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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> 36,128
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>UP000001038
Taxonomy8090 - Oryzias latipes
StrainHd-rR
Last modifiedNovember 23, 2019
Genome assembly and annotationi <p>Identifier for the genome assembly (<a href="https://www.ensembl.org/Help/Faq?id=216">more...</a>)</p> GCA_002234675.1 from Ensembl full
BuscoC:96.7%[S:57.4%,D:39.3%],F:1.4%,M:1.9%,n:4584
CompletenessStandard

The Japanese rice fish or medaka is a model organism in genomic and experimental biology and was the first vertebrate animal to mate in space, during the mid-1990s. As their name suggests Japanese rice fish can be found in flooded rice paddies in Japan, Taiwan, and other areas of southeast Asia.

Japanese rice fish have a short gestation period and reproductive characteristics that make them easy to rear in the laboratory. They also have many attributes that make them a model organism for scientific study, such as the clarity of its eggs, hardiness and lack of aggression. They have clearly defined sex chromosomes, unlike zebrafish, and in comparison with zebrafish it are hardier and less prone to disease. They are also more closely related to the fugu (Takifugu and Tetraodon).

The Medaka genome has been sequenced using whole-genome shotgun sequencing to give 10.6X coverage. It consists of approximately 700 Mb of sequence, on 24 chromosomes, giving almost 20,000 protein-coding genes. The species-specific sequence evidence (medaka cDNA and protein) is very limited, so the majority of gene models are based on genewise alignments of proteins from other species that are genetically distant to medaka.

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

Component nameGenome Accession(s)
Component representationProteins
Chromosome 11872
Chromosome 2993
Chromosome 31593
Chromosome 41558
Chromosome 51691
Chromosome 61654
Chromosome 71879
Chromosome 81908
Chromosome 91839
Chromosome 101336
Chromosome 111434
Chromosome 121420
Chromosome 131597
Chromosome 141499
Chromosome 151320
Chromosome 161823
Chromosome 171711
Chromosome 181348
Chromosome 191429
Chromosome 201030
Chromosome 211494
Chromosome 221460
Chromosome 23983
Chromosome 241268
Mitochondrion13
Unplaced
82
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