Format

Send to:

Choose Destination
    • Showing Current items.

    Usp39 ubiquitin specific peptidase 39 [ Mus musculus (house mouse) ]

    Gene ID: 28035, updated on 23-Jun-2021

    Summary

    Official Symbol
    Usp39provided by MGI
    Official Full Name
    ubiquitin specific peptidase 39provided by MGI
    Primary source
    MGI:MGI:107622
    See related
    Ensembl:ENSMUSG00000056305
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    SA; SAD1; CGI-2; CGI-21; AA408960; AI894154; D6Wsu157; D6Wsu157e
    Expression
    Ubiquitous expression in placenta adult (RPKM 20.2), liver E14 (RPKM 19.8) and 28 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Usp39 in Genome Data Viewer
    Location:
    6 C1; 6 32.27 cM
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    109 current GRCm39 (GCF_000001635.27) 6 NC_000072.7 (72295659..72322190, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 6 NC_000072.6 (72318676..72345208, complement)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 6 NC_000072.5 (72268670..72295169, complement)

    Chromosome 6 - NC_000072.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 30782 Neighboring gene surfactant associated protein B Neighboring gene RIKEN cDNA 0610030E20 gene Neighboring gene transmembrane protein 150A Neighboring gene ring finger protein 181

    Genomic regions, transcripts, and products

    Expression

    • 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

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Targeted (1) 

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables thiol-dependent deubiquitinase IEA
    Inferred from Electronic Annotation
    more info
     
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    acts_upstream_of_or_within RNA splicing IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within cell cycle IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within cell division IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within mRNA processing IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in mRNA processing IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in mRNA splicing, via spliceosome ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in protein deubiquitination IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in spliceosomal complex assembly ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    part_of U4/U6 x U5 tri-snRNP complex ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    part_of spliceosomal complex IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    Preferred Names
    U4/U6.U5 tri-snRNP-associated protein 2
    Names
    SnRNP assembly defective 1 homolog
    inactive ubiquitin-specific peptidase 39
    ubiquitin specific protease 39

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_138592.4NP_613058.1  U4/U6.U5 tri-snRNP-associated protein 2

      See identical proteins and their annotated locations for NP_613058.1

      Status: PROVISIONAL

      Source sequence(s)
      AC116115
      Consensus CDS
      CCDS20238.1
      UniProtKB/Swiss-Prot
      Q3TIX9
      Related
      ENSMUSP00000064515.4, ENSMUST00000070345.5
      Conserved Domains (3) summary
      cd02669
      Location:105552
      Peptidase_C19M; 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:223551
      UCH; Ubiquitin carboxyl-terminal hydrolase
      pfam12300
      Location:393
      DUF3628; Protein of unknown function (DUF3628)

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000072.7 Reference GRCm39 C57BL/6J

      Range
      72295659..72322190 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006506216.5XP_006506279.1  U4/U6.U5 tri-snRNP-associated protein 2 isoform X2

      See identical proteins and their annotated locations for XP_006506279.1

      Conserved Domains (2) summary
      PRK04537
      Location:393
      PRK04537; ATP-dependent RNA helicase RhlB; Provisional
      cd02669
      Location:105550
      Peptidase_C19M; 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. XM_017321609.3XP_017177098.1  U4/U6.U5 tri-snRNP-associated protein 2 isoform X1

      Conserved Domains (1) summary
      cl02553
      Location:1284
      Peptidase_C19; Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyse bonds involving the carboxyl group of the C-terminal Gly ...
    Support Center