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

Gene ID: 66597, updated on 2-Nov-2024

Summary

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Official Symbol
Trim13provided by MGI
Official Full Name
tripartite motif-containing 13provided by MGI
Primary source
MGI:MGI:1913847
See related
Ensembl:ENSMUSG00000035235 AllianceGenome:MGI:1913847
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
Summary
Predicted to enable transcription coactivator activity and ubiquitin protein ligase activity. Predicted to be involved in several processes, including defense response to symbiont; negative regulation of viral transcription; and proteasomal protein catabolic process. Located in cytoplasm. Is expressed in several structures, including central nervous system; dorsal root ganglion; genitourinary system; and thymus. Orthologous to human TRIM13 (tripartite motif containing 13). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Broad expression in CNS E14 (RPKM 9.7), CNS E18 (RPKM 9.1) and 21 other tissues See more
Orthologs
human all
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Genomic context

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See Trim13 in Genome Data Viewer
Location:
14 D1; 14 33.16 cM
Exon count:
5
Annotation release Status Assembly Chr Location
RS_2024_02 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)

Chromosome 14 - NC_000080.7Genomic Context describing neighboring genes Neighboring gene SPRY domain containing 7 Neighboring gene vomeronasal 1 receptor, pseudogene 136 Neighboring gene CapStarr-seq enhancer MGSCv37_chr14:62175814-62175923 Neighboring gene proteasome (prosome, macropain) subunit, alpha type 2 pseudogene Neighboring gene STARR-seq mESC enhancer starr_36882 Neighboring gene STARR-seq mESC enhancer starr_36883 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

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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. Brain-specific deletion of TRIM13 promotes metabolic stress-triggered insulin resistance, glucose intolerance, and neuroinflammation. Qian Y, et al. Biochem Biophys Res Commun, 2020 Jun 18. PMID 32446357
  2. TRIM13 reduces cholesterol efflux and increases oxidized LDL uptake leading to foam cell formation and atherosclerosis. Govatati S, et al. J Biol Chem, 2024 May. PMID 38537695, Free PMC Article
  3. The transmembrane endoplasmic reticulum-associated E3 ubiquitin ligase TRIM13 restrains the pathogenic-DNA-triggered inflammatory response. Li X, et al. Sci Adv, 2022 Jan 28. PMID 35080984, Free PMC Article
  4. Distinct organization of the candidate tumor suppressor gene RFP2 in human and mouse: multiple mRNA isoforms in both species- and human-specific antisense transcript RFP2OS. Baranova A, et al. Gene, 2003 Dec 4. PMID 14636997
  5. Altered DNA methylation of TRIM13 in diabetic nephropathy suppresses mesangial collagen synthesis by promoting ubiquitination of CHOP. Li Y, et al. EBioMedicine, 2020 Jan. PMID 31901873, Free PMC Article

See all (35) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. TRIM13 reduces cholesterol efflux and increases oxidized LDL uptake leading to foam cell formation and atherosclerosis.
    Title: TRIM13 reduces cholesterol efflux and increases oxidized LDL uptake leading to foam cell formation and atherosclerosis.
  2. Repression of TRIM13 by chromatin assembly factor CHAF1B is critical for AML development.
    Title: Repression of TRIM13 by chromatin assembly factor CHAF1B is critical for AML development.
  3. The transmembrane endoplasmic reticulum-associated E3 ubiquitin ligase TRIM13 restrains the pathogenic-DNA-triggered inflammatory response.
    Title: The transmembrane endoplasmic reticulum-associated E3 ubiquitin ligase TRIM13 restrains the pathogenic-DNA-triggered inflammatory response.
  4. Brain-specific deletion of TRIM13 promotes metabolic stress-triggered insulin resistance, glucose intolerance, and neuroinflammation.
    Title: Brain-specific deletion of TRIM13 promotes metabolic stress-triggered insulin resistance, glucose intolerance, and neuroinflammation.
  5. Altered DNA methylation of TRIM13 in diabetic nephropathy suppresses mesangial collagen synthesis by promoting ubiquitination of CHOP.
    Title: Altered DNA methylation of TRIM13 in diabetic nephropathy suppresses mesangial collagen synthesis by promoting ubiquitination of CHOP.
  6. these data identify Trim13 as a positive regulator of NF-kappaB activation and suggest that lysine 29-linked polyubiquitination is a specific ubiquitin-linked pattern involved in the control of TLR2 signaling.
    Title: Trim13 Potentiates Toll-Like Receptor 2-Mediated Nuclear Factor κB Activation via K29-Linked Polyubiquitination of Tumor Necrosis Factor Receptor-Associated Factor 6.
  7. TRIM13 interacts with MDA5 and negatively regulates MDA5-mediated type I IFN production.
    Title: TRIM13 is a negative regulator of MDA5-mediated type I interferon production.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables transcription coactivator activity IEA
Inferred from Electronic Annotation
more info
  
enables transcription coactivator activity ISO
Inferred from Sequence Orthology
more info
  
enables ubiquitin protein ligase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables ubiquitin-like protein ligase activity ISO
Inferred from Sequence Orthology
more info
  
enables ubiquitin-like protein ligase activity ISS
Inferred from Sequence or Structural Similarity
more info
  
enables ubiquitin-protein transferase activity IEA
Inferred from Electronic Annotation
more info
  
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 ERAD pathway IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in ERAD pathway ISO
Inferred from Sequence Orthology
more info
  
involved_in ERAD pathway ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in innate immune response IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in innate immune response IEA
Inferred from Electronic Annotation
more info
  
involved_in innate immune response ISO
Inferred from Sequence Orthology
more info
  
involved_in negative regulation of viral transcription IEA
Inferred from Electronic Annotation
more info
  
involved_in negative regulation of viral transcription ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
  
involved_in positive regulation of NF-kappaB transcription factor activity IEA
Inferred from Electronic Annotation
more info
  
involved_in positive regulation of NF-kappaB transcription factor activity ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of canonical NF-kappaB signal transduction IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in positive regulation of canonical NF-kappaB signal transduction IEA
Inferred from Electronic Annotation
more info
  
involved_in positive regulation of canonical NF-kappaB signal transduction ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of macroautophagy IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in positive regulation of macroautophagy ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of macroautophagy ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in proteasome-mediated ubiquitin-dependent protein catabolic process ISO
Inferred from Sequence Orthology
more info
  
involved_in proteasome-mediated ubiquitin-dependent protein catabolic process ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in protein autoubiquitination ISO
Inferred from Sequence Orthology
more info
  
involved_in protein autoubiquitination ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in suppression of viral release by host IEA
Inferred from Electronic Annotation
more info
  
involved_in suppression of viral release by host ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  
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 membrane ISO
Inferred from Sequence Orthology
more info
  
located_in endoplasmic reticulum membrane ISS
Inferred from Sequence or Structural Similarity
more info
  
located_in perinuclear endoplasmic reticulum ISO
Inferred from Sequence Orthology
more info
  
located_in perinuclear endoplasmic reticulum ISS
Inferred from Sequence or Structural Similarity
more info
  

General protein information

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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)

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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_001164220.1 → NP_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
    A6H6L2, Q8CEV0, Q923J0, Q925P1, Q99PQ0, Q9CYB0
    Related
    ENSMUSP00000128509.2, ENSMUST00000165015.9
    Conserved Domains (2) summary
    cd16762
    Location:5 → 61
    RING-HC_TRIM13_C-V; RING finger, HC subclass, found in tripartite motif-containing protein 13 (TRIM13) and similar proteins
    cd19767
    Location:92 → 133
    Bbox2_TRIM13_C-XI; B-box-type 2 zinc finger found in tripartite motif-containing protein 13 (TRIM13) and similar proteins

  2. NM_023233.3 → NP_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
    A6H6L2, Q8CEV0, Q923J0, Q925P1, Q99PQ0, Q9CYB0
    Related
    ENSMUSP00000045009.7, ENSMUST00000039562.8
    Conserved Domains (2) summary
    cd16762
    Location:5 → 61
    RING-HC_TRIM13_C-V; RING finger, HC subclass, found in tripartite motif-containing protein 13 (TRIM13) and similar proteins
    cd19767
    Location:92 → 133
    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: 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_000080.7 Reference GRCm39 C57BL/6J

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

mRNA and Protein(s)

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

    See identical proteins and their annotated locations for XP_006519455.1

    UniProtKB/Swiss-Prot
    A6H6L2, Q8CEV0, Q923J0, Q925P1, Q99PQ0, Q9CYB0
    Conserved Domains (2) summary
    cd16762
    Location:5 → 61
    RING-HC_TRIM13_C-V; RING finger, HC subclass, found in tripartite motif-containing protein 13 (TRIM13) and similar proteins
    cd19767
    Location:92 → 133
    Bbox2_TRIM13_C-XI; B-box-type 2 zinc finger found in tripartite motif-containing protein 13 (TRIM13) and similar proteins
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9CYB0.1 GenPept UniProtKB/Swiss-Prot:Q9CYB0

Gene LinkOut

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