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Class: Transcript

Description: An RNA synthesized on a DNA or RNA template by an RNA polymerase.
classDiagram class Transcript BiologicalEntity <|-- Transcript Transcript <|-- RNAProduct Transcript : category Transcript : deprecated Transcript : description Transcript : full_name Transcript : has_attribute Transcript --|> Attribute : has_attribute Transcript : id Transcript : in_taxon Transcript --|> OrganismTaxon : in_taxon Transcript : in_taxon_label Transcript : iri Transcript : name Transcript : provided_by Transcript : synonym Transcript : type Transcript : xref

Inheritance

Slots

Name Cardinality and Range Inheritance Examples
in_taxon:
connects an entity to its taxonomic classification. Only certain kinds of entities can be taxonomically classified; see 'thing with taxon'
0..*
OrganismTaxon		 ThingWithTaxon
in_taxon_label:
The human readable scientific name for the taxon of the entity. 		0..1
LabelType		 ThingWithTaxon
provided_by:
The value in this node property represents the knowledge provider that created or assembled the node and all of its attributes. Used internally to represent how a particular node made its way into a knowledge provider or graph. 		0..*
String		 NamedThing
xref:
A database cross reference or alternative identifier for a NamedThing or edge between two NamedThings. This property should point to a database record or webpage that supports the existence of the edge, or gives more detail about the edge. This property can be used on a node or edge to provide multiple URIs or CURIE cross references. 		0..*
Uriorcurie		 NamedThing
full_name:
a long-form human readable name for a thing 		0..1
LabelType		 NamedThing
synonym:
Alternate human-readable names for a thing 		0..*
LabelType		 NamedThing
id:
A unique identifier for an entity. Must be either a CURIE shorthand for a URI or a complete URI 		1..1
String		 Entity
iri:
An IRI for an entity. This is determined by the id using expansion rules. 		0..1
IriType		 Entity
category:
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. In an RDF database it should be a biolink model class URI. This field is multi-valued. It should include values for ancestors of the biolink class; for example, a protein such as Shh would have category values biolink:Protein, biolink:GeneProduct, biolink:MolecularEntity. In an RDF database, nodes will typically have an rdf:type triples. This can be to the most specific biolink class, or potentially to a class more specific than something in biolink. For example, a sequence feature f may have a rdf:type assertion to a SO class such as TF_binding_site, which is more specific than anything in biolink. Here we would have categories {biolink:GenomicEntity, biolink:MolecularEntity, biolink:NamedThing} 		1..*
Uriorcurie		 Entity
type:
None 		0..*
String		 Entity
name:
A human-readable name for an attribute or entity. 		0..1
LabelType		 Entity
description:
a human-readable description of an entity 		0..1
NarrativeText		 Entity
has_attribute:
connects any entity to an attribute 		0..*
Attribute		 Entity
deprecated:
A boolean flag indicating that an entity is no longer considered current or valid. 		0..1
Boolean		 Entity

Usages

used by used in type used
TranscriptToGeneRelationship subject range Transcript
ExonToTranscriptRelationship object range Transcript

Valid ID Prefixes

Instances of this class should have identifiers with one of the following prefixes, ordered with the most preferred first:

ID Prefix Usage
ENSEMBL Gene
Transcript
Polypeptide
Protein
ProteinIsoform
NoncodingRNAProduct
FB Pathway
Gene
Transcript
Polypeptide
Protein
GeneFamily
Genotype
SequenceVariant

LinkML Source

name: transcript
id_prefixes:
- ENSEMBL
- FB
description: An RNA synthesized on a DNA or RNA template by an RNA polymerase.
in_subset:
- model_organism_database
from_schema: https://w3id.org/biolink/biolink-model
exact_mappings:
- SO:0000673
- SIO:010450
- WIKIDATA:Q7243183
- dcid:RNATranscript
is_a: biological entity