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    Usp9y ubiquitin specific peptidase 9, Y-linked [ Rattus norvegicus (Norway rat) ]

    Gene ID: 103694559, updated on 2-Nov-2024

    Summary

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    Symbol
    Usp9yprovided by RGD
    Full Name
    ubiquitin specific peptidase 9, Y-linkedprovided by RGD
    Primary source
    RGD:9087771
    See related
    EnsemblRapid:ENSRNOG00000058664 AllianceGenome:RGD:9087771
    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 and proteolysis. Human ortholog(s) of this gene implicated in Y-linked spermatogenic failure 2. Orthologous to human USP9Y (ubiquitin specific peptidase 9 Y-linked). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Restricted expression toward (RPKM 63.0) See more
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    Genomic context

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    See Usp9y in Genome Data Viewer
    Location:
    Yq11
    Exon count:
    46
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) Y NC_086040.1 (1231079..1375897, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) Y NC_051357.1 (1156135..1300965, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) Y NC_024475.1 (1260512..1403417, complement)

    Chromosome Y - NC_086040.1Genomic Context describing neighboring genes Neighboring gene ubiquitin-conjugating enzyme E2 Q2 pseudogene Neighboring gene ubiquitously transcribed tetratricopeptide repeat containing, Y-linked Neighboring gene U6 spliceosomal RNA Neighboring gene DEAD box helicase 3, Y-linked Neighboring gene transmembrane protein 106B pseudogene Neighboring gene ribosome biogenesis regulatory protein homolog

    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 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. Mammalian Y chromosomes retain widely expressed dosage-sensitive regulators. Bellott DW, et al. Nature, 2014 Apr 24. PMID 24759411, Free PMC Article
    2. Origins and functional evolution of Y chromosomes across mammals. Cortez D, et al. Nature, 2014 Apr 24. PMID 24759410
    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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    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables cysteine-type deubiquitinase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in protein deubiquitination IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in proteolysis IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    ubiquitin specific peptidase 9, Y-linked
    Names
    probable ubiquitin carboxyl-terminal hydrolase FAF-X

    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_001329902.1 → NP_001316831.1  ubiquitin specific peptidase 9, Y-linked

      Status: PROVISIONAL

      Source sequence(s)
      JF827152
      UniProtKB/TrEMBL
      A0A1B0GWT2, G4XKZ2
      Conserved Domains (2) summary
      cd02659
      Location:1554 → 1957
      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:1556 → 1952
      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_086040.1 Reference GRCr8

      Range
      1231079..1375897 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039100658.2 → XP_038956586.1  ubiquitin specific peptidase 9, Y-linked isoform X2

      UniProtKB/TrEMBL
      A0A1B0GWT2
      Related
      ENSRNOP00000076011.3, ENSRNOT00000092901.3
      Conserved Domains (3) summary
      cd02659
      Location:1545 → 1948
      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 ...
      pfam12030
      Location:2085 → 2467
      DUF3517; Domain of unknown function (DUF3517)
      cl28922
      Location:872 → 955
      Ubiquitin_like_fold; Beta-grasp ubiquitin-like fold

    2. XM_063280594.1 → XP_063136664.1  ubiquitin specific peptidase 9, Y-linked isoform X2

    3. XM_039100657.2 → XP_038956585.1  ubiquitin specific peptidase 9, Y-linked isoform X1

      UniProtKB/TrEMBL
      A0A1B0GWT2
      Conserved Domains (3) summary
      cd02659
      Location:1554 → 1957
      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 ...
      pfam12030
      Location:2094 → 2476
      DUF3517; Domain of unknown function (DUF3517)
      cl28922
      Location:881 → 964
      Ubiquitin_like_fold; Beta-grasp ubiquitin-like fold
    Nucleotide Protein Strain
    Heading Accession and Version

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