Class: Feature

Genomic feature (gene, mRNA, exon, CDS, etc.). Central table in Chado schema.

URI: https://w3id.org/jgi/phytozome/Feature

classDiagram class Feature click Feature href "../Feature/" Feature : feature_id Feature : is_analysis Feature : is_obsolete Feature : name Feature : organism_id Feature : residues Feature : seqlen Feature : type_id Feature : uniquename

Slots

Name	Cardinality and Range	Description	Inheritance
feature_id	1 Integer		direct
name	0..1 String	Feature name/symbol	direct
uniquename	0..1 String	Unique identifier	direct
type_id	0..1 Integer	SO term for feature type	direct
organism_id	0..1 Integer		direct
residues	0..1 String	Sequence if stored	direct
seqlen	0..1 Integer		direct
is_analysis	0..1 Boolean		direct
is_obsolete	0..1 Boolean		direct

Identifier and Mapping Information

Annotations

property	value
source_table	feature (via all_feature_names view)

Schema Source

from schema: https://w3id.org/jgi/phytozome

Mappings

Mapping Type	Mapped Value
self	https://w3id.org/jgi/phytozome/Feature
native	https://w3id.org/jgi/phytozome/Feature

LinkML Source

Direct

name: Feature
annotations:
  source_table:
    tag: source_table
    value: feature (via all_feature_names view)
description: Genomic feature (gene, mRNA, exon, CDS, etc.). Central table in Chado
  schema.
from_schema: https://w3id.org/jgi/phytozome
attributes:
  feature_id:
    name: feature_id
    from_schema: https://w3id.org/jgi/phytozome
    rank: 1000
    identifier: true
    domain_of:
    - Feature
    - AnalysisFeature
    - CellLineFeature
    range: integer
    required: true
  name:
    name: name
    description: Feature name/symbol
    from_schema: https://w3id.org/jgi/phytozome
    rank: 1000
    domain_of:
    - Feature
    - Analysis
    - CV
    - CVTerm
    - Biomaterial
    - CellLine
    - Assay
    - ArrayDesign
    - Acquisition
    - AnalysisSet
    - AnalysisGrp
    - Contact
    range: string
  uniquename:
    name: uniquename
    description: Unique identifier
    from_schema: https://w3id.org/jgi/phytozome
    rank: 1000
    domain_of:
    - Feature
    - CellLine
    range: string
  type_id:
    name: type_id
    description: SO term for feature type
    comments:
    - Foreign key to cvterm.cvterm_id
    from_schema: https://w3id.org/jgi/phytozome
    rank: 1000
    domain_of:
    - Feature
    - BiomaterialProp
    - BiomaterialRelationship
    - CellLineProp
    - ContactRelationship
    range: integer
  organism_id:
    name: organism_id
    comments:
    - Foreign key to organism.organism_id
    from_schema: https://w3id.org/jgi/phytozome
    rank: 1000
    domain_of:
    - Feature
    - Organism
    - CellLine
    range: integer
  residues:
    name: residues
    description: Sequence if stored
    from_schema: https://w3id.org/jgi/phytozome
    rank: 1000
    domain_of:
    - Feature
    range: string
  seqlen:
    name: seqlen
    from_schema: https://w3id.org/jgi/phytozome
    rank: 1000
    domain_of:
    - Feature
    range: integer
  is_analysis:
    name: is_analysis
    from_schema: https://w3id.org/jgi/phytozome
    rank: 1000
    domain_of:
    - Feature
    range: boolean
  is_obsolete:
    name: is_obsolete
    from_schema: https://w3id.org/jgi/phytozome
    rank: 1000
    domain_of:
    - Feature
    range: boolean

Induced

name: Feature
annotations:
  source_table:
    tag: source_table
    value: feature (via all_feature_names view)
description: Genomic feature (gene, mRNA, exon, CDS, etc.). Central table in Chado
  schema.
from_schema: https://w3id.org/jgi/phytozome
attributes:
  feature_id:
    name: feature_id
    from_schema: https://w3id.org/jgi/phytozome
    rank: 1000
    identifier: true
    alias: feature_id
    owner: Feature
    domain_of:
    - Feature
    - AnalysisFeature
    - CellLineFeature
    range: integer
  name:
    name: name
    description: Feature name/symbol
    from_schema: https://w3id.org/jgi/phytozome
    rank: 1000
    alias: name
    owner: Feature
    domain_of:
    - Feature
    - Analysis
    - CV
    - CVTerm
    - Biomaterial
    - CellLine
    - Assay
    - ArrayDesign
    - Acquisition
    - AnalysisSet
    - AnalysisGrp
    - Contact
    range: string
  uniquename:
    name: uniquename
    description: Unique identifier
    from_schema: https://w3id.org/jgi/phytozome
    rank: 1000
    alias: uniquename
    owner: Feature
    domain_of:
    - Feature
    - CellLine
    range: string
  type_id:
    name: type_id
    description: SO term for feature type
    comments:
    - Foreign key to cvterm.cvterm_id
    from_schema: https://w3id.org/jgi/phytozome
    rank: 1000
    alias: type_id
    owner: Feature
    domain_of:
    - Feature
    - BiomaterialProp
    - BiomaterialRelationship
    - CellLineProp
    - ContactRelationship
    range: integer
  organism_id:
    name: organism_id
    comments:
    - Foreign key to organism.organism_id
    from_schema: https://w3id.org/jgi/phytozome
    rank: 1000
    alias: organism_id
    owner: Feature
    domain_of:
    - Feature
    - Organism
    - CellLine
    range: integer
  residues:
    name: residues
    description: Sequence if stored
    from_schema: https://w3id.org/jgi/phytozome
    rank: 1000
    alias: residues
    owner: Feature
    domain_of:
    - Feature
    range: string
  seqlen:
    name: seqlen
    from_schema: https://w3id.org/jgi/phytozome
    rank: 1000
    alias: seqlen
    owner: Feature
    domain_of:
    - Feature
    range: integer
  is_analysis:
    name: is_analysis
    from_schema: https://w3id.org/jgi/phytozome
    rank: 1000
    alias: is_analysis
    owner: Feature
    domain_of:
    - Feature
    range: boolean
  is_obsolete:
    name: is_obsolete
    from_schema: https://w3id.org/jgi/phytozome
    rank: 1000
    alias: is_obsolete
    owner: Feature
    domain_of:
    - Feature
    range: boolean