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Overview

StatusReference proteome
Proteinsi <p>Number of protein entries associated with this proteome: UniProtKB entries for regular proteomes or UniParc entries for redundant proteomes (<a href="/help/proteome%5Fredundancy">more...</a>)</p> 29,936
Gene counti <p>This is the total number of unique genes found in the proteome set, algorithmically computed. For each gene, a single representative protein sequence is chosen from the proteome. Where possible, reviewed (Swiss-Prot) protein sequences are chosen as the representatives.</p> - Download one protein sequence per gene (FASTA)
Proteome IDi <p>The proteome identifier (UPID) is the unique identifier assigned to the set of proteins that constitute the <a href="http://www.uniprot.org/manual/proteomes%5Fmanual">proteome</a>. It consists of the characters 'UP' followed by 9 digits, is stable across releases and can therefore be used to cite a UniProt proteome.<p><a href='/help/proteome_id' target='_top'>More...</a></p>UP000002494
Taxonomy10116 - Rattus norvegicus
StrainBrown Norway
Last modifiedJanuary 29, 2021
Genome assembly and annotationi <p>Identifier for the genome assembly (<a href="https://www.ensembl.org/Help/Faq?id=216">more...</a>)</p> GCA_000001895.4 from Ensembl full
Buscoi <p>The Benchmarking Universal Single-Copy Ortholog (BUSCO) assessment tool is used, for eukaryotic and bacterial proteomes, to provide quantitative measures of UniProt proteome data completeness in terms of expected gene content. BUSCO scores include percentages of complete (C) single-copy (S) genes, complete (C) duplicated (D) genes, fragmented (F) and missing (F) genes, as well as the total number of orthologous clusters (n) used in the BUSCO assessment.</p> C:96.9%[S:74.3%,D:22.5%],F:0.9%,M:2.2%,n:13798 glires_odb10
Completenessi <p>Complete Proteome Detector (CPD) is an algorithm which employs statistical evaluation of the completeness and quality of proteomes in UniProt, by looking at the sizes of taxonomically close proteomes. Possible values are 'Standard', 'Close to Standard' and 'Outlier'.</p> Standard

Rattus norvegicus (also called the brown rat, Hanover rat, Norwegian rat, Brown Norway rat) is a common rodent closely related to mouse. The species originated in Asia, not Norway as the name suggests, and has spread throughout the world.

The rat is a major pest and a reservoir of pathogens, being involved in the transmission of infectious diseases such as cholera, bubonic plague and typhus. On the other hand, Rattus norvegicus was the first mammalian species to be domesticated for scientific research.

The rat is an indispensable model organism in biomedical research, especially in cardiovascular and psychological research, and in therapeutic efficacy and toxicity studies. It is the third mammalian species to have its genome sequenced.

The reference proteome of Rattus norvegicus is derived from the genome sequence of strain Brown Norway (BN) that was published in 2004. The sequence data were mostly from two inbred female animals of strain BN/SsNHsd/Mcwi. The assembled genome size is 2.75 Gb.

Componentsi <p>Genomic components encoding the proteome</p>

Component nameGenome Accession(s)
Component representationProteins
Unplaced
3090
Mitochondrion13
Chromosome 13570
Chromosome 21776
Chromosome 32125
Chromosome 41661
Chromosome 51607
Chromosome 61143
Chromosome 71638
Chromosome 81497
Chromosome 91077
Chromosome 102105
Chromosome 11718
Chromosome 12822
Chromosome 13843
Chromosome 14851
Chromosome 15864
Chromosome 16772
Chromosome 17761
Chromosome 18640
Chromosome 19673
Chromosome 20866
Chromosome X1026
Chromosome Y12

Publications

  1. "Genome sequence of the Brown Norway rat yields insights into mammalian evolution."
    Gibbs R.A., Weinstock G.M., Metzker M.L., Muzny D.M., Sodergren E.J., Scherer S., Scott G., Steffen D., Worley K.C., Burch P.E., Okwuonu G., Hines S., Lewis L., Deramo C., Delgado O., Dugan-Rocha S., Miner G., Morgan M.
    Collins F.S.
    Nature 428:493-521(2004) [PubMed] [Europe PMC] [Abstract]
  2. "The Mitochondrial Genome of Rattus Norvegicus strain Brown Norway."
    McLeod M.P., Muzny D.M., Metzker M.L., Abramzon S., Adams C., Alder J., Allen C., Allen H., Alsbrooks S., Amin A., Anguiano D., Anyalebechi V., Aoyagi A., Ayodeji M., Baca E., Baden H., Baldwin D., Bandaranaike D.
    Gibbs R.A.
    Submitted (DEC-2002) to the EMBL/GenBank/DDBJ databases
  3. Rat Genome Sequencing Consortium
    Submitted (NOV-2002) to the EMBL/GenBank/DDBJ databases
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