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

    Gene ID: 66597, updated on 5-Aug-2018

    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
    CAR; 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

    Genomic context

    See Trim13 in Genome Data Viewer
    Location:
    14; 14 D1
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    106 current GRCm38.p4 (GCF_000001635.24) 14 NC_000080.6 (61598226..61605946)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 14 NC_000080.5 (62217063..62224783)

    Chromosome 14 - NC_000080.6Genomic 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

    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 FunctionsWhat's a GeneRIF?

    Variation

    Alleles

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

    Pathways from BioSystems

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    transferase activity IEA
    Inferred from Electronic Annotation
    more info
     
    ubiquitin-protein transferase activity ISO
    Inferred from Sequence Orthology
    more info
     
    zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    immune system process IEA
    Inferred from Electronic Annotation
    more info
     
    innate immune response ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of viral release from host cell ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of viral transcription ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of I-kappaB kinase/NF-kappaB signaling ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of NF-kappaB transcription factor activity ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of cell death ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of macroautophagy ISO
    Inferred from Sequence Orthology
    more info
     
    proteasome-mediated ubiquitin-dependent protein catabolic process ISO
    Inferred from Sequence Orthology
    more info
     
    protein autoubiquitination ISO
    Inferred from Sequence Orthology
    more info
     
    ubiquitin-dependent ERAD pathway ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    cytoplasm IDA
    Inferred from Direct Assay
    more info
    PubMed 
    cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    endoplasmic reticulum IEA
    Inferred from Electronic Annotation
    more info
     
    endoplasmic reticulum membrane ISO
    Inferred from Sequence Orthology
    more info
     
    integral component of membrane IEA
    Inferred from Electronic Annotation
    more info
     
    intracellular IEA
    Inferred from Electronic Annotation
    more info
     
    membrane IEA
    Inferred from Electronic Annotation
    more info
     
    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)

    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
      ENSMUSP00000128509.1, ENSMUST00000165015.8
      Conserved Domains (2) summary
      smart00336
      Location:90131
      BBOX; B-Box-type zinc finger
      cd00162
      Location:961
      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 ...
    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
      ENSMUSP00000045009.6, ENSMUST00000039562.7
      Conserved Domains (2) summary
      smart00336
      Location:90131
      BBOX; B-Box-type zinc finger
      cd00162
      Location:961
      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 ...

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 106

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

    Reference GRCm38.p4 C57BL/6J

    Genomic

    1. NC_000080.6 Reference GRCm38.p4 C57BL/6J

      Range
      61598226..61605946
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006519392.2XP_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
      smart00336
      Location:90131
      BBOX; B-Box-type zinc finger
      cd00162
      Location:961
      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 ...
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