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    Usp42 ubiquitin specific peptidase 42 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 288482, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Usp42provided by RGD
    Official Full Name
    ubiquitin specific peptidase 42provided by RGD
    Primary source
    RGD:1305231
    See related
    EnsemblRapid:ENSRNOG00000001059 AllianceGenome:RGD:1305231
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable cysteine-type deubiquitinase activity. Predicted to be involved in protein deubiquitination; regulation of apoptotic process; and regulation of protein stability. Predicted to be active in cytosol and nucleus. Orthologous to human USP42 (ubiquitin specific peptidase 42). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Lung (RPKM 69.9), Adrenal (RPKM 69.1) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Usp42 in Genome Data Viewer
    Location:
    12p11
    Exon count:
    26
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 12 NC_086030.1 (15903110..15954429)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 12 NC_051347.1 (10800864..10840785)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 12 NC_005111.4 (12840131..12878207)

    Chromosome 12 - NC_086030.1Genomic Context describing neighboring genes Neighboring gene eukaryotic translation initiation factor 2 alpha kinase 1 Neighboring gene ankyrin repeat domain 61 Neighboring gene aldolase, fructose-bisphosphate A, pseudogene 3 Neighboring gene uncharacterized LOC134481266 Neighboring gene collagen alpha-1(I) chain-like Neighboring gene cytohesin 3 Neighboring gene small integral membrane protein 10 like 3 Neighboring gene family with sequence similarity 220, member A Neighboring gene Rac family small GTPase 1

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. The expression of Usp42 during embryogenesis and spermatogenesis in mouse. Kim YK, et al. Gene Expr Patterns, 2007 Jan. PMID 16904385
    2. Cloning and enzymatic analysis of 22 novel human ubiquitin-specific proteases. Quesada V, et al. Biochem Biophys Res Commun, 2004 Jan 30. PMID 14715245
    3. 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 RGD

    Function Evidence Code Pubs
    enables cysteine-type deubiquitinase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables cysteine-type deubiquitinase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables cysteine-type deubiquitinase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in cell differentiation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in protein deubiquitination IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in protein deubiquitination ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein deubiquitination ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in proteolysis IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of apoptotic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of protein stability IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in spermatogenesis IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    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
    		  

    General protein information

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    Preferred Names
    ubiquitin carboxyl-terminal hydrolase 42
    Names
    deubiquitinating enzyme 42
    ubiquitin specific protease 42
    ubiquitin thioesterase 42
    ubiquitin thiolesterase 42
    ubiquitin-specific-processing protease 42
    NP_001099379.1
    XP_017453778.1
    XP_063127209.1

    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_001105909.1 → NP_001099379.1  ubiquitin carboxyl-terminal hydrolase 42

      See identical proteins and their annotated locations for NP_001099379.1

      Status: PROVISIONAL

      Source sequence(s)
      CH474012
      UniProtKB/Swiss-Prot
      D3ZU96
      UniProtKB/TrEMBL
      A0A8L2UH81
      Related
      ENSRNOP00000001404.6, ENSRNOT00000001404.7
      Conserved Domains (2) summary
      cd02661
      Location:109 → 409
      Peptidase_C19E; 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 ...
      pfam05109
      Location:423 → 776
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086030.1 Reference GRCr8

      Range
      15903110..15954429
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017598289.3 → XP_017453778.1  ubiquitin carboxyl-terminal hydrolase 42 isoform X1

      UniProtKB/Swiss-Prot
      D3ZU96
      UniProtKB/TrEMBL
      A0A8L2UH81
      Conserved Domains (2) summary
      cd02661
      Location:109 → 409
      Peptidase_C19E; 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 ...
      pfam05109
      Location:423 → 776
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)

    2. XM_063271139.1 → XP_063127209.1  ubiquitin carboxyl-terminal hydrolase 42 isoform X1

      UniProtKB/Swiss-Prot
      D3ZU96
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    D3ZU96.1 GenPept UniProtKB/Swiss-Prot:D3ZU96

    Gene LinkOut

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