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Usp38 ubiquitin specific peptidase 38 [ Rattus norvegicus (Norway rat) ]

Gene ID: 307764, updated on 2-Nov-2024

Summary

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Official Symbol
Usp38provided by RGD
Official Full Name
ubiquitin specific peptidase 38provided by RGD
Primary source
RGD:1311974
See related
EnsemblRapid:ENSRNOG00000026880 AllianceGenome:RGD:1311974
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 enable cysteine-type deubiquitinase activity and protein sequestering activity. Predicted to be involved in several processes, including negative regulation of innate immune response; negative regulation of proteasomal ubiquitin-dependent protein catabolic process; and protein K33-linked deubiquitination. Predicted to be active in cytosol and nucleus. Orthologous to human USP38 (ubiquitin specific peptidase 38). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Spleen (RPKM 112.1), Thymus (RPKM 99.2) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Usp38 in Genome Data Viewer
Location:
19q11
Exon count:
12
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 19 NC_086037.1 (43910459..43941875)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 19 NC_051354.1 (27006046..27037449)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 19 NC_005118.4 (30668258..30699852)

Chromosome 19 - NC_086037.1Genomic Context describing neighboring genes Neighboring gene inositol polyphosphate-4-phosphatase type II B Neighboring gene U2 spliceosomal RNA Neighboring gene ribosomal protein S15, pseudogene 8 Neighboring gene uncharacterized LOC120098604 Neighboring gene ribosomal protein L35, pseudogene 11 Neighboring gene GRB2-associated binding protein 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 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. Cloning and enzymatic analysis of 22 novel human ubiquitin-specific proteases. Quesada V, et al. Biochem Biophys Res Commun, 2004 Jan 30. PMID 14715245
  2. 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 ISO
Inferred from Sequence Orthology
more info
  
enables protein sequestering activity ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in negative regulation of innate immune response ISO
Inferred from Sequence Orthology
more info
  
involved_in negative regulation of proteasomal ubiquitin-dependent protein catabolic process ISO
Inferred from Sequence Orthology
more info
  
involved_in protein K33-linked deubiquitination IEA
Inferred from Electronic Annotation
more info
  
involved_in protein K33-linked deubiquitination ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of protein stability IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in ubiquitin-dependent protein catabolic process IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
is_active_in cytoplasm ISO
Inferred from Sequence Orthology
more info
  
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 38
Names
ubiquitin specific protease 38
NP_001100888.2
XP_038953655.1
XP_038953656.1
XP_063134089.1

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_001107418.2 → NP_001100888.2  ubiquitin carboxyl-terminal hydrolase 38

    Status: VALIDATED

    Source sequence(s)
    AI112444, JAXUCZ010000019
    UniProtKB/TrEMBL
    D3Z8K5
    Related
    ENSRNOP00000031071.4, ENSRNOT00000035084.8
    Conserved Domains (1) summary
    cd02664
    Location:446 → 946
    Peptidase_C19H; 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 ...

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_086037.1 Reference GRCr8

    Range
    43910459..43941875
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039097728.2 → XP_038953656.1  ubiquitin carboxyl-terminal hydrolase 38 isoform X3

    UniProtKB/TrEMBL
    A6IYG8
    Conserved Domains (2) summary
    COG5077
    Location:390 → 492
    COG5077; Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
    cl02553
    Location:446 → 499
    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 ...

  2. XM_063278019.1 → XP_063134089.1  ubiquitin carboxyl-terminal hydrolase 38 isoform X1

  3. XM_039097727.2 → XP_038953655.1  ubiquitin carboxyl-terminal hydrolase 38 isoform X2

    Conserved Domains (2) summary
    cd02664
    Location:1 → 462
    Peptidase_C19H; 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 ...
    pfam13423
    Location:46 → 141
    UCH_1; Ubiquitin carboxyl-terminal hydrolase

RNA

  1. XR_005496654.2 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version

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