The Reference Sequence (RefSeq) collection aims to provide a comprehensive, integrated, non-redundant set of sequences, including genomic DNA, transcript (RNA), and protein products.

Prefix
refseq
Alternative Prefixes
REFSEQ_PROT
Keywords
computational biology dna genetics life science protein rna
Links
Homepage
Contact
Kim Dixon Pruitt   0000-0001-7950-1374
Pattern for Local Unique Identifiers

Local identifiers in Reference Sequence Collection should match this regular expression:
^(((AC|AP|NC|NG|NM|NP|NR|NT|NW|WP|XM|XP|XR|YP|ZP)_\d+)|(NZ_[A-Z]{2,4}\d+))(\.\d+)?$

Example Local Unique Identifiers
NP_012345   Resolve
WP_029104145.1   Resolve
Pattern for CURIES

Compact URIs (CURIEs) constructed from Reference Sequence Collection should match this regular expression:
^refseq:(((AC|AP|NC|NG|NM|NP|NR|NT|NW|WP|XM|XP|XR|YP|ZP)_\d+)|(NZ_[A-Z]{2,4}\d+))(\.\d+)?$

Example CURIEs
refseq:NP_012345
refseq:WP_029104145.1
Publications
References
GitHub Issue https://github.com/biopragmatics/bioregistry/issues/545
Contributors
Ontology

A summary of the relations in the Bioregistry schema can be found here.

Has URI collision with (bioregistry.schema:0000016 )

This resource shares one or more URI format strings with NCBIProtein .

Therefore, when generating an extended prefix map, refseq, its CURIE prefix synonyms, and its URI prefix synonyms are merged into the record for NCBIProtein . If you believe that these are two distinct semantic spaces and should not be merged, please open a new issue on the Bioregistry issue tracker for discussion.

In Collection
FHIR External Terminologies
Metaregistry Reference Sequence Collection

The metaregistry provides mappings between the Bioregistry and other registries. There are 11 mappings to external registries for this resource with 7 unique external prefixes.

Registry Name Registry Metaprefix External Prefix Curate
BioContext biocontext RefSeq
EDAM EDAM Ontology logo edam 1098
FAIRSharing FAIRSharing logo fairsharing FAIRsharing.4jg0qw
GO Gene Ontology Registry logo go RefSeq
HL7 HL7 External Code Systems logo hl7 2.16.840.1.113883.6.280
Integbio Integbio logo integbio nbdc00187
Identifiers.org Identifiers.org logo miriam refseq
N2T Name-to-Thing logo n2t refseq
Prefix Commons Prefix Commons logo prefixcommons refseq
re3data Registry of Research Data Repositories logo re3data r3d100010285
UniProt UniProt Cross-ref database logo uniprot DB-0117
Providers

A provider turns a local unique identifiers from a resource into a URI. Many providers are also resolvable as URLs (i.e., they can be used in a web browser).

The local unique identifier NP_012345 is used to demonstrate the providers available for Reference Sequence Collection. A guide for curating additional providers can be found here.

Name Metaprefix URI
Reference Sequence Collection refseq https://www.ncbi.nlm.nih.gov/protein/NP_012345
Bioregistry bioregistry https://bioregistry.io/refseq:NP_012345
Identifiers.org miriam https://identifiers.org/refseq:NP_012345
Name-to-Thing n2t https://n2t.net/refseq:NP_012345
Extra Providers

Additional providers curated in the Bioregistry are listed here. These are typically inherited from Identifiers.org or Prefix Commons, and need extra curation.

Code Name URL
bio2rdf Bio2RDF http://bio2rdf.org/refseq:NP_012345