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

Summary

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 cellular protein metabolic process; positive regulation of I-kappaB kinase/NF-kappaB signaling; and positive regulation of NF-kappaB transcription factor activity. Predicted to act upstream of or within immune system 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, Apr 2022]
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

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_000080.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Expression

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See details

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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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.
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.
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.
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.
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.
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.

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Variation

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Alleles

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

Endonuclease-mediated (6) 1 citation
Targeted (1) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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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
enables ubiquitin-like protein ligase activity	ISO Inferred from Sequence Orthology 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
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
involved_in innate immune response	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of viral transcription	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of NF-kappaB transcription factor activity	IBA Inferred from Biological aspect of Ancestor 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	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 proteasome-mediated ubiquitin-dependent protein catabolic process	ISO Inferred from Sequence Orthology more info
involved_in protein autoubiquitination	ISO Inferred from Sequence Orthology more info
involved_in protein ubiquitination	IBA Inferred from Biological aspect of Ancestor 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	IEA Inferred from Electronic Annotation more info
located_in endoplasmic reticulum membrane	ISO Inferred from Sequence Orthology 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

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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

EC 2.3.2.27

NP_075722.1

EC 2.3.2.27

XP_006519455.1

EC 2.3.2.27

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)

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
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

NC_000080.7 Reference GRCm39 C57BL/6J

Range

61835675..61847736

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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