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

    Gene ID: 74996, updated on 11-Apr-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; cysteine-type endopeptidase activity; and thiol-dependent deubiquitinase. 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, Apr 2022]
    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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    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
    • 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 protease 47 regulates intestinal inflammation through deubiquitination of TRAF6 in epithelial cells. Lei H, et al. Sci China Life Sci, 2022 Aug. PMID 35235149
    2. 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
    3. The ubiquitin-specific protease USP47 is a novel beta-TRCP interactor regulating cell survival. Peschiaroli A, et al. Oncogene, 2010 Mar 4. PMID 19966869, Free PMC Article
    4. Prediction of the coding sequences of mouse homologues of FLJ genes: the complete nucleotide sequences of 110 mouse FLJ-homologous cDnas identified by screening of terminal sequences of cDNA clones randomly sampled from size-fractionated libraries. Okazaki N, et al. DNA Res, 2004 Apr 30. PMID 15449545
    5. Phosphoproteomic analysis of the developing mouse brain. Ballif BA, et al. Mol Cell Proteomics, 2004 Nov. PMID 15345747

    See all (28) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. 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).
    2. Ubiquitin specific peptidase 47 contributes to liver regeneration.
      Title: Ubiquitin specific peptidase 47 contributes to liver regeneration.
    3. 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.
    4. 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)
    • Gene trapped (2) 
    • Targeted (1) 
    • Endonuclease-mediated (3) 

    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 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 peptidase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables deubiquitinase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables hydrolase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables peptidase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in DNA damage response ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within DNA repair IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in base-excision repair ISO
    Inferred from Sequence Orthology
    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 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 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 protein deubiquitination IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within proteolysis IEA
    Inferred from Electronic Annotation
    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
    		  
    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
    		  
    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

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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