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Proteomes - Sus scrofa (Pig)

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> 49,793
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
Last modifiedJanuary 15, 2020
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
BuscoC:96.7%[S:38.6%,D:58.1%],F:1.5%,M:1.7%,n:6253
CompletenessOutlier

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 1
CM000812
4186
Chromosome 2
CM000813
4388
Chromosome 3
CM000814
3140
Chromosome 4
CM000815
2686
Chromosome 5
CM000816
2525
Chromosome 6
CM000817
4762
Chromosome 7
CM000818
2987
Chromosome 8
CM000819
1762
Chromosome 9
CM000820
2726
Chromosome 10
CM000821
1107
Chromosome 11
CM000822
877
Chromosome 12
CM000823
2579
Chromosome 13
CM000824
3379
Chromosome 14
CM000825
3057
Chromosome 15
CM000826
2076
Chromosome 16
CM000827
880
Chromosome 17
CM000828
1428
Chromosome 18
CM000829
1110
Chromosome X
CM000830
1761
Mitochondrion
AF034253
16
Unplaced
2379
Chromosome Y
LT634572
125

Publications

  1. Datahose
    Submitted (FEB-2017) to the EMBL/GenBank/DDBJ databases
  2. "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]
  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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