Trim38 tripartite motif-containing 38 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Trim38provided by MGI
Official Full Name: tripartite motif-containing 38provided by MGI
Primary source: MGI:MGI:2684869
See related: Ensembl:ENSMUSG00000064140 AllianceGenome:MGI:2684869
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: Gm23
Summary: Enables ubiquitin protein ligase activity. Acts upstream of or within several processes, including negative regulation of defense response to virus; positive regulation of viral genome replication; and protein K48-linked ubiquitination. Predicted to be active in cytosol and nucleoplasm. Orthologous to human TRIM38 (tripartite motif containing 38). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Low expression observed in reference dataset See more
Orthologs: human all
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Genomic context

Location:: 13 A3.1; 13 9.92 cM

Exon count:: 8

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	13	NC_000079.7 (23962483..23975721)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	13	NC_000079.6 (23778500..23791731)

Chromosome 13 - NC_000079.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

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?

our data suggest that TRIM38 plays a critical role in bone remodeling as a negative regulator of NF-kappaB in both osteoclast and osteoblast differentiation.
Title: TRIM38 regulates NF-κB activation through TAB2 degradation in osteoclast and osteoblast differentiation.
Data show that tripartite motif-containing 38 protein (Trim38) deficiency potentiates toll like receptors TLR3/4-mediated signaling in primary immune cells.
Title: TRIM38 Negatively Regulates TLR3/4-Mediated Innate Immune and Inflammatory Responses by Two Sequential and Distinct Mechanisms.
TRIM38 is a negative regulator for Toll like receptor (TLR) and retinoic acid-inducible gene (RIG)-I-mediated IFN-beta production by targeting Nck-associated protein NAP1 for ubiquitination and subsequent proteasome-mediated degradation.
Title: Tripartite motif-containing protein 38 negatively regulates TLR3/4- and RIG-I-mediated IFN-β production and antiviral response by targeting NAP1.
ur findings defined a novel function for TRIM38 to prevent excessive TLR-induced inflammatory responses through proteasomal degradation of TRAF6.
Title: E3 ubiquitin ligase tripartite motif 38 negatively regulates TLR-mediated immune responses by proteasomal degradation of TNF receptor-associated factor 6 in macrophages.

Submit: New GeneRIF Correction

Variation

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Alleles

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

Endonuclease-mediated (5)
Targeted (1)

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 protein binding	IPI Inferred from Physical Interaction more info	PubMed
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 protein ligase activity	IDA Inferred from Direct Assay more info	PubMed
enables zinc ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
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
acts_upstream_of_or_within negative regulation of defense response to virus	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of DNA-binding transcription factor activity	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	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 viral entry into host cell	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of viral entry into host cell	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of viral genome replication	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within positive regulation of viral genome replication	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within proteasome-mediated ubiquitin-dependent protein catabolic process	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within proteasome-mediated ubiquitin-dependent protein catabolic process	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within protein K48-linked ubiquitination	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within protein K48-linked ubiquitination	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in protein sumoylation	IEA Inferred from Electronic Annotation more info
involved_in regulation of gene expression	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within regulation of interferon-beta production	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within regulation of interferon-beta production	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of viral entry into host cell	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: E3 ubiquitin-protein ligase TRIM38

Names: E3 SUMO-protein ligase TRIM38; RING finger protein 15; tripartite motif-containing protein 38; zinc finger protein RoRet

NP_001025106.1

EC 2.3.2.27

XP_006516700.1

EC 2.3.2.27

XP_011242605.1

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_001029935.2 → NP_001025106.1 E3 ubiquitin-protein ligase TRIM38

See identical proteins and their annotated locations for NP_001025106.1

Status: VALIDATED

Source sequence(s)

AL590388

Consensus CDS

CCDS26370.1

UniProtKB/Swiss-Prot

B9EKD3, Q5SZ99

Related

ENSMUSP00000073709.3, ENSMUST00000074067.4

Conserved Domains (4) summary

TIGR02168
Location:138 → 262

SMC_prok_B; chromosome segregation protein SMC, common bacterial type

cd15815
Location:282 → 466

SPRY_PRY_TRIM38; PRY/SPRY domain of tripartite motif-binding protein 38 (TRIM38), also known as Ring finger protein 15 (RNF15)

cl00034
Location:93 → 127

Bbox_SF; B-box-type zinc finger superfamily

cl17238
Location:15 → 61

RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain

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_000079.7 Reference GRCm39 C57BL/6J

Range

23962483..23975721

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006516637.3 → XP_006516700.1 E3 ubiquitin-protein ligase TRIM38 isoform X1

See identical proteins and their annotated locations for XP_006516700.1

UniProtKB/Swiss-Prot

B9EKD3, Q5SZ99

Related

ENSMUSP00000153240.2, ENSMUST00000226039.2

Conserved Domains (4) summary

TIGR02168
Location:138 → 262

SMC_prok_B; chromosome segregation protein SMC, common bacterial type

cd15815
Location:282 → 466

SPRY_PRY_TRIM38; PRY/SPRY domain of tripartite motif-binding protein 38 (TRIM38), also known as Ring finger protein 15 (RNF15)

cl00034
Location:93 → 127

Bbox_SF; B-box-type zinc finger superfamily

cl17238
Location:15 → 61

RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain
XM_011244303.2 → XP_011242605.1 E3 ubiquitin-protein ligase TRIM38 isoform X1

See identical proteins and their annotated locations for XP_011242605.1

UniProtKB/Swiss-Prot

B9EKD3, Q5SZ99

Conserved Domains (4) summary

TIGR02168
Location:138 → 262

SMC_prok_B; chromosome segregation protein SMC, common bacterial type

cd15815
Location:282 → 466

SPRY_PRY_TRIM38; PRY/SPRY domain of tripartite motif-binding protein 38 (TRIM38), also known as Ring finger protein 15 (RNF15)

cl00034
Location:93 → 127

Bbox_SF; B-box-type zinc finger superfamily

cl17238
Location:15 → 61

RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain