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usp3 ubiquitin specific peptidase 3 [ Danio rerio (zebrafish) ]

Gene ID: 569679, updated on 12-Sep-2024

Summary

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Official Symbol
usp3provided by ZNC
Official Full Name
ubiquitin specific peptidase 3provided by ZNC
Primary source
ZFIN:ZDB-GENE-030131-5142
See related
Ensembl:ENSDARG00000045641 AllianceGenome:ZFIN:ZDB-GENE-030131-5142
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
fe50h06; wu:fe50h06
Summary
Predicted to enable thiol-dependent deubiquitinase and zinc ion binding activity. Predicted to be involved in protein deubiquitination. Predicted to act upstream of or within ubiquitin-dependent protein catabolic process. Predicted to be active in cytoplasm. Orthologous to human USP3 (ubiquitin specific peptidase 3). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
human mouse all
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Genomic context

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See usp3 in Genome Data Viewer
Location:
chromosome: 25
Exon count:
15
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 25 NC_007136.7 (26738450..26753140, complement)
105 previous assembly GRCz10 (GCF_000002035.5) 25 NC_007136.6 (26295248..26310015, complement)

Chromosome 25 - NC_007136.7Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC137489367 Neighboring gene F-box and leucine-rich repeat protein 22 Neighboring gene si:dkeyp-73b11.8 Neighboring gene carbonic anhydrase XII

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • BioProject: PRJEB1986
  • Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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Related articles in PubMed

  1. Genome-wide loss-of-function analysis of deubiquitylating enzymes for zebrafish development. Tse WK, et al. BMC Genomics, 2009 Dec 30. PMID 20040115, Free PMC Article
  2. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
  3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
  4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables cysteine-type deubiquitinase activity IEA
Inferred from Electronic Annotation
more info
  
enables cysteine-type peptidase activity IEA
Inferred from Electronic Annotation
more info
  
enables hydrolase activity IEA
Inferred from Electronic Annotation
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables peptidase activity IEA
Inferred from Electronic Annotation
more info
  
enables zinc ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within protein deubiquitination IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within proteolysis IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
ubiquitin carboxyl-terminal hydrolase 3
NP_001186800.1

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001199871.1 → NP_001186800.1  ubiquitin carboxyl-terminal hydrolase 3

    Status: VALIDATED

    Source sequence(s)
    CR391977
    UniProtKB/TrEMBL
    A0A8M1NVK9, X1WG21
    Related
    ENSDARP00000129176.1, ENSDART00000155698.2
    Conserved Domains (3) summary
    cl02553
    Location:164 → 513
    Peptidase_C19; Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyse bonds involving the carboxyl group of the C-terminal Gly ...
    pfam00443
    Location:162 → 512
    UCH; Ubiquitin carboxyl-terminal hydrolase
    pfam02148
    Location:29 → 109
    zf-UBP; Zn-finger in ubiquitin-hydrolases and other protein

RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007136.7 Reference GRCz11 Primary Assembly

    Range
    26738450..26753140 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version

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