Class: Gene

Gene record. Note: Multiple gene_N tables exist for partitioning.

classDiagram class Gene click Gene href "../Gene/" Gene : contig_id Gene : end Gene : id Gene : locus_tag Gene : product Gene : start Gene : strand

Slots

Name	Cardinality and Range	Description	Inheritance
id	1 Integer		direct
locus_tag	0..1 String		direct
contig_id	0..1 Integer		direct
start	0..1 Integer		direct
end	0..1 Integer		direct
strand	0..1 Integer		direct
product	0..1 String	Gene product annotation	direct

Identifier and Mapping Information

Annotations

property	value
source_table	gene

Schema Source

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

Mappings

Mapping Type	Mapped Value
self	https://w3id.org/jgi/smc/Gene
native	https://w3id.org/jgi/smc/Gene

LinkML Source

Direct

name: Gene
annotations:
  source_table:
    tag: source_table
    value: gene
description: 'Gene record. Note: Multiple gene_N tables exist for partitioning.'
from_schema: https://w3id.org/jgi/smc
attributes:
  id:
    name: id
    from_schema: https://w3id.org/jgi/smc
    identifier: true
    domain_of:
    - BGC
    - BGCClass
    - BGCAnalysis
    - BGCAnalysisToSecmetFile
    - BGCAnnotation
    - AnalysisTool
    - Contig
    - Gene
    - Collection
    - CollectionMember
    - Comment
    - Blog
    - Activity
    - ApiUsage
    range: integer
    required: true
  locus_tag:
    name: locus_tag
    from_schema: https://w3id.org/jgi/smc
    rank: 1000
    domain_of:
    - Gene
    range: string
  contig_id:
    name: contig_id
    comments:
    - Foreign key to Contig.id
    from_schema: https://w3id.org/jgi/smc
    domain_of:
    - BGC
    - Gene
    range: integer
  start:
    name: start
    from_schema: https://w3id.org/jgi/smc
    domain_of:
    - BGC
    - Gene
    range: integer
  end:
    name: end
    from_schema: https://w3id.org/jgi/smc
    domain_of:
    - BGC
    - Gene
    range: integer
  strand:
    name: strand
    from_schema: https://w3id.org/jgi/smc
    domain_of:
    - BGC
    - Gene
    range: integer
  product:
    name: product
    description: Gene product annotation
    from_schema: https://w3id.org/jgi/smc
    rank: 1000
    domain_of:
    - Gene
    range: string

Induced

name: Gene
annotations:
  source_table:
    tag: source_table
    value: gene
description: 'Gene record. Note: Multiple gene_N tables exist for partitioning.'
from_schema: https://w3id.org/jgi/smc
attributes:
  id:
    name: id
    from_schema: https://w3id.org/jgi/smc
    identifier: true
    alias: id
    owner: Gene
    domain_of:
    - BGC
    - BGCClass
    - BGCAnalysis
    - BGCAnalysisToSecmetFile
    - BGCAnnotation
    - AnalysisTool
    - Contig
    - Gene
    - Collection
    - CollectionMember
    - Comment
    - Blog
    - Activity
    - ApiUsage
    range: integer
    required: true
  locus_tag:
    name: locus_tag
    from_schema: https://w3id.org/jgi/smc
    rank: 1000
    alias: locus_tag
    owner: Gene
    domain_of:
    - Gene
    range: string
  contig_id:
    name: contig_id
    comments:
    - Foreign key to Contig.id
    from_schema: https://w3id.org/jgi/smc
    alias: contig_id
    owner: Gene
    domain_of:
    - BGC
    - Gene
    range: integer
  start:
    name: start
    from_schema: https://w3id.org/jgi/smc
    alias: start
    owner: Gene
    domain_of:
    - BGC
    - Gene
    range: integer
  end:
    name: end
    from_schema: https://w3id.org/jgi/smc
    alias: end
    owner: Gene
    domain_of:
    - BGC
    - Gene
    range: integer
  strand:
    name: strand
    from_schema: https://w3id.org/jgi/smc
    alias: strand
    owner: Gene
    domain_of:
    - BGC
    - Gene
    range: integer
  product:
    name: product
    description: Gene product annotation
    from_schema: https://w3id.org/jgi/smc
    rank: 1000
    alias: product
    owner: Gene
    domain_of:
    - Gene
    range: string