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Class: NucleicAcidEntity

A nucleic acid entity is a molecular entity characterized by availability in gene databases of nucleotide-based sequence representations of its precise sequence; for convenience of representation, partial sequences of various kinds are included.

URI: biolink:NucleicAcidEntity

classDiagram class NucleicAcidEntity GenomicEntity <|-- NucleicAcidEntity ThingWithTaxon <|-- NucleicAcidEntity PhysicalEssence <|-- NucleicAcidEntity OntologyClass <|-- NucleicAcidEntity MolecularEntity <|-- NucleicAcidEntity NucleicAcidEntity <|-- Exon NucleicAcidEntity <|-- Transcript NucleicAcidEntity <|-- CodingSequence NucleicAcidEntity : available_from NucleicAcidEntity --|> DrugAvailabilityEnum : available_from NucleicAcidEntity : category NucleicAcidEntity : description NucleicAcidEntity : full_name NucleicAcidEntity : has_attribute NucleicAcidEntity --|> attribute : has_attribute NucleicAcidEntity : has_biological_sequence NucleicAcidEntity : has_chemical_role NucleicAcidEntity --|> chemical role : has_chemical_role NucleicAcidEntity : id NucleicAcidEntity : in_taxon NucleicAcidEntity --|> organism taxon : in_taxon NucleicAcidEntity : in_taxon_label NucleicAcidEntity : iri NucleicAcidEntity : is_metabolite NucleicAcidEntity : is_toxic NucleicAcidEntity : max_tolerated_dose NucleicAcidEntity : name NucleicAcidEntity : provided_by NucleicAcidEntity : synonym NucleicAcidEntity : trade_name NucleicAcidEntity --|> chemical entity : trade_name NucleicAcidEntity : type NucleicAcidEntity : xref

Inheritance

Slots

Name Cardinality and Range Description Inheritance
has_biological_sequence 0..1
BiologicalSequence		 connects a genomic feature to its sequence GenomicEntity
in_taxon 0..*
OrganismTaxon		 connects an entity to its taxonomic classification ThingWithTaxon
in_taxon_label 0..1
LabelType		 The human readable scientific name for the taxon of the entity ThingWithTaxon
id 1..1
String		 A unique identifier for an entity Entity, OntologyClass
is_metabolite 0..1
Boolean		 indicates whether a molecular entity is a metabolite MolecularEntity
trade_name 0..1
ChemicalEntity		 ChemicalEntity
available_from 0..*
DrugAvailabilityEnum		 ChemicalEntity
max_tolerated_dose 0..1
String		 The highest dose of a drug or treatment that does not cause unacceptable side... ChemicalEntity
is_toxic 0..1
Boolean		 ChemicalEntity
has_chemical_role 0..*
ChemicalRole		 A role is particular behaviour which a chemical entity may exhibit ChemicalEntity
provided_by 0..*
String		 The value in this node property represents the knowledge provider that create... NamedThing
xref 0..*
Uriorcurie		 A database cross reference or alternative identifier for a NamedThing or edge... NamedThing
full_name 0..1
LabelType		 a long-form human readable name for a thing NamedThing
synonym 0..*
LabelType		 Alternate human-readable names for a thing NamedThing
iri 0..1
IriType		 An IRI for an entity Entity
category 1..*
CategoryType		 Name of the high level ontology class in which this entity is categorized Entity
type 0..*
String		 Entity
name 0..1
LabelType		 A human-readable name for an attribute or entity Entity
description 0..1
NarrativeText		 a human-readable description of an entity Entity
has_attribute 0..*
Attribute		 connects any entity to an attribute Entity

Usages

used by used in type used
Genotype has_zygosity domain NucleicAcidEntity
GenomicSequenceLocalization subject range NucleicAcidEntity
GenomicSequenceLocalization object range NucleicAcidEntity
SequenceFeatureRelationship subject range NucleicAcidEntity
SequenceFeatureRelationship object range NucleicAcidEntity

Aliases

  • sequence feature
  • genomic entity

Identifier and Mapping Information

Valid ID Prefixes

Instances of this class should have identifiers with one of the following prefixes:

  • PUBCHEM.COMPOUND

  • CHEMBL.COMPOUND

  • UNII

  • CHEBI

  • MESH

  • CAS

  • GTOPDB

  • HMDB

  • KEGG

  • KEGG.COMPOUND

  • ChemBank

  • PUBCHEM.SUBSTANCE

  • INCHI

  • INCHIKEY

  • KEGG.GLYCAN

  • KEGG.ENVIRON

Schema Source

  • from schema: https://w3id.org/biolink/biolink-model

Mappings

Mapping Type Mapped Value
self biolink:NucleicAcidEntity
native biolink:NucleicAcidEntity
exact SO:0000110
narrow STY:T086, STY:T114

LinkML Source

Direct

name: nucleic acid entity
id_prefixes:
- PUBCHEM.COMPOUND
- CHEMBL.COMPOUND
- UNII
- CHEBI
- MESH
- CAS
- GTOPDB
- HMDB
- KEGG
- KEGG.COMPOUND
- ChemBank
- PUBCHEM.SUBSTANCE
- INCHI
- INCHIKEY
- KEGG.GLYCAN
- KEGG.ENVIRON
description: A nucleic acid entity is a molecular entity characterized by availability
  in gene databases of nucleotide-based sequence representations of its precise sequence;
  for convenience of representation, partial sequences of various kinds are included.
in_subset:
- model_organism_database
- translator_minimal
from_schema: https://w3id.org/biolink/biolink-model
aliases:
- sequence feature
- genomic entity
exact_mappings:
- SO:0000110
narrow_mappings:
- STY:T086
- STY:T114
is_a: molecular entity
mixins:
- genomic entity
- thing with taxon
- physical essence
- ontology class