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

Gene ID: 103694559, updated on 29-Feb-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
Ensembl: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 thiol-dependent deubiquitinase. Predicted to be involved in protein deubiquitination and ubiquitin-dependent protein catabolic process. 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, Apr 2022]
Expression
Restricted expression toward (RPKM 63.0) See more
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Genomic context

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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
  • 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 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
    Related
    ENSRNOP00000076011.2, ENSRNOT00000092901.2
    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
    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
    Related
    ENSRNOP00000071193.2
    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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