Class: genomic entity

an entity that can either be directly located on a genome (gene, transcript, exon, regulatory region) or is encoded in a genome (protein)

URI: biolink:GenomicEntity

Parents

• is_a: MolecularEntity - A gene, gene product, small molecule or macromolecule (including protein complex)

Children

• CodingSequence
• Exon - A region of the transcript sequence within a gene which is not removed from the primary RNA transcript by RNA splicing
• Genome - A genome is the sum of genetic material within a cell or virion.
• Genotype - An information content entity that describes a genome by specifying the total variation in genomic sequence and/or gene expression, relative to some extablished background
• Haplotype - A set of zero or more Alleles on a single instance of a Sequence[VMC]
• MacromolecularMachine - A union of gene, gene product, and macromolecular complex. These are the basic units of function in a cell. They either carry out individual biological activities, or they encode molecules which do this.
• SequenceVariant - An allele that varies in its sequence from what is considered the reference allele at that locus.
• Transcript - An RNA synthesized on a DNA or RNA template by an RNA polymerase

Referenced by class

• MolecularEntity affects expression of _0..* GenomicEntity
• MolecularEntity affects mutation rate of _0..* GenomicEntity
• MolecularEntity decreases expression of _0..* GenomicEntity
• MolecularEntity decreases mutation rate of _0..* GenomicEntity
• GenomicSequenceLocalization object _REQ GenomicEntity
• GenomicSequenceLocalization subject _REQ GenomicEntity
• MolecularEntity increases expression of _0..* GenomicEntity
• MolecularEntity increases mutation rate of _0..* GenomicEntity
• SequenceFeatureRelationship object _REQ GenomicEntity
• SequenceFeatureRelationship subject _REQ GenomicEntity

Attributes

Own

• has biological sequence _OPT
  • Description: connects a genomic feature to its sequence
  • range: BiologicalSequence

Inherited from named thing:

• id _REQ
  • Description: A unique identifier for a thing. Must be either a CURIE shorthand for a URI or a complete URI
  • range: IdentifierType
  • inherited from: NamedThing
  • in subsets: (translator_minimal)
• name _REQ
  • Description: A human-readable name for a thing
  • range: LabelType
  • inherited from: NamedThing
  • in subsets: (translator_minimal)
• category _1..*
  • Description: Name of the high level ontology class in which this entity is categorized. Corresponds to the label for the biolink entity type class. In a neo4j database this MAY correspond to the neo4j label tag
  • range: IriType
  • inherited from: NamedThing
  • in subsets: (translator_minimal)

Inherited from thing with taxon:

• in taxon _0..*
  • Description: connects a thing to a class representing a taxon
  • range: OrganismTaxon
  • inherited from: ThingWithTaxon
  • in subsets: (translator_minimal)

Domain for slot:

• has biological sequence _OPT
  • Description: connects a genomic feature to its sequence
  • range: BiologicalSequence