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    Usp53 ubiquitin specific peptidase 53 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 295425, updated on 27-Dec-2024

    Summary

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    Official Symbol
    Usp53provided by RGD
    Official Full Name
    ubiquitin specific peptidase 53provided by RGD
    Primary source
    RGD:1306615
    See related
    EnsemblRapid:ENSRNOG00000014660 AllianceGenome:RGD:1306615
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to be involved in response to auditory stimulus and sensory perception of sound. Predicted to act upstream of or within action potential; epithelial cell apoptotic process; and outer hair cell apoptotic process. Predicted to be located in bicellular tight junction. Predicted to be active in cell-cell junction. Human ortholog(s) of this gene implicated in progressive familial intrahepatic cholestasis. Orthologous to human USP53 (ubiquitin specific peptidase 53). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Kidney (RPKM 94.4), Heart (RPKM 87.5) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Usp53 in Genome Data Viewer
    Location:
    2q42
    Exon count:
    19
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 2 NC_086020.1 (213744106..213805619, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 2 NC_051337.1 (211059512..211120942, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 2 NC_005101.4 (227098795..227160385, complement)

    Chromosome 2 - NC_086020.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102550474 Neighboring gene fatty acid binding protein 2 Neighboring gene allregulin Neighboring gene myozenin 2 Neighboring gene adhesion molecule with Ig like domain 1, pseudogene 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. Ubiquitin‑specific peptidase 53 promotes chronic constriction injury‑induced neuropathic pain through the RhoA/ROCK pathway. Li Q, et al. Acta Neurobiol Exp (Wars), 2022. PMID 36748970
    2. Progressive Hearing Loss in Mice Carrying a Mutation in Usp53. Kazmierczak M, et al. J Neurosci, 2015 Nov 25. PMID 26609154, Free PMC Article
    3. A forward genetics screen in mice identifies recessive deafness traits and reveals that pejvakin is essential for outer hair cell function. Schwander M, et al. J Neurosci, 2007 Feb 28. PMID 17329413, Free PMC Article
    4. Cloning and enzymatic analysis of 22 novel human ubiquitin-specific proteases. Quesada V, et al. Biochem Biophys Res Commun, 2004 Jan 30. PMID 14715245
    5. 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

    What's a GeneRIF?
    1. Ubiquitinspecific peptidase 53 promotes chronic constriction injuryinduced neuropathic pain through the RhoA/ROCK pathway.
      Title: Ubiquitin‑specific peptidase 53 promotes chronic constriction injury‑induced neuropathic pain through the RhoA/ROCK pathway.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    NOT enables cysteine-type deubiquitinase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    NOT enables deubiquitinase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within action potential ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within epithelial cell apoptotic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within neuron apoptotic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within outer hair cell apoptotic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    NOT acts_upstream_of_or_within protein deubiquitination ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in response to auditory stimulus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within response to auditory stimulus ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in sensory perception of sound IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within sensory perception of sound ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in bicellular tight junction ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in cell-cell junction IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cell-cell junction ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    inactive ubiquitin carboxyl-terminal hydrolase 53
    Names
    ubiquitin specific protease 53

    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_001389268.1 → NP_001376197.1  inactive ubiquitin carboxyl-terminal hydrolase 53

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000002
      UniProtKB/TrEMBL
      D3ZYY9
      Related
      ENSRNOP00000063338.2, ENSRNOT00000066581.3
      Conserved Domains (1) summary
      pfam00443
      Location:30 → 348
      UCH; Ubiquitin carboxyl-terminal hydrolase

    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_086020.1 Reference GRCr8

      Range
      213744106..213805619 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017590782.3 → XP_017446271.1  inactive ubiquitin carboxyl-terminal hydrolase 53 isoform X1

      UniProtKB/TrEMBL
      D3ZYY9
      Conserved Domains (1) summary
      pfam00443
      Location:30 → 348
      UCH; Ubiquitin carboxyl-terminal hydrolase

    2. XM_063281661.1 → XP_063137731.1  inactive ubiquitin carboxyl-terminal hydrolase 53 isoform X2

    3. XM_039102091.2 → XP_038958019.1  inactive ubiquitin carboxyl-terminal hydrolase 53 isoform X3

      Conserved Domains (1) summary
      pfam00443
      Location:30 → 348
      UCH; Ubiquitin carboxyl-terminal hydrolase

    RNA

    1. XR_010063594.1 RNA Sequence

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001106468.1: Suppressed sequence

      Description
      NM_001106468.1: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.
    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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