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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_redundancy">more...</a>)</p> 74,622
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_manual">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>UP000005207
Taxonomy8128 - Oreochromis niloticus
Last modifiedMay 24, 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_001858045.3 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:97.3%[S:46%,D:51.3%],F:1%,M:1.7%,n:3640 actinopterygii_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> Outlier (high value)

The Nile tilapia is a fish belonging to the Cichlidae family. This species can be found in the wild in Egypt, Africa, Israel, Asia, and in various introduced populations around the world, as it is the second most widely cultured food fish. Pictures on the walls of an Egyptian tomb displaying the fish in ornamental ponds suggest that it was domesticated at least 4,000 years ago. As a cichlid fish, it is an important model organism for studying sex-determination evolution, speciation and behavior.

The Nile tilapia genome has 22 pairs of chromosomes containing 928 Mb with 30,000 protein-coding genes. The reference proteome is derived from the genome sequence published in 2013.

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

Component nameGenome Accession(s)
Component representationProteins
Linkage group LG12995
Linkage group LG22577
Linkage group LG34431
Linkage group LG43703
Linkage group LG53705
Linkage group LG63566
Linkage group LG76389
Linkage group LG8-240
Linkage group LG92289
Linkage group LG102967
Linkage group LG113223
Linkage group LG123602
Linkage group LG132744
Linkage group LG143021
Linkage group LG152954
Linkage group LG16-210
Linkage group LG172804
Linkage group LG183552
Linkage group LG192713
Linkage group LG203523
Linkage group LG222913
Linkage group LG233508
Unplaced
7479
Mitochondrion13

Publications

  1. "The Genome Sequence of Oreochromis niloticus (Nile Tilapia)."
    Broad Institute Genome Assembly Team, Broad Institute Sequencing Platform
    Di Palma F., Johnson J., Lander E.S., Lindblad-Toh K.
    Submitted (JAN-2012) to the EMBL/GenBank/DDBJ databases
  2. "Complete mitochondrial genome DNA of the Nile tilapia Oreochromis niloticus and phylogenetic analysis."
    Yang L., Lu M., Ye X., Zhu H., Gao F., Mo Y., Huang Z.
    Submitted (NOV-2009) to the EMBL/GenBank/DDBJ databases
UniProt is an ELIXIR core data resource
Main funding by: National Institutes of Health

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