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    Trim13 tripartite motif-containing 13 [ Mus musculus (house mouse) ]

    Gene ID: 66597, updated on 22-Aug-2021

    Summary

    Official Symbol
    Trim13provided by MGI
    Official Full Name
    tripartite motif-containing 13provided by MGI
    Primary source
    MGI:MGI:1913847
    See related
    Ensembl:ENSMUSG00000035235
    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
    Rf; CAR; LEU; RNF; LEU5; Rfp2; RNF77; 3110001L12Rik
    Expression
    Broad expression in CNS E14 (RPKM 9.7), CNS E18 (RPKM 9.1) and 21 other tissues See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    See Trim13 in Genome Data Viewer
    Location:
    14; 14 D1
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    109 current GRCm39 (GCF_000001635.27) 14 NC_000080.7 (61835675..61847736)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 14 NC_000080.6 (61598226..61610287)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 14 NC_000080.5 (62217063..62224783)

    Chromosome 14 - NC_000080.7Genomic Context describing neighboring genes Neighboring gene SPRY domain containing 7 Neighboring gene vomeronasal 1 receptor, pseudogene 136 Neighboring gene proteasome (prosome, macropain) subunit, alpha type 2 pseudogene Neighboring gene deleted in lymphocytic leukemia, 2 Neighboring gene potassium channel regulator Neighboring gene microRNA 16-1 Neighboring gene microRNA 15a

    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

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

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

    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 transcription coactivator activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables transferase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables ubiquitin protein ligase activity IBA
    Inferred from Biological aspect of Ancestor
    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
    acts_upstream_of_or_within immune system process IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in innate immune response IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in positive regulation of I-kappaB kinase/NF-kappaB signaling IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in positive regulation of NF-kappaB transcription factor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in positive regulation of macroautophagy IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in protein ubiquitination IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in ubiquitin-dependent ERAD pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in endoplasmic reticulum IEA
    Inferred from Electronic Annotation
    more info
     
    located_in endoplasmic reticulum membrane ISO
    Inferred from Sequence Orthology
    more info
     
    located_in integral component of membrane IEA
    Inferred from Electronic Annotation
    more info
     
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
     
    located_in perinuclear endoplasmic reticulum ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    E3 ubiquitin-protein ligase TRIM13
    Names
    RING-type E3 ubiquitin transferase TRIM13
    putative tumor suppressor RFP2
    ret finger protein 2
    tripartite motif protein 13
    tripartite motif-containing protein 13
    NP_001157692.1
    NP_075722.1
    XP_006519455.1

    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_001164220.1NP_001157692.1  E3 ubiquitin-protein ligase TRIM13

      See identical proteins and their annotated locations for NP_001157692.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript. Both variants 1 and 2 encode the same protein.
      Source sequence(s)
      AF220129, AK017850, AK162129, BE136192
      Consensus CDS
      CCDS27186.1
      UniProtKB/Swiss-Prot
      Q9CYB0
      UniProtKB/TrEMBL
      Q3TSD2
      Related
      ENSMUSP00000128509.2, ENSMUST00000165015.9
      Conserved Domains (2) summary
      cd16762
      Location:561
      RING-HC_TRIM13_C-V; RING finger, HC subclass, found in tripartite motif-containing protein 13 (TRIM13) and similar proteins
      cd19767
      Location:92133
      Bbox2_TRIM13_C-XI; B-box-type 2 zinc finger found in tripartite motif-containing protein 13 (TRIM13) and similar proteins
    2. NM_023233.3NP_075722.1  E3 ubiquitin-protein ligase TRIM13

      See identical proteins and their annotated locations for NP_075722.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) represents use of an alternate promoter and 5' UTR, compared to variant 1. Both variants 1 and 2 encode the same protein.
      Source sequence(s)
      AK013959, BE136192, BM933374
      Consensus CDS
      CCDS27186.1
      UniProtKB/Swiss-Prot
      Q9CYB0
      Related
      ENSMUSP00000045009.7, ENSMUST00000039562.8
      Conserved Domains (2) summary
      cd16762
      Location:561
      RING-HC_TRIM13_C-V; RING finger, HC subclass, found in tripartite motif-containing protein 13 (TRIM13) and similar proteins
      cd19767
      Location:92133
      Bbox2_TRIM13_C-XI; B-box-type 2 zinc finger found in tripartite motif-containing protein 13 (TRIM13) and similar proteins

    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_000080.7 Reference GRCm39 C57BL/6J

      Range
      61835675..61847736
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006519392.3XP_006519455.1  E3 ubiquitin-protein ligase TRIM13 isoform X1

      See identical proteins and their annotated locations for XP_006519455.1

      UniProtKB/Swiss-Prot
      Q9CYB0
      Conserved Domains (2) summary
      cd16762
      Location:561
      RING-HC_TRIM13_C-V; RING finger, HC subclass, found in tripartite motif-containing protein 13 (TRIM13) and similar proteins
      cd19767
      Location:92133
      Bbox2_TRIM13_C-XI; B-box-type 2 zinc finger found in tripartite motif-containing protein 13 (TRIM13) and similar proteins
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