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Proteomes - Cavia porcellus (Guinea 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> 25,053
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>UP000005447
Taxonomy10141 - Cavia porcellus
Strain2N
Genome assembly and annotationi <p>Identifier for the genome assembly (<a href="https://www.ensembl.org/Help/Faq?id=216">more...</a>)</p> GCA_000151735.1 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:92.6%[S:70.2%,D:22.3%],F:1.6%,M:5.8%,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> Close to standard (low value)

The guinea pig, also known as the cavy, (Cavia porcellus) is a rodent belonging to the Caviidae family. This species does not exist in the wild any longer. Despite its name the animal is neither related to the pig family, nor originated from Guinea. Domesticated around 5,000 year ago in the Southern America, after European colonization, it is now widely distributed because of its popularity as a pet and a food source. The guinea pig is commonly used in biomedical research, for example in studies of the human immune system, since guinea pig immunological genes are more similar to human than those from mouse. This makes the guinea pig a very important model organism for toxicology and vaccine testing.

The guinea pig genome has 32 chromosomes containing 3.4 Gb with 20,000 protein-coding genes. The reference proteome is derived from the genome sequence submitted in 2008 to the EMBL/GenBank/DDBJ databases.

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

Component nameGenome Accession(s)
Component representationProteins
Unassembled WGS sequence
AAKN02000000
25040
Mitochondrion
AJ222767
13
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Main funding by: National Institutes of Health

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