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

    Gene ID: 316211, updated on 2-Nov-2024

    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, Nov 2024]
    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 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 IEA
    Inferred from Electronic Annotation
    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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