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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> 16,940
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>UP000219602
Taxonomy327505 - Fusarium oxysporum f. sp. radicis-cucumerinum
StrainForc016
Last modifiedFebruary 26, 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_001702695.2 from ENA/EMBL full
Pan proteomei <p>A pan proteome is the full set of proteins thought to be expressed by a group of highly related organisms (e.g. multiple strains of the same bacterial species).<p><a href='/help/pan_proteomes' target='_top'>More...</a></p> This proteome is part of the Fusarium oxysporum f. sp. radicis-cucumerinum pan proteome (fasta)
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 (F) genes, as well as the total number of orthologous clusters (n) used in the BUSCO assessment.</p> C:98.5%[S:96.6%,D:1.9%],F:0.9%,M:0.7%,n:4494 hypocreales_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> Standard

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

Component nameGenome Accession(s)
Component representationProteins
Mitochondrion0
Unassembled WGS sequence591
Chromosome 101097
Chromosome 111414
Chromosome 21562
Chromosome rc555
Chromosome 41911
Chromosome 121069
Chromosome 51728
Chromosome 81333
Chromosome 13876
Chromosome 71514
Chromosome 91183
Chromosome 12135

Publications

  1. "Effector profiles distinguish formae speciales of Fusarium oxysporum."
    van Dam P., Fokkens L., Schmidt S.M., Linmans J.H., Kistler H.C., Ma L.J., Rep M.
    Environ. Microbiol. 18:4087-4102(2016) [PubMed] [Europe PMC] [Abstract]
  2. "A mobile pathogenicity chromosome in Fusarium oxysporum for infection of multiple cucurbit species."
    van Dam P., Fokkens L., Ayukawa Y., van der Gragt M., Ter Horst A., Brankovics B., Houterman P.M., Arie T., Rep M.
    Sci. Rep. 7:9042-9042(2017) [PubMed] [Europe PMC] [Abstract]
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