parts of one peptide chain and is a structural determinant in many protein molecules.	1629	1	0
42861	17	seed coat	A portion of plant tissue that is the covering of a seed derived from ovular - mainly integumentary - tissue.	97599	0	0
1077	12	delete_U (obsolete SO:0000918)	An edit to delete a uridine.	1392	1	0
259	12	nucleomorph_gene	A gene from nucleomorph sequence.	322	0	0
1570	12	deletion_breakpoint	The point within a chromosome where a deletion begins or ends.	2208	0	0
42842	17	filament	A stalk that is part of a stamen.	89974	0	0
823	12	spliceosomal_intron	An intron which is spliced by the spliceosome.	1090	0	0
1391	12	replicon	A region containing at least one unique origin of replication and a unique termination site.	1891	0	0
2299	12	SECIS_element	The incorporation of selenocysteine into a protein sequence is directed by an in-frame UGA codon (usually a stop codon) within the coding region of the mRNA. Selenoprotein mRNAs contain a conserved secondary structure in the 3' UTR that is required for the distinction of UGA stop from UGA selenocysteine. The selenocysteine insertion sequence (SECIS) is around 60 nt in length and adopts a hairpin structure which is sufficiently well-defined and conserved to act as a computational screen for selenoprotein genes.	3115	0	0
664	12	alternately_spliced_gene_encodeing_one_transcript (obsolete SO:0000503)	\N	887	1	0
42262	17	lateral root primordium	A root primordium (PO:0005029) that is part of a root (PO:0009005) and is committed to the development of a lateral root (PO:0020121).	96688	0	0
268	12	non_capped_primary_transcript (obsolete SO:0000106)	\N	336	1	0
1673	12	paracentric	\N	2328	0	0
1889	12	pseudogenic_gene_segment	A gene segment which when incorporated by somatic recombination in the final gene transcript results in a nonfunctional product.	2583	0	0
42982	17	columella root cap initial cell	A root initial cell that produces columella cells in the root cap. In direct contact with quiescent center.	97799	0	0
344	12	DNA_transposon	A transposon where the mechanism of transposition is via a DNA intermediate.	442	0	0
1226	12	polypeptide_structural_region	Region of polypeptide with a given structural property.	1589	0	0
42301	17	bud	An undeveloped shoot system (PO:0009006).	96742	0	0
1397	12	encodes_alternate_transcription_start_sites	\N	1901	0	0
55460	12	H3R2_dimethylation_site	A kind of histone modification site, whereby the 2nd residue (an arginine), from the start of the H3 protein is di-methylated.	3073811	0	0
42719	17	pedicel of tassel spikelet	This is the ultimate branch of the pedicellate tassel spikelet.	97300	0	0
42268	17	plant cuticle	A portion of plant substance (PO:0025161) composed of cutin (PO:0025385), a polyester matrix of hydroxy- and hydroxy epoxy fatty acids C16 and C18 chains, embedded and overlayed with cuticular wax (PO:0025386) and forming a layer on the surface of a plant epidermis (PO:0005679).	96697	0	0
1367	12	plus_1_translational_frameshift	The region of mRNA 1 base long that is skipped during the process of translational frameshifting (GO:0006452), causing the reading frame to be different.	1857	0	0
2054	12	feature_elongation	A sequence variant that causes the extension of a genomic feature, with regard to the reference sequence.	2826	0	0
352	12	five_prime_intron	\N	453	0	0
1744	12	minus_2_frameshift_variant	\N	2418	0	0
42747	17	vegetative shoot apical meristem	A shoot apical meristem (PO:0020148) that gives rise to the apical growth of vegetative tissues and organs.	97333	0	0
318	12	cosmid	A cloning vector that is a hybrid of lambda phages and a plasmid that can be propagated as a plasmid or packaged as a phage,since they retain the lambda cos sites.	397	0	0
55474	12	8_oxoguanine	A modified DNA guanine base,at the 8 carbon, often the product of DNA damage.	3073831	0	0
2173	12	sequence_variant_affecting_transcript_processing (obsolete SO:1000070)	Sequence variant affects the way in which the primary transcriptional product is processed to form the mature transcript.	2979	1	0
1606	12	histidine	\N	2247	0	0
43004	17	petal margin	A phyllome margin (PO:0025018) which is part of a petal (PO:0009032).	97825	0	0
43286	17	seedling radicle	A radicle (PO:0020031) that is part of a whole plant (PO:0000003) in the seedling development stage (PO:0007131).	98189	0	0
55427	12	unidirectional_gene_fusion	A sequence variant whereby two genes, on the same strand have become joined.	3073773	0	0
42348	17	xylem fiber cell	A fiber cell (PO:0025407) that is part of a portion of xylem (PO:0005352) tissue.	96822	0	0
42594	17	stigma epidermis	A portion of carpel epidermis (PO:0025096) that is part of a stigma (PO:0009073).	97146	0	0
795	12	polycistronic_mRNA	An mRNA that encodes multiple proteins from at least two non-overlapping regions.	1050	0	0
42427	17	axial secondary xylem parenchyma	A portion of secondary xylem parenchyma (PO:0004532) that is part of an axial system (PO:0025410) and has as parts axial secondary xylem parenchyma cells (PO:0004526).	96933	0	0
181	12	RNA_internal_loop	A region of double stranded RNA where the bases do not conform to WC base pairing. The loop is closed on both sides by canonical base pairing. If the interruption to base pairing occurs on one strand only, it is known as a bulge.	220	0	0
2229	12	homo_compound_chromosome	A compound chromosome whereby two copies of the same chromosomal arm attached to a common centromere. The chromosome is diploid for the arm involved.	3040	0	0
359	12	three_prime_coding_exon_coding_region	The sequence of the three_prime_coding_exon that codes for protein.	462	0	0
2017	12	enhancerRNA	A short ncRNA that is transcribed from an enhancer. May have a regulatory function.	2779	0	0
42921	17	stipule	A cardinal organ part that is an appendage at the base of a vascular leaf.	97706	0	0
55374	12	late_origin_of_replication	An origin of replication that initiates late in S phase.	3073703	0	0
42624	17	pith	A maximal portion of parenchyma (PO:0005421) in the center of a shoot axis (PO:0025029) or root (PO:0009005).	97184	0	0
1522	12	five_carbamoylmethyluridine	5_carbamoylmethyluridine is a modified uridine base feature.	2122	0	0
1296	12	gamma_turn_inverse	Gamma turns, defined for 3 residues i, i+1, i+2 if a hydrogen bond exists between residues i and i+2 and the phi and psi angles of residue i+1 fall within 40 degrees: phi(i+1)=-79.0 - psi(i+1)=69.0.	1743	0	0
42324	17	socket cell	A shoot epidermal cell (PO:0025165) that surrounds a trichome (PO:0000282) and provides its support.	96777	0	0
42653	17	obsolete shoot procambium (obsolete PO:0006306)	OBSOLETE. A derivative of the apical meristem which undergoes differentiation to form the primary vascular tissue of a shoot.	97219	1	0
1097	12	vertebrate_immunoglobulin_T_cell_receptor_rearranged_gene_cluster	\N	1414	0	0
315	12	BAC	Bacterial Artificial Chromosome, a cloning vector that can be propagated as mini-chromosomes in a bacterial host.	393	0	0
59176	17	hesperidium fruit	A berry fruit (PO:0030108) which develops from a superior gynoecium (PO:0009062) and at maturity comprises a thickened exocarp (PO:0009085), thickened mesocarp (PO:0009087), and endocarp (PO:0009086), and has as parts juice sacs (PO:0006013) on a carpel adaxial epidermis (PO:0025618).	3080656	0	0
42933	17	microphyll (obsolete PO:0020053)	OBSOLETE. Literally a small leaf, a leaf of any size in which any vascular trace supplying it does not interrupt the central vascular cylinder when it departs, i.e. there are no leaf gaps.	97724	1	0
43260	17	fruit locule	A locule (PO:0025263) that is a cavity in a fruit (PO:0009001) and develops from a plant ovary locule (PO:0025266).	98160	0	0
2070	12	TERRA	A non-coding RNA transcript, derived from the transcription of the telomere. These  transcripts contain G rich telomeric RNA repeats and RNA tracts corresponding to adjacent subtelomeric sequences. They are 100-9000 bases long.	2850	0	0
42466	17	vascular leaf primordium abaxial side	A portion of vascular leaf primordium (PO:0000017) that is distal to the axis of the shoot apical meristem (PO:0020148) and develops into the abaxial side of the leaf lamina (PO:0020039).	96980	0	0
42630	17	spongy mesophyll cell	Irregularly-shaped, chlorenchymatous cell, separated by large air spaces.	97193	0	0
1648	12	centromere_DNA_Element_II	A centromere DNA Element II (CDEII) is part a conserved region of the centromere, consisting of a consensus region that is AT-rich and ~ 75-100 bp in length.	2298	0	0
1485	12	N2_N2_2_prime_O_trimethylguanosine	N2_N2_2prime_O_trimethylguanosine is a modified guanosine base feature.	2048	0	0
2295	12	stop_codon_redefinition_as_pyrrolysine (obsolete SO:1001270)	\N	3110	1	0
1190	12	mitochondrial_DNA	\N	1532	0	0
43133	17	leaf tip	A phyllome tip (PO:0025141) that is part of a leaf apex (PO:0020137).	98011	0	0
55397	12	genic_upstream_transcript_variant	A variant that falls upstream of a transcript, but within the genic region of the gene due to alternately transcribed isoforms.	3073733	0	0
1011	12	exon_region	A region of an exon.	1317	0	0
1467	12	N6_2_prime_O_dimethyladenosine	N6_2prime_O_dimethyladenosine is a modified adenosine.	2012	0	0
42912	17	plumule	The shoot apex (PO:0000037) of the plant embryo (PO:0009009), above the cotyledonary node (PO:0025321).	97687	0	0
43349	17	spongy mesophyll intercellular space	A leaf mesophyll intercellular space that is part of a spongy mesophyll.	98275	0	0
42613	17	primary root apical meristem	A root apical meristem (PO:0020147) that gives rise to a primary root (PO:0020127).	97171	0	0
620	12	gene_with_trans_spliced_transcript	A gene with a transcript that is trans-spliced.	841	0	0
1407	12	RH_map	A radiation hybrid map is a physical map.	1912	0	0
688	12	V_D_DJ_C_cluster	Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one V-gene, one D-gene, one DJ-gene and one C-gene.	911	0	0
42620	17	primary sporogenous cell	A native plant cell (PO:0025606) is formed by the division of the male archesporial initial. After several mitotic divisions these cells differentiate into pollen mother cells.	97179	0	0
42548	17	upper glume	A glume that is the apical/distal of the two glumes subtending a pair of florets.	97088	0	0
2218	12	sequence_variant_causing_inactive_catalytic_site (obsolete SO:1000120)	\N	3028	1	0
43227	17	leaf guard cell	A phyllome guard cell that is part of a leaf stomatal complex.	98121	0	0
2245	12	interchromosomal_transposition	A chromosome structure variation whereby a transposition occurred between chromosomes.	3057	0	0
962	12	assortment_derived_deficiency_plus_duplication	A multi-chromosome aberration generated by reassortment of other aberration components; presumed to have a deficiency and a duplication.	1262	0	0
1593	12	proline	\N	2234	0	0
42524	17	angular collenchyma (obsolete PO:0005621)	OBSOLETE. A form of collenchyma in which the primary wall thickening is most prominent in the angles where three or more cells are joined.	97057	1	0
43183	17	tepal abaxial epidermis	A portion of tepal epidermis that covers the abaxial/lower surface of a tepal.	98070	0	0
1558	12	modified_L_valine	A post translationally modified valine amino acid feature.	2191	0	0
539	12	DsrA_RNA	DsrA RNA regulates both transcription, by overcoming transcriptional silencing by the nucleoid-associated H-NS protein, and translation, by promoting efficient translation of the stress sigma factor, RpoS. These two activities of DsrA can be separated by mutation: the first of three stem-loops of the 85 nucleotide RNA is necessary for RpoS translation but not for anti-H-NS action, while the second stem-loop is essential for antisilencing and less critical for RpoS translation. The third stem-loop, which behaves as a transcription terminator, can be substituted by the trp transcription terminator without loss of either DsrA function. The sequence of the first stem-loop of DsrA is complementary with the upstream leader portion of RpoS messenger RNA, suggesting that pairing of DsrA with the RpoS message might be important for translational regulation.	701	0	0
43362	17	pappus element	A cardinal organ part that is a segment of a pappus.	98300	0	0
43562	17	hydrome	A portion of plant tissue (PO:0009007) that has as parts hydroid (PO:0025032) cells and cells of no other types.	98570	0	0
43047	17	aerial tuber interfascicular region	A tuber interfascicular region that is part of an aerial tuber storage parenchyma.	97887	0	0
42863	17	aril	An arilloid that is an outgrowth of a seed from a seed funicle.	97601	0	0
42734	17	fruit proximal end	A cardinal part of multi-tissue plant structure (PO:0025498) that is the end of a fruit (PO:0009001) proximal to a fruit pedicel (PO:0004536).	97318	0	0
1465	12	two_prime_O_ribosyladenosine_phosphate	2prime_O_ribosyladenosine_phosphate is a modified adenosine.	2008	0	0
145	12	processed_from	\N	171	0	1
2116	12	point_mutation	A single nucleotide change which has occurred at the same position of a corresponding nucleotide in a reference sequence.	2905	0	0
43184	17	tepal adaxial epidermis	A portion of tepal epidermis that covers the adaxial/upper surface of a tepal.	98071	0	0
227	12	free_chromosome_arm	A chromosome structure variation whereby an arm exists as an individual chromosome element.	287	0	0
55355	12	5_prime_UTR_elongation	A sequence variant that causes the extension of 5' UTR, with regard to the reference sequence.	3073672	0	0
43063	17	seed storage parenchyma	A portion of storage parenchyma that is part of a seed.	97909	0	0
1140	12	rho_independent_bacterial_terminator	\N	1461	0	0
59164	17	ear infructescence	An infructescence (PO:0006342) in Zea species that bears kernels (i.e. caryopsis fruit; PO:0030104) on a compact ear infructescence axis (PO:0025623) and develops from the ear inflorescence (PO:0020136).	3080633	0	0
42320	17	axial cell (obsolete PO:0000081)	OBSOLETE. A vascular cell derived from the fusiform cambial initial and oriented with its longest diameter parallel with the main axis of stem or root.	96770	1	0
1376	12	silenced_by_RNA_interference	An attribute describing an epigenetic process where a gene is inactivated by RNA interference.	1869	0	0
42988	17	leaf midvein	A primary leaf vein (PO:0025413) that is the central vein of a vascular leaf (PO:0009025).	97807	0	0
1337	12	Bruno_response_element	A cis-acting element found in the 3' UTR of some mRNA which is bound by the Drosophila Bruno protein and its homologs.	1809	0	0
43109	17	anther pore	A plant anatomical space that is a pore at the apex of an anther.	97972	0	0
55341	12	Alu_insertion	An insertion of sequence from the Alu family of mobile elements.	3073653	0	0
43266	17	pollen sac	A microsporangium that is part of a sporophyll and where the pollen grains develop and are located after they develop.	98167	0	0
43503	17	shoot system xylem sap	A xylem sap (PO:0025539) that is located in the shoot system (PO:0009006).	98484	0	0
300	12	gene_rearranged_at_DNA_level	An epigenetically modified gene, rearranged at the DNA level.	371	0	0
43433	17	androecium primordium	A floral structure primordium (PO:0025477) that is committed to the development of an androecium (PO:0009061).	98384	0	0
704	12	alternately_spliced_gene_encoding_greater_than_one_transcript (obsolete SO:0000543)	\N	927	1	0
883	12	gene_with_dicistronic_mRNA	A gene that encodes a polycistronic mRNA.	1163	0	0
1920	12	disease_causing_variant	\N	2618	0	0
43573	17	brachycyte	A native plant cell (PO:0025606) that develops from a cell in a protonema (PO:0030003) and has a thick cell wall.	98590	0	0
42289	17	crown root	A shoot-borne nodal root (PO:0003005) formed at a stem base (PO:0008039).	96730	0	0
55509	12	H3K27_acetylation_site	A kind of histone modification site, whereby the 27th residue (a lysine), from the start of the H3 histone protein is acetylated.	3073870	0	0
987	12	nuclear_chromosome	A chromosome originating in a nucleus.	1290	0	0
42503	17	shoot axis periderm	A portion of periderm tissue (PO:0005046) that is part of a shoot axis (PO:0025029).	97033	0	0
1852	12	H3K14_acetylation_site	A kind of histone modification site, whereby the 14th residue (a lysine), from the start of the H3 histone protein is acylated.	2542	0	0
42742	17	embryo vascular system	Vascular system of embryo.	97328	0	0
905	12	chromoplast_sequence	\N	1195	0	0
971	12	chimeric_cDNA_clone	A cDNA clone invalidated because it is chimeric.	1271	0	0
114	12	contains	\N	140	0	1
611	12	interband	A light region between two darkly staining bands in a polytene chromosome.	830	0	0
840	12	non_canonical_five_prime_splice_site	A 5' splice site which does not have the sequence "GT".	1110	0	0
42264	17	ovule primordium	A floral structure primordium (PO:0025477) that is committed to the development of an ovule (PO:0020003).	96691	0	0
294	12	reverse_primer	A single stranded oligo used for polymerase chain reaction.	364	0	0
43261	17	plant ovary replum	A portion of ovary placenta tissue (PO:0020001) which divides a plant ovary (PO:0009072) into two or more chambers, and develops from contact of the placental tissue from opposite sides of the plant ovary early in gynoecium development (GO:0048467).	98161	0	0
43351	17	phyllome sinus	A plant anatomical space that is a phyllome marginal embayment, incision or indentation between marginal projections of any sort, typically lobes, teeth, or the base of cordate phyllomes.	98278	0	0
2187	12	sequence_variation_affecting_level_of_transcript (obsolete SO:1000085)	A sequence variation that causes a change in the level of mature, spliced and processed RNA, resulting from a change in the corresponding DNA sequence.	2993	1	0
1620	12	five_prime_UST	An UST located in the 5'UTR of a protein-coding transcript.	2263	0	0
1914	12	polymorphic_variant	\N	2612	0	0
42913	17	coleoptile	A sheath-like plant organ (PO:0009008) that surrounds the plumule (PO:0020032) of a plant embryo (PO:0009009) or the emerging shoot apex (PO:0000037) of a seedling.	97689	0	0
42596	17	plant ovary epidermis	A portion of epidermis (PO:0005679) that is part of an plant ovary wall (PO:0005022).	97151	0	0
1951	12	DDB_box	A conserved polypeptide motif that mediates protein-protein interaction and defines adaptor proteins for DDB1/cullin 4 ubiquitin ligases.	2657	0	0
1357	12	positive_sense_ssRNA_viral_sequence	A positive_sense_RNA_viral_sequence is a ss_RNA_viral_sequence that is the sequence of a single stranded RNA virus that can be immediately translated by the host.	1844	0	0
42559	17	female archesporial cell	An archesporial cell (PO:0030056) that is part of a megasporangium (PO:0025201) and divides to give rise to a megasporocyte (PO:0000431).	97106	0	0
2154	12	reciprocal_chromosomal_translocation	A chromosomal translocation with two breaks; two chromosome segments have simply been exchanged.	2957	0	0
43178	17	petal trichome	A phyllome trichome that is part of a petal epidermis.	98065	0	0
240	12	polycistronic_transcript	A transcript that is polycistronic.	301	0	0
43099	17	sixth order inflorescence branch	An inflorescence branch (PO:0009081) arising from a fifth order inflorescence branch (PO:0025107).	97959	0	0
470	12	sequence_feature_locating_method (obsolete SO:0000308)	\N	603	1	0
1234	12	polypeptide_secondary_structure	A region of peptide with secondary structure has hydrogen bonding along the peptide chain that causes a defined conformation of the chain.	1606	0	0
1811	12	BREd_motif	A core TRNA polymerase II promoter element with consensus (G/A)T(T/G/A)(T/A)(G/T)(T/G)(T/G).	2494	0	0
199	12	locus_control_region	A DNA region that includes DNAse hypersensitive sites located 5' to a gene that confers the high-level, position-independent, and copy number-dependent expression to that gene.	250	0	0
1957	12	PIP_box	A polypeptide region that mediates binding to PCNA. The consensus sequence is QXX(hh)XX(aa), where (h) denotes residues with moderately hydrophobic side chains and (a) denotes residues with highly hydrophobic aromatic side chains.	2674	0	0
43044	17	subterranean tuber epidermis	A tuber epidermis that is part of a subterranean tuber.	97882	0	0
42917	17	mesocotyl	A stem internode (PO:0020142) that is the part of a plant embryo axis (PO:0019018) or a seedling stem (PO:0009047) above the scutellum (PO:0020110) and below the coleoptile (PO:0020033).	97699	0	0
1322	12	GAGA_motif	A non directional promoter motif with consensus sequence GAGAGCG.	1786	0	0
1364	12	five_prime_EST	An EST read from the 5' end of a transcript that usually codes for a protein. These regions tend to be conserved across species and do not change much within a gene family.	1852	0	0
42619	17	proliferation tissue (obsolete PO:0006087)	OBSOLETE. Tissue that develops from phloem parenchyma in the outer portion of the inner bark accommodating the expansion in circumference.	97178	1	0
55335	12	miR_encoding_vaultRNA_primary_transcript	A vaultRNA primary transcript that also encodes pre-miR sequence that is processed to form functionally active miRNA.	3073646	0	0
43443	17	flower bract primordium	A bract primordium (PO:0025128) is committed to the development of a flower bract (PO:0009034).	98395	0	0
42840	17	hypanthium	A cup- or tube-shaped cardinal organ part, bearing perianth and stamens on its rim, so these arise above the base, and often above the top, of the ovary.	97547	0	0
43162	17	shoot axis prickle	A prickle (PO:0025169) that is part of a shoot axis (PO:0025029).	98045	0	0
2118	12	pyrimidine_transition	A substitution of a pyrimidine, C or T, for another pyrimidine.	2908	0	0
1478	12	archaeosine	Archaeosine is a modified 7-deazoguanosine.	2034	0	0
1417	12	overlapping_EST_set	A continous experimental result region extending the length of multiple overlapping EST's.	1927	0	0
263	12	transposable_element	A transposon or insertion sequence. An element that can insert in a variety of DNA sequences.	326	0	0
55533	12	transcribed_unprocessed_pseudogene	A unprocessed pseudogene supported by locus-specific evidence of transcription.	3073901	0	0
55459	12	loss_of_function_variant	A sequence variant whereby the gene product has diminished or abolished function.	3073810	0	0
2023	12	partial_genomic_sequence_assembly	A partial DNA sequence assembly of a chromosome or full genome, which contains gaps that are filled with N's.	2788	0	0
42994	17	root apical meristem	A root meristem (PO:0006085) located at the root tip (PO:0000025), behind the root cap (PO:0020123).	97812	0	0
42587	17	petal adaxial epidermis	A portion of petal epidermis that covers the adaxial/upper surface of a petal.	97139	0	0
42387	17	lateral root cap of primary root	A central root cap that is part of a root cap of primary root.	96880	0	0
1609	12	selenocysteine	\N	2250	0	0
43081	17	strobilus bud	A bud that develops into a strobilus.	97930	0	0
42582	17	seed coat epidermis	A portion of epidermis (PO:0005679) that is part of a seed coat (PO:0009088).	97134	0	0
1161	12	solo_LTR	A recombination product between the 2 LTR of the same element.	1485	0	0
674	12	J_cluster	Genomic DNA of immunoglobulin/T-cell receptor gene in germline configuration including more than one J-gene.	897	0	0
232	12	inside_intron_antiparallel	An attribute to describe a gene when it is located within the intron of another gene and on the opposite strand.	292	0	0
2303	12	five_prime_recoding_site	The recoding stimulatory signal located upstream of the recoding site.	3121	0	0
598	12	assortment_derived_duplication (obsolete SO:0000437)	\N	816	1	0
55336	12	three_prime_overlapping_ncrna	Transcript where ditag (digital gene expression profiling)and/or published experimental data strongly supports the existence of short non-coding transcripts transcribed from the 3'UTR.	3073647	0	0
961	12	assortment_derived_duplication	A multi-chromosome duplication aberration generated by reassortment of other aberration components.	1260	0	0
43578	17	gametophore axillary hair base	A axillary hair base that is the basal part of a gametophore axillary hair, below the gametophore axillary hair terminal cell.	98598	0	0
43338	17	ceonosorus	A collective plant organ structure (PO:0025007) on the surface of a vascular leaf that has as parts two or more fused sori (PO:0025359).	98263	0	0
826	12	monocistronic_transcript	A transcript that is monocistronic.	1093	0	0
1139	12	rho_dependent_bacterial_terminator	\N	1460	0	0
1452	12	N6_methyladenosine	N6_methyladenosine is a modified adenosine.	1982	0	0
1786	12	2KB_upstream_variant	A sequence variant located within 2KB 5' of a gene.	2460	0	0
944	12	engineered	An attribute to describe a region that was modified in vitro.	1242	0	0
758	12	transcript_edited_by_U_insertion/deletion (obsolete SO:0000597)	The insertion and deletion of uridine (U) residues, usually within coding regions of mRNA transcripts of cryptogenes in the mitochondrial genome of kinetoplastid protozoa.	1000	1	0
2177	12	sequence_variant_causing_cryptic_splice_activation (obsolete SO:1000074)	A sequence variant causing a new (functional) splice site.	2983	1	0
1827	12	transcription_regulatory_region	A regulatory region that is involved in the control of the process of transcription.	2512	0	0
1480	12	N2_methylguanosine	N2_methylguanosine is a modified guanosine base feature.	2038	0	0
42376	17	haustorial root (obsolete PO:0003004)	OBSOLETE. The root of particular parasitic plants that becomes cemented to the host axis and intrudes into the tissues of the host.	96866	1	0
456	12	inverted_repeat	The sequence is complementarily repeated on the opposite strand. It is a palindrome, and it may, or may not be hyphenated. Examples: GCTGATCAGC, or GCTGA-----TCAGC.	584	0	0
1749	12	translational_product_structure_variant	A sequence variant within the transcript that changes the structure of the translational product.	2423	0	0
2157	12	sequence_variation_affecting_coding_sequence (obsolete SO:1000054)	Any of the amino acid coding triplets of a gene are affected by the DNA mutation.	2962	1	0
55496	12	restriction_enzyme_assembly_scar	A region of DNA sequence formed from the ligation of two sticky ends where the palindrome is broken and no longer comprises the recognition site and thus cannot be re-cut by the restriction enzymes used to create the sticky ends.	3073855	0	0
2044	12	transposable_element_pseudogene	A pseudogene contained within a transposable element.	2810	0	0
42368	17	megasporocyte	A sporocyte (PO:0006204) that produces four haploid (1n) megaspores (PO:0020019).	96853	0	0
889	12	intein	A region of a peptide that is able to excise itself and rejoin the remaining portions with a peptide bond.	1173	0	0
55410	12	IG_J_pseudogene	A pseudogenic joining region which closely resembles a known functional imunoglobulin joining gene but in which the coding region has stop codons, frameshift mutations or a mutation that effects the initiation codon that rearranges at the DNA level and codes the joining region of the variable domain of an immunoglobulin chain.	3073749	0	0
1164	12	prophage	A phage genome after it has established in the host genome in a latent/immune state either as a plasmid or as an integrated "island".	1488	0	0
43279	17	embryo hypocotyl	A hypocotyl (PO:0020100) that is part of a plant embryo axis (PO:0019018).	98182	0	0
1271	12	left_handed_peptide_helix	A left handed helix is a region of peptide where the coiled conformation turns in an anticlockwise, left handed screw.	1689	0	0
43475	17	plant cuticle ridge	A portion of plant cuticle (PO:000022) that forms a ridge, may be overlayed with epicuticular wax (PO:0025388).	98444	0	0
1779	12	splice_site_variant	A sequence variant that changes the first two or last two bases of an intron, or the 5th base from the start of the intron in the orientation of the transcript.	2453	0	0
1504	12	two_thiouridine	2_thiouridine is a modified uridine base feature.	2087	0	0
549	12	RRE_RNA	The Rev response element (RRE) is encoded within the HIV-env gene. Rev is an essential regulatory protein of HIV that binds an internal loop of the RRE leading, encouraging further Rev-RRE binding. This RNP complex is critical for mRNA export and hence for expression of the HIV structural proteins.	725	0	0
1195	12	mobile_genetic_element	A nucleotide region with either intra-genome or intracellular moblity, of varying length, which often carry the information necessary for transfer and recombination with the host genome.	1540	0	0
1513	12	five_carboxyhydroxymethyl_uridine	5_carboxyhydroxymethyl_uridine is a modified uridine base feature.	2104	0	0
42407	17	sapwood	A portion of secondary xylem (PO:0005848) that has as parts living secondary xylem parenchyma cells (PO:0004525).	96909	0	0
42953	17	obsolete microgametophyte (obsolete PO:0020091)	OBSOLETE. A gametophyte that produces pollen sperm cells.	97749	1	0
964	12	assortment_derived_aneuploid	A multi-chromosome aberration generated by reassortment of other aberration components; presumed to have a deficiency or a duplication.	1264	0	0
661	12	Hoogsteen_base_pair	A type of non-canonical base-pairing. This is less energetically favourable than watson crick base pairing. Hoogsteen GC base pairs only have two hydrogen bonds.	883	0	0
621	12	vertebrate_immunoglobulin_T_cell_receptor_segment	\N	842	0	0
706	12	recoding_pseudoknot	The pseudoknots involved in recoding are unique in that, as they play their role as a structure, they are immediately unfolded and their now linear sequence serves as a template for decoding.	931	0	0
260	12	plasmid_gene	A gene from plasmid sequence.	323	0	0
898	12	mitochondrial_sequence	\N	1184	0	0
1629	12	outron	A region of a primary transcript, that is removed via trans splicing.	2272	0	0
43428	17	reaction wood	A portion of secondary xylem (PO:0005848) found on either the upper or lower side of a shoot axis (PO:0025029) that is or was angled away from vertical, with anatomical characteristics that depend on whether it is compression wood (PO:0025473) or tension wood (PO:0025474).	98376	0	0
146	12	processed_into	\N	172	0	1
42392	17	contact cell (obsolete PO:0004002)	OBSOLETE. An axial parenchyma or a ray cell physiologically associated with a tracheary element. Also a cell next to a stoma.	96887	1	0
1586	12	sequence_variant_affecting_polyadenylation (obsolete SO:0001432)	\N	2226	1	0
43157	17	papilla cell	An epidermal pavement cell with a short protuberance.	98039	0	0
489	12	coding_end	The last base to be translated into protein. It does not include the stop codon.	629	0	0
55345	12	intein_encoding_region	The nucleotide sequence which encodes the intein portion of the precursor gene.	3073657	0	0
43166	17	leaf prickle	A prickle (PO:0025169) that is part of a leaf (PO:0025034).	98052	0	0
1824	12	A_box_type_2	An A box within an RNA polymerase III type 2 promoter.	2508	0	0
42433	17	determinate nodule	A root nodule characterized by a dividing infected cells and bacteria, vascular transfer cells absent and cell division is in the outer cortex.	96942	0	0
1193	12	piRNA	A small non coding RNA, part of a silencing system that prevents the spreading of selfish genetic elements.	1537	0	0
2235	12	free_ring_duplication	A ring chromosome which is a copy of another chromosome.	3047	0	0
2226	12	sequence_variant_effect (obsolete SO:1000132)	The effect of a change in nucleotide sequence.	3036	1	0
2273	12	encodes_overlapping_peptides	A gene that is alternately spliced, and encodes more than one polypeptide, that have overlapping peptide sequences.	3085	0	0
1849	12	histone_methylation_site	A histone modification site where the modification is the methylation of the residue.	2538	0	0
42589	17	sepal adaxial epidermis	A portion of sepal epidermis that covers the adaxial/upper surface of a sepal.	97141	0	0
43029	17	leptoid	A native plant cell (PO:0025606) that resembles in structure the sieve elements (PO:0025406) of vascular plants.	97860	0	0
55522	12	mt_tRNA	Mitochondrial transfer RNA.	3073889	0	0
43323	17	terete vascular leaf	A unifacial leaf that is round in cross section throughout all of part of the length of the leaf.	98238	0	0
55319	12	zinc_repressed_element	A promoter element that has the consensus sequence GNMGATC, and is found in promoters of genes repressed in the presence of zinc.	3073621	0	0
979	12	wild_type_rescue_gene	A gene that rescues.	1282	0	0
1424	12	SRP_RNA_gene	\N	1934	0	0
1069	12	orphan	\N	1382	0	0
43471	17	spermatogenous cell	A native plant cell (PO:0025606) that gives rise to one or more plant sperm cells (PO:0000084).	98437	0	0
2130	12	T_to_G_transversion	A transversion from T to G.	2921	0	0
321	12	deletion	The point at which one or more contiguous nucleotides were excised.	403	0	0
1578	12	dye_terminator_read	A read produced by the dye terminator method of sequencing.	2217	0	0
641	12	tiling_path_clone	A clone which is part of a tiling path. A tiling path is a set of sequencing substrates, typically clones, which have been selected in order to efficiently cover a region of the genome in preparation for sequencing and assembly.	863	0	0
42654	17	root procambium	A portion of procambium (PO:0025275) tissue that undergoes differentiation to form the primary vascular tissue (PO:0025408) of a root (PO:0009005).	97221	0	0
42274	17	pollen tube tip (obsolete PO:0000028)	OBSOLETE. Tip portion of the pollen tube that is rapidly growing.	96704	1	0
1207	12	defective_conjugative_transposon	An island that contains genes for integration/excision and the gene and site for the initiation of intercellular transfer by conjugation. It can be complemented for transfer by a conjugative transposon.	1557	0	0
577	12	invalidated_by_partial_processing	An attribute to describe a feature that is invalidated due to partial processing.	788	0	0
42756	17	central zone of the petiole	Regions of the petiole that does not include petiole distal end and petiole proximal end.	97343	0	0
1396	12	TSS_region	The region of a gene from the 5' most TSS to the 3' TSS.	1899	0	0
42754	17	higher order leaf vein	A leaf lamina vein (PO:0020138) arising from a quaternary (PO:0008022) or other higher order leaf vein.	97341	0	0
43281	17	embryo epicotyl	An epicotyl (PO:0020035) that is part of a plant embryo (PO:0009009).	98184	0	0
42303	17	inflorescence bud	A bud that develops into an inflorescence.	96745	0	0
55377	12	non_allelic_homologous_recombination_region	A genomic region at a non-allelic position where exchange of genetic material happens as a result of homologous recombination.	3073708	0	0
1672	12	pericentric	\N	2327	0	0
1328	12	tRNA_region	A region of a tRNA.	1793	0	0
43474	17	adventitious shoot axis	A shoot axis (PO:00025029) that develops in an unusual place.	98442	0	0
42353	17	tracheary element	A native plant cell (PO:0025606) that has a lignified cell wall with secondary thickening and bordered pits.	96836	0	0
484	12	nuclease_hypersensitive_site	\N	623	0	0
511	12	protein_match	A match against a protein sequence.	661	0	0
2055	12	internal_feature_elongation	A sequence variant that causes the extension of a genomic feature from within the feature rather than from the terminus of the feature, with regard to the reference sequence.	2827	0	0
1299	12	st_turn_left_handed_type_two	The peptide twists in an anticlockwise, left handed manner. The dihedral angles for this turn are: Residue(i): -140 degrees < chi(1) -120 degrees < -20 degrees, +80 degrees psi +120 degrees < +180 degrees, residue(i+1): +20 degrees < phi < +140 degrees, -40 < psi < +90 degrees.	1749	0	0
290	12	gene_silenced_by_DNA_modification	A gene that is silenced by DNA modification.	360	0	0
1706	12	decreased_transcription_rate_variant	A sequence variant that decreases the rate of transcription with respect to a reference sequence.	2365	0	0
42876	17	petiole pulvinus	Pulvinus of the petiole.	97617	0	0
43056	17	lamina	A cardinal part of multi-tissue plant structure (PO:0025498) that is thin and flat.	97900	0	0
802	12	tetranucleotide_repeat_microsatellite_feature	\N	1059	0	0
42685	17	axillary shoot system	A shoot-borne shoot system (PO:0004545) that develops from an axillary bud (PO:0004709).	97262	0	0
789	12	chromosomal_structural_element	\N	1043	0	0
43160	17	prickle	A portion of epidermis (PO:0005679) that is a sclerified outgrowth.	98042	0	0
42584	17	exotesta	A portion of seed coat epidermis (PO:0006048) which is part of the seed coat (PO:0009088), and develops from the outer surface of the outer integument (PO:0020023).	97136	0	0
42943	17	hilum	A cardinal part of multi-tissue plant structure (PO:0025498) that is a scar on a seed (PO:0009010) at the place where it was attached to a funicle (PO:0020006).	97737	0	0
43590	17	antheridium head	A disk-shaped cardinal organ part (PO:0025001) that is the apical portion of an antheridiophore (PO:0030033) and bears antheridia (PO:0025125).	98620	0	0
42844	17	anther theca	A collective plant organ structure (PO:0025007) that is part of an anther (PO:0009066) and consists of a pair of sporangia (PO:0025094) that dehisce down a common slit.	97560	0	0
2253	12	uncharacterised_chromosomal_mutation	\N	3065	0	0
1260	12	catalytic_residue	Amino acid involved in the activity of an enzyme.	1664	0	0
994	12	primary_transcript_region	A part of a primary transcript.	1297	0	0
520	12	floxed	An attribute describing sequence that is flanked by Lox-P sites.	671	0	0
1535	12	five_isopentenylaminomethyl_uridine	5_isopentenylaminomethyl_uridine is a modified uridine base feature.	2148	0	0
515	12	sequence_assembly	A sequence of nucleotides that has been algorithmically derived from an alignment of two or more different sequences.	665	0	0
2047	12	m26_site	A promoter element that contains a core sequence TGACGT, bound by a protein complex that regulates transcription of genes encoding PKA pathway components.	2814	0	0
1718	12	gene_variant	A sequence variant where the structure of the gene is changed.	2377	0	0
1456	12	two_methylthio_N6_isopentenyladenosine	2_methylthio_N6_isopentenyladenosine is a modified adenosine.	1990	0	0
604	12	polymer_attribute	An attribute to describe the kind of biological sequence.	823	0	0
1575	12	trans_splice_site	Primary transcript region bordering trans-splice junction.	2214	0	0
348	12	LTR_retrotransposon	A retrotransposon flanked by long terminal repeat sequences.	448	0	0
42808	17	sepal	A phyllome (PO:0006001) that is usually green, and is part of the calyx (PO:0009060).	97434	0	0
2308	12	UGA_stop_codon_signal	A stop codon signal for a UGA stop codon redefinition.	3127	0	0
43143	17	peduncle epidermis	A portion of branch epidermis that is part of a peduncle.	98022	0	0
1965	12	protein_altering_variant	A sequence_variant which is predicted to change the protein encoded in the coding sequence.	2683	0	0
867	12	trans_splice_acceptor_site	The 3' splice site of the acceptor primary transcript.	1143	0	0
55462	12	selenocysteine_loss	A sequence variant whereby at least one base of a codon encoding selenocysteine  is changed, resulting in a different encoded amino acid.	3073813	0	0
43277	17	embryo coleorhiza	A coleorhiza (PO:0020034) that is part of a plant embryo (PO:0009009).	98180	0	0
43408	17	secondary xylem tracheary element	A tracheary element (PO:0000290) that is part of a portion of secondary xylem tissue (PO:0005848).	98354	0	0
1441	12	five_formylcytidine	5-formylcytidine is a modified cytidine.	1959	0	0
43197	17	phyllome vascular system	A vascular system that includes the totality of the portions of vascular tissue in their specific arrangement in a phyllome.	98090	0	0
669	12	D_DJ_J_cluster	Genomic DNA of immunoglobulin/T-cell receptor gene in rearranged configuration including at least one D-gene, one DJ-gene, and one J-gene.	892	0	0
42464	17	sepal vascular system	A phyllome vascular system that includes the totality of the portions of vascular tissue in their specific arrangement in a sepal.	96976	0	0
1756	12	amino_acid_insertion	A sequence variant within a CDS resulting in the gain of an amino acid to the resulting polypeptide.	2430	0	0
43050	17	aerial tuber pith	A portion of tuber pith (PO:0025052) that is part of an aerial tuber storage parenchyma (PO:0025039).	97891	0	0
173	12	scRNA_primary_transcript	The primary transcript of any one of several small cytoplasmic RNA molecules present in the cytoplasm and sometimes nucleus of a eukaryote.	206	0	0
1369	12	group_III_intron	Group III introns are introns found in the mRNA of the plastids of euglenoid protists. They are spliced by a two step transesterification with bulged adenosine as initiating nucleophile.	1859	0	0
2022	12	unassigned_supercontig	A supercontig that is not been assigned to any ultracontig during a genome assembly project.	2787	0	0
55420	12	2KB_downstream_variant	A sequence variant located within 2KB 3' of a gene.	3073766	0	0
43191	17	stem stele	A shoot axis stele that is part of a stem.	98080	0	0
43235	17	persistent sepal	A phyllome that develops from a sepal and remains attached to a fruit at maturity.	98131	0	0
1475	12	mannosyl_queuosine	Mannosyl_queuosine is a modified 7-deazoguanosine.	2028	0	0
1968	12	inframe_insertion	An inframe non synonymous variant that inserts bases into in the coding sequence.	2688	0	0
42579	17	integument epidermis	A portion of epidermis (PO:0005679) that is part of an integument (PO:0020021).	97130	0	0
1415	12	sequence_collection	A collection of discontinuous sequences.	1925	0	0
43093	17	shoot internode differentiation zone	A plant axis differentiation zone that is part of a shoot axis.	97953	0	0
43098	17	fifth order inflorescence branch	An inflorescence branch (PO:0009081) arising from a fourth order inflorescence branch (PO:0025106).	97958	0	0
43226	17	phyllome guard cell	A guard cell that is part of a phyllome stomatal complex.	98120	0	0
43352	17	leaf sinus	A phyllome sinus that is a marginal embayment, incision or indentation between marginal projections of any sort, typically lobes, teeth, or the base of cordate leaves.	98281	0	0
43267	17	rhizome scale leaf	A scale leaf that grows from a rhizome.	98170	0	0
1499	12	five_methyluridine	5_methyluridine is a modified uridine base feature.	2076	0	0
55475	12	Okazaki_fragment	Any of the DNA segments produced by discontinuous synthesis of the lagging strand during DNA replication.	3073832	0	0
580	12	mature_protein_region	The polypeptide sequence that remains when the cleaved peptide regions have been cleaved from the immature peptide.	796	0	0
55458	12	<new term> (obsolete SO:0002117)	\N	3073809	1	0
564	12	U14_snoRNA	U14 small nucleolar RNA (U14 snoRNA) is required for early cleavages of eukaryotic precursor rRNAs. In yeasts, this molecule possess a stem-loop region (known as the Y-domain) which is essential for function. A similar structure, but with a different consensus sequence, is found in plants, but is absent in vertebrates.	760	0	0
558	12	U6atac_snRNA	U6atac_snRNA is an snRNA required for the splicing of the minor U12-dependent class of eukaryotic nuclear introns. It forms a base paired complex with U4atac_snRNA (SO:0000394).	749	0	0
1166	12	tetraloop	A base-paired stem with loop of 4 non-hydrogen bonded nucleotides.	1493	0	0
658	12	five_prime_D_nonamer	9 nucleotide recombination site (e.g. GGTTTTTGT), part of a five_prime_D-recombination signal sequence (SO:0000556) of an immunoglobulin/T-cell receptor gene.	880	0	0
43205	17	leaf adaxial pavement cell	A leaf pavement cell that is part of a leaf adaxial epidermis.	98098	0	0
42632	17	exodermal passage cell	A short cell in the dimorphic type of exodermis with cell wall that remains non-thickened.	97195	0	0
1742	12	frame_restoring_variant	A sequence variant that reverts the sequence of a previous frameshift mutation back to the initial frame.	2415	0	0
43422	17	ordinary companion cell	A companion cell (PO:0000400) that lacks cell wall invaginations and has few or no plasmodesmata connecting it to adjacent mesophyll cells.	98370	0	0
1319	12	INR1_motif	A promoter motif with consensus sequence TCATTCG.	1782	0	0
42678	17	seed micropyle	A plant anatomical space that is enclosed by and forms an opening in a seed coat at the apex of a seed and is the remnant of a micropyle.	97249	0	0
1747	12	transcript_secondary_structure_variant	A sequence variant within a transcript that changes the secondary structure of the RNA product.	2421	0	0
1941	12	point_centromere	A point centromere is a relatively small centromere (about 125 bp DNA) in discrete sequence, found in some yeast including S. cerevisiae.	2644	0	0
43579	17	gametophore axillary hair basal cell	An axillary hair basal cell that is part of a gametophore axillary hair base.	98599	0	0
42382	17	root cap of primary root	A root cap that is part of a primary root tip.	96875	0	0
1781	12	upstream_gene_variant	A sequence variant located 5' of a gene.	2455	0	0
1760	12	elongated_polypeptide	A sequence variant with in the CDS that causes elongation of the resulting polypeptide sequence.	2434	0	0
1665	12	interchromosomal	\N	2320	0	0
42590	17	cotyledon epidermis	A leaf epidermis that is part of a cotyledon.	97142	0	0
2286	12	recoded_mRNA	The sequence of a mature mRNA transcript, modified before translation or during translation, usually by special cis-acting signals.	3099	0	0
1725	12	cryptic_splice_donor	A sequence variant whereby a new splice site is created due to the activation of a new donor.	2385	0	0
672	12	J_C_cluster	Genomic DNA of immunoglobulin/T-cell receptor gene in germline configuration including at least one J-gene and one C-gene.	895	0	0
55545	12	CTCF_binding_site	A transcription factor binding site with consensus sequence CCGCGNGGNGGCAG, bound by CCCTF-binding factor.	3073919	0	0
213	12	probe	A DNA sequence used experimentally to detect the presence or absence of a complementary nucleic acid.	266	0	0
111	12	complete_evidence_for_feature	\N	137	0	1
330	12	restriction_enzyme_cut_site (obsolete SO:0000168)	A specific nucleotide sequence of DNA at or near which a particular restriction enzyme cuts the DNA.	422	1	0
42759	17	reproductive shoot apical meristem	A shoot apical meristem (PO:0020148) that gives rise to the apical growth of reproductive tissues and organs.	97346	0	0
42446	17	sepal primordium	A phyllome primordium (PO:0025128) that develops from a sepal anlagen (PO:0025485) and is committed to the development of a sepal (PO:0009031).	96958	0	0
43182	17	leaf adaxial stomatal complex	A leaf stomatal complex that is part of a leaf adaxial epidermis.	98069	0	0
127	12	has_integral_part	\N	153	0	1
43142	17	tepal tip	A phyllome tip that is part of a tepal apex.	98021	0	0
42412	17	bark	A portion of plant tissue (PO:0009007) outside the vascular cambium (PO:0005598) or the xylem (PO:0005352); in older trees may be divided into dead outer bark and living inner bark, which consists of secondary phloem (PO:0005043).	96916	0	0
42298	17	petiole vascular system	A vascular system that includes the totality of the portions of vascular tissue in their specific arrangement in a leaf petiole.	96739	0	0
966	12	engineered_foreign_region	A region that is engineered and foreign.	1266	0	0
55347	12	5_carboxylcytosine	A modified DNA cytosine base feature, modified by a carboxy group at the 5 carbon.	3073659	0	0
42617	17	root meristem	A portion of meristem tissue (PO:0009013) that gives rise to a root (PO:0009005).	97175	0	0
43598	17	gametophore bud initial cell	A protonema sub-apical initial hat gives rise to a gametophore bud.	98630	0	0
1009	12	five_prime_LTR_component	\N	1315	0	0
189	12	base_pair	\N	230	0	0
757	12	H_ACA_box_snoRNA_primary_transcript	A primary transcript encoding a small nucleolar RNA of the box H/ACA family.	999	0	0
532	12	conjugative_transposon	A transposon that encodes function required for conjugation.	687	0	0
1432	12	modified_uridine	\N	1942	0	0
374	12	arginine_tRNA_primary_transcript	A primary transcript encoding arginyl tRNA (SO:0000255).	482	0	0
149	12	sequence_of	\N	175	0	1
563	12	enhancer_attribute (obsolete SO:0000402)	\N	759	1	0
1206	12	inversion_site_part	A region located within an inversion site.	1556	0	0
55501	12	H2AZK4_acetylation_site	A kind of histone modification site, whereby the 4th residue (a lysine), from the start of the H2AZ histone protein is acetylated.	3073860	0	0
55477	12	five_prime_UTR_premature_start_codon_location_variant	A 5' UTR variant where a premature start codon is moved.	3073835	0	0
1994	12	forkhead_motif	A promoter element with consensus sequence TTTRTTTACA, bound by transcription factors with a forkhead DNA-binding domain.	2734	0	0
42402	17	secretory cell (obsolete PO:0004012)	OBSOLETE. Cell that produces secreted substances.	96903	1	0
42400	17	meristematic cell	A native plant cell (PO:0025606) synthesizing protoplasm and producing new cells by division and with only a primary cell wall.	96899	0	0
2282	12	CDS_predicted	A CDS that is predicted.	3094	0	0
1087	12	insert_AA (obsolete SO:0000928)	An edit to insert a AA dinucleotide.	1402	1	0
2231	12	chromosome_fission	A chromosome that occurred by the division of a larger chromosome.	3042	0	0
1167	12	DNA_constraint_sequence	A double-stranded DNA used to control macromolecular structure and function.	1495	0	0
1727	12	intron_gain	A sequence variant whereby an intron is gained by the processed transcript; usually a result of an alteration of the donor or acceptor.	2387	0	0
55346	12	rare_amino_acid_variant	A sequence variant whereby at least one base of a codon encoding a rare amino acid is changed, resulting in a different encoded amino acid.	3073658	0	0
43241	17	leaf sheath adaxial epidermis	A portion of leaf sheath epidermis that covers the adaxial/upper surface of a leaf sheath.	98138	0	0
55406	12	short_tandem_repeat_contraction	A short tandem repeat variant containing fewer repeat units than the reference sequence.	3073745	0	0
1530	12	three_two_prime_O_dimethyluridine	3_2prime_O_dimethyluridine is a modified uridine base feature.	2138	0	0
1641	12	high_quality_draft	The status of a whole genome sequence, where overall coverage represents at least 90 percent of the genome.	2290	0	0
561	12	sequence_attribute	An attribute describes a quality of sequence.	757	0	0
603	12	ds_oligo	A double stranded oligonucleotide.	822	0	0
2312	12	databank_entry	The sequence referred to by an entry in a databank such as Genbank or SwissProt.	3132	0	0
42265	17	gynoecium primordium	A floral structure primordium (PO:0025477) that is committed to the development of a gynoecium (PO:0009062).	96693	0	0
42802	17	vascular leaf	A leaf (PO:0025034) in a vascular plant.	97423	0	0
42315	17	collenchyma cell	An elongated plant cell with unevenly thickened non-lignified primary walls that is alive at maturity.	76750	0	0
42817	17	sterile lemma	A flower bract in the position of a lemma, but not enclosing floral organs.	97473	0	0
2042	12	TFBS_ablation	A feature ablation whereby the deleted region includes a transcription factor binding site.	2808	0	0
42712	17	lower glume of pedicellate spikelet of tassel	A lower glume of tassel spikelet that is part of a tassel pedicellate spikelet.	97293	0	0
366	12	five_prime_UTR	A region at the 5' end of a mature transcript (preceding the initiation codon) that is not translated into a protein.	470	0	0
43002	17	plant gamete	A native plant cell (PO:0025606) that has half the chromosome complement of the sporophyte and is capable of fertilization to create a plant zygote (PO:0000423).	97821	0	0
43453	17	cardinal part of multi-tissue plant structure	A plant structure (PO:0009011) that is a proper part of a multi-tissue plant structure (PO:0025496) and includes portions of plant tissues (PO:0009007) of at least two different types.	98409	0	0
2156	12	sequence_variant_causing_no_change_in_transcript (obsolete SO:1000050)	No effect on the state of the RNA.	2961	1	0
2097	12	catmat_left_handed_four	A motif of 4 consecutive residues with dihedral angles as follows: res i: phi -90 bounds -120 to -60, res i psi -10 bounds -50 to 30, res i+1: phi -90 bounds -120 to -60, res i+1: psi -10 bounds -50 to 30, res i+2: phi -75 bounds -100 to -50, res i+2: psi 140 bounds 110 to 170.  The extra restriction of the length of the O to O distance is similar, that it be less than 5 Angstrom. In this case these two Oxygen atoms are the main chain carbonyl oxygen atoms of residues i-1 and i+2.	2885	0	0
