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    Trim47 tripartite motif-containing 47 [ Mus musculus (house mouse) ]

    Gene ID: 217333, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Trim47provided by MGI
    Official Full Name
    tripartite motif-containing 47provided by MGI
    Primary source
    MGI:MGI:1917374
    See related
    Ensembl:ENSMUSG00000020773 AllianceGenome:MGI:1917374
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    2210023F24Rik
    Summary
    Enables ubiquitin-protein transferase activity. Involved in protein ubiquitination. Predicted to be located in cytosol. Is expressed in aorta; central nervous system; and genitourinary system. Orthologous to human TRIM47 (tripartite motif containing 47). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Broad expression in stomach adult (RPKM 32.5), ovary adult (RPKM 32.0) and 21 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Trim47 in Genome Data Viewer
    Location:
    11 E2; 11 80.91 cM
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 11 NC_000077.7 (115996576..116001061, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (116105750..116110235, complement)

    Chromosome 11 - NC_000077.7Genomic Context describing neighboring genes Neighboring gene unc-13 homolog D Neighboring gene STARR-positive B cell enhancer ABC_E10732 Neighboring gene CapStarr-seq enhancer MGSCv37_chr11:115939592-115939779 Neighboring gene STARR-positive B cell enhancer ABC_E381 Neighboring gene WW domain binding protein 2 Neighboring gene STARR-positive B cell enhancer ABC_E8471 Neighboring gene STARR-seq mESC enhancer starr_31193 Neighboring gene tripartite motif-containing 65 Neighboring gene STARR-positive B cell enhancer ABC_E4017 Neighboring gene mitochondrial ribosomal protein L38

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    Related articles in PubMed

    1. TRIM47 is a novel endothelial activation factor that aggravates lipopolysaccharide-induced acute lung injury in mice via K63-linked ubiquitination of TRAF2. Qian Y, et al. Signal Transduct Target Ther, 2022 May 6. PMID 35513381, Free PMC Article
    2. Sequential ubiquitination of NLRP3 by RNF125 and Cbl-b limits inflammasome activation and endotoxemia. Tang J, et al. J Exp Med, 2020 Apr 6. PMID 31999304, Free PMC Article
    3. Expression of LIM-homeodomain transcription factors in the developing and mature mouse retina. Balasubramanian R, et al. Gene Expr Patterns, 2014 Jan. PMID 24333658, Free PMC Article
    4. The deubiquitinating enzyme cylindromatosis mitigates nonalcoholic steatohepatitis. Ji YX, et al. Nat Med, 2018 Feb. PMID 29291351
    5. Functional and Evolutionary Diversification of Otx2 and Crx in Vertebrate Retinal Photoreceptor and Bipolar Cell Development. Yamamoto H, et al. Cell Rep, 2020 Jan 21. PMID 31968244

    See all (26) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. TRIM47 is a novel endothelial activation factor that aggravates lipopolysaccharide-induced acute lung injury in mice via K63-linked ubiquitination of TRAF2.
      Title: TRIM47 is a novel endothelial activation factor that aggravates lipopolysaccharide-induced acute lung injury in mice via K63-linked ubiquitination of TRAF2.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (4) 

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables ubiquitin protein ligase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables ubiquitin-protein transferase activity IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    enables ubiquitin-protein transferase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in protein ubiquitination IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in protein ubiquitination IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in protein ubiquitination ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of postsynapse assembly IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in glutamatergic synapse IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in postsynapse IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    E3 ubiquitin-protein ligase TRIM47
    Names
    tripartite motif protein 47
    tripartite motif-containing protein 47
    NP_001192010.1
    NP_766158.3

    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_001205081.1 → NP_001192010.1  E3 ubiquitin-protein ligase TRIM47 isoform 1

      See identical proteins and their annotated locations for NP_001192010.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      AL607108, BC145059, BG065693
      Consensus CDS
      CCDS56823.1
      UniProtKB/TrEMBL
      Q497Z1
      Related
      ENSMUSP00000021120.6, ENSMUST00000021120.6
      Conserved Domains (3) summary
      cd00162
      Location:9 → 61
      RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...
      pfam00643
      Location:182 → 221
      zf-B_box; B-box zinc finger
      cd15808
      Location:425 → 630
      SPRY_PRY_TRIM47; PRY/SPRY domain in tripartite motif-containing protein 47 (TRIM47), also known as RING finger protein 100 (RNF100) or Gene overexpressed in astrocytoma protein (GOA)

    2. NM_172570.5 → NP_766158.3  E3 ubiquitin-protein ligase TRIM47 isoform 2

      See identical proteins and their annotated locations for NP_766158.3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate in-frame splice site in the 3' coding region, compared to variant 1. This results in a shorter protein (isoform 2), compared to isoform 1.
      Source sequence(s)
      AL607108, BC100317, BG065693
      Consensus CDS
      CCDS56822.1
      UniProtKB/Swiss-Prot
      A2A862, Q6P249, Q811J7, Q8BVZ8, Q8C0E3, Q8R1K0, Q8R3Y1
      UniProtKB/TrEMBL
      Q497Z1
      Related
      ENSMUSP00000102049.2, ENSMUST00000106441.8
      Conserved Domains (3) summary
      cd00162
      Location:9 → 61
      RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...
      pfam00643
      Location:182 → 221
      zf-B_box; B-box zinc finger
      cd15808
      Location:424 → 629
      SPRY_PRY_TRIM47; PRY/SPRY domain in tripartite motif-containing protein 47 (TRIM47), also known as RING finger protein 100 (RNF100) or Gene overexpressed in astrocytoma protein (GOA)

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000077.7 Reference GRCm39 C57BL/6J

      Range
      115996576..116001061 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8C0E3.2 GenPept UniProtKB/Swiss-Prot:Q8C0E3

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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