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Usp49 ubiquitin specific peptidase 49 [ Rattus norvegicus (Norway rat) ]

Gene ID: 316211, updated on 4-Jan-2025

Summary

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Official Symbol
Usp49provided by RGD
Official Full Name
ubiquitin specific peptidase 49provided by RGD
Primary source
RGD:1310513
See related
EnsemblRapid:ENSRNOG00000013866 AllianceGenome:RGD:1310513
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
Also known as
RGD1310513
Summary
Predicted to enable histone binding activity and peptidase activity. Predicted to be involved in mRNA splicing, via spliceosome; negative regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction; and protein deubiquitination. Predicted to be active in cytoplasm. Orthologous to human USP49 (ubiquitin specific peptidase 49). [provided by Alliance of Genome Resources, Jan 2025]
Expression
Biased expression in Testes (RPKM 27.8), Adrenal (RPKM 24.4) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Usp49 in Genome Data Viewer
Location:
9q12
Exon count:
10
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 9 NC_086027.1 (20803177..20867681, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 9 NC_051344.1 (13305640..13366132, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 9 NC_005108.4 (15314875..15375365, complement)

Chromosome 9 - NC_086027.1Genomic Context describing neighboring genes Neighboring gene prickle planar cell polarity protein 4 Neighboring gene fibroblast growth factor receptor substrate 3 Neighboring gene translocase of outer mitochondrial membrane 6 Neighboring gene cAMP-dependent protein kinase inhibitor gamma-like Neighboring gene mediator complex subunit 20 Neighboring gene bystin-like Neighboring gene cyclin D3 Neighboring gene uncharacterized LOC134480552

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. USP49 deubiquitinates histone H2B and regulates cotranscriptional pre-mRNA splicing. Zhang Z, et al. Genes Dev, 2013 Jul 15. PMID 23824326, Free PMC Article
  2. Cloning and enzymatic analysis of 22 novel human ubiquitin-specific proteases. Quesada V, et al. Biochem Biophys Res Commun, 2004 Jan 30. PMID 14715245
  3. Gene and alternative splicing annotation with AIR. Florea L, et al. Genome Res, 2005 Jan. PMID 15632090, Free PMC Article
  4. 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
  
enables cysteine-type endopeptidase activity ISO
Inferred from Sequence Orthology
more info
  
enables histone H2B deubiquitinase activity ISO
Inferred from Sequence Orthology
more info
  
enables histone binding ISO
Inferred from Sequence Orthology
more info
  
enables zinc ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in chromatin remodeling IEA
Inferred from Electronic Annotation
more info
  
involved_in mRNA splicing, via spliceosome ISO
Inferred from Sequence Orthology
more info
  
involved_in negative regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction ISO
Inferred from Sequence Orthology
more info
  
involved_in protein deubiquitination ISO
Inferred from Sequence Orthology
more info
  
involved_in proteolysis IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
ubiquitin carboxyl-terminal hydrolase 49
Names
ubiquitin thioesterase 49
NP_001129942.1
XP_006244497.1
XP_017451899.1
XP_017451900.1
XP_038939413.1
XP_063123153.1

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_001136470.1 → NP_001129942.1  ubiquitin carboxyl-terminal hydrolase 49

    See identical proteins and their annotated locations for NP_001129942.1

    Status: PROVISIONAL

    Source sequence(s)
    JAXUCZ010000009
    UniProtKB/TrEMBL
    D3ZJ49
    Related
    ENSRNOP00000018550.5, ENSRNOT00000018550.7
    Conserved Domains (2) summary
    pfam00443
    Location:250 → 651
    UCH; Ubiquitin carboxyl-terminal hydrolase
    pfam02148
    Location:26 → 87
    zf-UBP; Zn-finger in ubiquitin-hydrolases and other protein

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_086027.1 Reference GRCr8

    Range
    20803177..20867681 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063267083.1 → XP_063123153.1  ubiquitin carboxyl-terminal hydrolase 49 isoform X2

  2. XM_017596410.3 → XP_017451899.1  ubiquitin carboxyl-terminal hydrolase 49 isoform X1

    UniProtKB/TrEMBL
    D3ZJ49
    Conserved Domains (2) summary
    pfam00443
    Location:250 → 651
    UCH; Ubiquitin carboxyl-terminal hydrolase
    pfam02148
    Location:26 → 87
    zf-UBP; Zn-finger in ubiquitin-hydrolases and other protein

  3. XM_039083485.2 → XP_038939413.1  ubiquitin carboxyl-terminal hydrolase 49 isoform X1

    UniProtKB/TrEMBL
    D3ZJ49
    Conserved Domains (2) summary
    pfam00443
    Location:250 → 651
    UCH; Ubiquitin carboxyl-terminal hydrolase
    pfam02148
    Location:26 → 87
    zf-UBP; Zn-finger in ubiquitin-hydrolases and other protein

  4. XM_017596411.3 → XP_017451900.1  ubiquitin carboxyl-terminal hydrolase 49 isoform X1

    UniProtKB/TrEMBL
    D3ZJ49
    Conserved Domains (2) summary
    pfam00443
    Location:250 → 651
    UCH; Ubiquitin carboxyl-terminal hydrolase
    pfam02148
    Location:26 → 87
    zf-UBP; Zn-finger in ubiquitin-hydrolases and other protein

  5. XM_006244435.5 → XP_006244497.1  ubiquitin carboxyl-terminal hydrolase 49 isoform X1

    See identical proteins and their annotated locations for XP_006244497.1

    UniProtKB/TrEMBL
    D3ZJ49
    Conserved Domains (2) summary
    pfam00443
    Location:250 → 651
    UCH; Ubiquitin carboxyl-terminal hydrolase
    pfam02148
    Location:26 → 87
    zf-UBP; Zn-finger in ubiquitin-hydrolases and other protein
Nucleotide Protein Strain
Heading Accession and Version

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