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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> 49,791
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>UP000008227
Taxonomy9823 - Sus scrofa
StrainDuroc
Genome assembly and annotationi <p>Identifier for the genome assembly (<a href="https://www.ensembl.org/Help/Faq?id=216">more...</a>)</p> GCA_000003025.6 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 (M) genes, as well as the total number of orthologous clusters (n) used in the BUSCO assessment, and the name of the taxonomic lineage dataset used.</p> C:95.7%[S:37.8%,D:57.8%],F:0.7%,M:3.6%,n:13335 cetartiodactyla_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> Close to standard (high value)

Sus scrofa, the domestic pig, is a member of the Artiodactyla (even-toed ungulates). First domesticated around 10,000 years ago, they are an important agricultural species worldwide. In addition, pigs are useful as a non-primate biomedical model organism, especially for the study of complex traits (e.g. obesity, cardiovascular disease, and arthritis) and for xenotransplantation experiments.

The first draft genome was released in 2012 by the Swine Genome Sequencing Consortium, using sequence derived from a single Duroc sow (Duroc 2-14). Assembly 10.2 contains approximately 2.6 Gb of sequence and 21,000 protein-coding genes.

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

Component nameGenome Accession(s)
Component representationProteins
Chromosome 14187
Chromosome 24389
Chromosome 33140
Chromosome 42686
Chromosome 52526
Chromosome 64762
Chromosome 72988
Chromosome 81762
Chromosome 92726
Chromosome 101107
Chromosome 11877
Chromosome 122579
Chromosome 133379
Chromosome 143059
Chromosome 152076
Chromosome 16880
Chromosome 171428
Chromosome 181110
Chromosome X1762
Mitochondrion16
Unplaced
2478
Chromosome Y125

Publications

  1. "Complete nucleotide sequence of pig (Sus scrofa) mitochondrial genome and dating evolutionary divergence within artiodactyla."
    Lin C.S., Sun Y.L., Liu C.Y., Yang P.C., Chang L.C., Cheng I.C., Mao S.J.T., Huang M.C.
    Gene 236:107-114(1999) [PubMed] [Europe PMC] [Abstract]
  2. Datahose
    Submitted (FEB-2017) to the EMBL/GenBank/DDBJ databases
  3. Porcine genome sequencing project
    Submitted (NOV-2009) to the EMBL/GenBank/DDBJ databases
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Main funding by: National Institutes of Health

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