The Reference Sequence (RefSeq) collection aims to provide a comprehensive, integrated, non-redundant, well-annotated set of sequences, including genomic DNA, transcripts, and proteins. RefSeq is a foundation for medical, functional, and diversity studies; they provide a stable reference for genome annotation, gene identification and characterization, mutation and polymorphism analysis (especially RefSeqGene records), expression studies, and comparative analyses. [more...]
Scope |
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NCBI provides RefSeqs for taxonomically diverse organisms including eukaryotes, bacteria, and viruses.
Announcements |
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August 14, 2011: The Conserved CDS (CCDS) database released an update for mouse following genome reannotation by NCBI and Ensembl (NCBI assembly ID GCF_000001635.20, NCBI annotation release 38.1, Ensembl annotation release 68). This update adds 958 new CCDS IDs, reinstates 1 previously withdrawn CCDS ID, and adds 506 Genes into the mouse CCDS set. Mouse build 38.1 includes a total of 23,027 CCDS IDs that correspond to 19,945 GeneIDs.
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September 21, 2012: RefSeq Release 55 available for FTP
This release includes:
To receive announcements of future RefSeq releases and incremental large updates please subscribe to NCBI's refseq-announce mail list:
refseq-announce
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BLAST databases: Formatted genomic, mRNA, and protein RefSeq BLAST databases are available for FTP.
Data Access and Availability |
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RefSeq is accessible via BLAST, Entrez, and the NCBI FTP site. Information is also available in Entrez Genomes and Entrez Gene, and for some genomes additional information is available in the Map Viewer. Special properties have been defined to facilitate Entrez-based retrieval. Also see: Entrez Query Hints
Distinguishing Features |
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The main features of the RefSeq collection include:
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non-redundancy
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explicitly linked nucleotide and protein sequences
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updates to reflect current knowledge of sequence data and biology
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data validation and format consistency
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distinct accession series (all accessions include an underscore '_' character)
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ongoing curation by NCBI staff and collaborators, with reviewed records indicated
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References |
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Please refer to the Publications page for a full list of articles describing or using the RefSeq dataset. When using the RefSeq database, please cite one of the following:
The NCBI handbook [Internet]. Bethesda (MD): National Library of Medicine (US), National Center for Biotechnology Information; 2002 Oct. Chapter 18, The Reference Sequence (RefSeq) Project. Available from http://www.ncbi.nlm.nih.gov/books/NBK21091/
NCBI Reference Sequences (RefSeq): current status, new features and genome annotation policy.
Pruitt KD, Tatusova T, Brown GR, Maglott DR.
Nucleic Acids Res. 2012 Jan;40(Database issue):D130-5.
[Full Text in PubMed Central]
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