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Usp47 ubiquitin specific peptidase 47 [ Mus musculus (house mouse) ]

Gene ID: 74996, updated on 2-Nov-2024

Summary

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Official Symbol
Usp47provided by MGI
Official Full Name
ubiquitin specific peptidase 47provided by MGI
Primary source
MGI:MGI:1922246
See related
Ensembl:ENSMUSG00000059263 AllianceGenome:MGI:1922246
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
4930502N04Rik; A630020C16Rik
Summary
Predicted to enable WD40-repeat domain binding activity and cysteine-type deubiquitinase activity. Involved in cellular response to UV. Acts upstream of or within negative regulation of intrinsic apoptotic signaling pathway in response to DNA damage. Predicted to be located in cytoplasm. Predicted to be part of SCF ubiquitin ligase complex. Predicted to be active in cytosol and nucleus. Orthologous to human USP47 (ubiquitin specific peptidase 47). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Ubiquitous expression in CNS E11.5 (RPKM 27.4), testis adult (RPKM 27.0) and 28 other tissues See more
Orthologs
human all
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Genomic context

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See Usp47 in Genome Data Viewer
Location:
7 F1; 7 58.74 cM
Exon count:
30
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 7 NC_000073.7 (111622692..111710591)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 7 NC_000073.6 (112023476..112111386)

Chromosome 7 - NC_000073.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 33204 Neighboring gene predicted gene 3960 Neighboring gene STARR-positive B cell enhancer ABC_E10463 Neighboring gene dickkopf WNT signaling pathway inhibitor 3 Neighboring gene STARR-seq mESC enhancer starr_19852 Neighboring gene STARR-positive B cell enhancer ABC_E6587 Neighboring gene predicted gene, 39071

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

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Related articles in PubMed

  1. Ubiquitin specific peptidase 47 contributes to liver regeneration. Zhu Y, et al. Life Sci, 2023 Sep 15. PMID 37487274
  2. USP47 deficiency in mice modulates tumor infiltrating immune cells and enhances antitumor immune responses in prostate cancer. Wang QL, et al. Cancer Immunol Immunother, 2024 Jun 4. PMID 38832955, Free PMC Article
  3. Ubiquitin-specific peptidase 47 (USP47) regulates cutaneous oxidative injury through nicotinamide nucleotide transhydrogenase (NNT). Li X, et al. Toxicol Appl Pharmacol, 2023 Dec 1. PMID 37924851
  4. Ubiquitin-specific protease 47 regulates intestinal inflammation through deubiquitination of TRAF6 in epithelial cells. Lei H, et al. Sci China Life Sci, 2022 Aug. PMID 35235149
  5. Targeting USP47 overcomes tyrosine kinase inhibitor resistance and eradicates leukemia stem/progenitor cells in chronic myelogenous leukemia. Lei H, et al. Nat Commun, 2021 Jan 4. PMID 33397955, Free PMC Article

See all (33) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. USP47 deficiency in mice modulates tumor infiltrating immune cells and enhances antitumor immune responses in prostate cancer.
    Title: USP47 deficiency in mice modulates tumor infiltrating immune cells and enhances antitumor immune responses in prostate cancer.
  2. Ubiquitin-specific peptidase 47 (USP47) regulates cutaneous oxidative injury through nicotinamide nucleotide transhydrogenase (NNT).
    Title: Ubiquitin-specific peptidase 47 (USP47) regulates cutaneous oxidative injury through nicotinamide nucleotide transhydrogenase (NNT).
  3. Ubiquitin specific peptidase 47 contributes to liver regeneration.
    Title: Ubiquitin specific peptidase 47 contributes to liver regeneration.
  4. Ubiquitin-specific protease 47 regulates intestinal inflammation through deubiquitination of TRAF6 in epithelial cells.
    Title: Ubiquitin-specific protease 47 regulates intestinal inflammation through deubiquitination of TRAF6 in epithelial cells.
  5. Targeting USP47 overcomes tyrosine kinase inhibitor resistance and eradicates leukemia stem/progenitor cells in chronic myelogenous leukemia.
    Title: Targeting USP47 overcomes tyrosine kinase inhibitor resistance and eradicates leukemia stem/progenitor cells in chronic myelogenous leukemia.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (4) 
  • Gene trapped (2) 
  • Targeted (1) 

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • MGC118655

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables WD40-repeat domain binding IEA
Inferred from Electronic Annotation
more info
  
enables WD40-repeat domain binding ISO
Inferred from Sequence Orthology
more info
  
enables cysteine-type deubiquitinase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables cysteine-type deubiquitinase activity ISO
Inferred from Sequence Orthology
more info
  
enables cysteine-type deubiquitinase activity ISS
Inferred from Sequence or Structural Similarity
more info
  
enables deubiquitinase activity ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in DNA damage response ISO
Inferred from Sequence Orthology
more info
  
involved_in DNA damage response ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in base-excision repair ISO
Inferred from Sequence Orthology
more info
  
involved_in base-excision repair ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in cellular response to UV IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of intrinsic apoptotic signaling pathway in response to DNA damage IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in monoubiquitinated protein deubiquitination ISO
Inferred from Sequence Orthology
more info
  
involved_in monoubiquitinated protein deubiquitination ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in negative regulation of DNA-templated transcription ISO
Inferred from Sequence Orthology
more info
  
involved_in negative regulation of DNA-templated transcription ISS
Inferred from Sequence or Structural Similarity
more info
 PubMed 
involved_in negative regulation of G2/M transition of mitotic cell cycle ISO
Inferred from Sequence Orthology
more info
  
involved_in negative regulation of G2/M transition of mitotic cell cycle ISS
Inferred from Sequence or Structural Similarity
more info
 PubMed 
involved_in negative regulation of apoptotic process ISO
Inferred from Sequence Orthology
more info
  
involved_in negative regulation of cysteine-type endopeptidase activity involved in apoptotic process ISO
Inferred from Sequence Orthology
more info
  
involved_in negative regulation of cysteine-type endopeptidase activity involved in apoptotic process ISS
Inferred from Sequence or Structural Similarity
more info
 PubMed 
acts_upstream_of_or_within negative regulation of intrinsic apoptotic signaling pathway in response to DNA damage IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in positive regulation of canonical Wnt signaling pathway IEA
Inferred from Electronic Annotation
more info
  
involved_in positive regulation of canonical Wnt signaling pathway ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of cell growth ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of cell growth ISS
Inferred from Sequence or Structural Similarity
more info
 PubMed 
involved_in proteolysis IEA
Inferred from Electronic Annotation
more info
  
involved_in regulation of protein stability IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in response to xenobiotic stimulus ISO
Inferred from Sequence Orthology
more info
  
involved_in response to xenobiotic stimulus ISS
Inferred from Sequence or Structural Similarity
more info
 PubMed 
Component Evidence Code Pubs
part_of SCF ubiquitin ligase complex ISO
Inferred from Sequence Orthology
more info
  
part_of SCF ubiquitin ligase complex ISS
Inferred from Sequence or Structural Similarity
more info
 PubMed 
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in cytoplasm ISS
Inferred from Sequence or Structural Similarity
more info
  
is_active_in cytosol IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  
is_active_in nucleus ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
ubiquitin carboxyl-terminal hydrolase 47
Names
deubiquitinating enzyme 47
ubiquitin specific protease 47
ubiquitin thioesterase 47
ubiquitin thiolesterase 47
ubiquitin-specific-processing protease 47
NP_001344881.1
NP_001390423.1
NP_598519.2
NP_796223.2

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_001357952.2 → NP_001344881.1  ubiquitin carboxyl-terminal hydrolase 47 isoform 3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) encodes isoform 3. Variants 1 and 3 encode protein isoforms of identical length but with distinct amino acid sequences.
    Source sequence(s)
    AC122343
    Consensus CDS
    CCDS90312.1
    UniProtKB/TrEMBL
    A0A1L1SV73
    Related
    ENSMUSP00000151051.2, ENSMUST00000215510.2
    Conserved Domains (1) summary
    cd02659
    Location:166 → 566
    peptidase_C19C; A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl ...

  2. NM_001403494.1 → NP_001390423.1  ubiquitin carboxyl-terminal hydrolase 47 isoform 4

    Status: VALIDATED

    Source sequence(s)
    AC122343

  3. NM_133758.4 → NP_598519.2  ubiquitin carboxyl-terminal hydrolase 47 isoform 2

    See identical proteins and their annotated locations for NP_598519.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an in-frame exon in the 5' coding region, compared to variant 1, which results in a shorter isoform (2), compared to isoform 1.
    Source sequence(s)
    AC122343
    Consensus CDS
    CCDS40089.1
    UniProtKB/Swiss-Prot
    Q8BY87
    Related
    ENSMUSP00000102264.3, ENSMUST00000106653.4
    Conserved Domains (2) summary
    cd02659
    Location:166 → 546
    peptidase_C19C; A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl ...
    pfam00443
    Location:167 → 541
    UCH; Ubiquitin carboxyl-terminal hydrolase

  4. NM_177249.4 → NP_796223.2  ubiquitin carboxyl-terminal hydrolase 47 isoform 1

    See identical proteins and their annotated locations for NP_796223.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes isoform 1. Variants 1 and 3 encode protein isoforms of identical length but with distinct amino acid sequences.
    Source sequence(s)
    AC122343
    Consensus CDS
    CCDS85384.1
    UniProtKB/Swiss-Prot
    Q32NY0, Q5EBP2, Q6KAR9, Q80V06, Q8BHU1, Q8BI15, Q8BI16, Q8BUW4, Q8BY87, Q91X25
    Related
    ENSMUSP00000147619.2, ENSMUST00000210309.2
    Conserved Domains (2) summary
    cd02659
    Location:186 → 566
    peptidase_C19C; A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl ...
    pfam00443
    Location:187 → 561
    UCH; Ubiquitin carboxyl-terminal hydrolase

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000073.7 Reference GRCm39 C57BL/6J

    Range
    111622692..111710591
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8BY87.2 GenPept UniProtKB/Swiss-Prot:Q8BY87

Gene LinkOut

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