TRIM38 tripartite motif containing 38 [Homo sapiens (human)] - Gene

Summary

Official Symbol: TRIM38provided by HGNC
Official Full Name: tripartite motif containing 38provided by HGNC
Primary source: HGNC:HGNC:10059
See related: Ensembl:ENSG00000112343 AllianceGenome:HGNC:10059
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Homo sapiens
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as: RNF15; RORET
Summary: This gene encodes a member of the tripartite motif (TRIM) family. The encoded protein contains a RING-type zinc finger, B box-type zinc finger and SPRY domain. The function of this protein has not been identified. A pseudogene of this gene is located on the long arm of chromosome 4. [provided by RefSeq, Jul 2012]
Expression: Ubiquitous expression in spleen (RPKM 9.0), lymph node (RPKM 8.4) and 24 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 6p22.2

Exon count:: 10

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCh38.p14 (GCF_000001405.40)	6	NC_000006.12 (25962802..25991231)
RS_2024_08	current	T2T-CHM13v2.0 (GCF_009914755.1)	6	NC_060930.1 (25828703..25857166)
RS_2024_09	previous assembly	GRCh37.p13 (GCF_000001405.25)	6	NC_000006.11 (25963030..25991459)

Chromosome 6 - NC_000006.12 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: HPA RNA-seq normal tissues
Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
BioProject: PRJEB4337
Publication: PMID 24309898
Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

TRIM38 suppresses migration, invasion, metastasis, and proliferation in non-small cell lung cancer (NSCLC) via regulating the AMPK/NF-kappaB/NLRP3 pathway.
Title: TRIM38 suppresses migration, invasion, metastasis, and proliferation in non-small cell lung cancer (NSCLC) via regulating the AMPK/NF-κB/NLRP3 pathway.
Investigation into the role of the MITA-TRIM38 interaction in regulating pyroptosis and maintaining immune tolerance at the maternal-fetal interface.
Title: Investigation into the role of the MITA-TRIM38 interaction in regulating pyroptosis and maintaining immune tolerance at the maternal-fetal interface.
Tripartite motif 38 alleviates the pathological process of NAFLD-NASH by promoting TAB2 degradation.
Title: Tripartite motif 38 alleviates the pathological process of NAFLD-NASH by promoting TAB2 degradation.
The antiviral activity of tripartite motif protein 38 in hepatitis B virus replication and gene expression and its association with treatment responses during PEG-IFN-alpha antiviral therapy.
Title: The antiviral activity of tripartite motif protein 38 in hepatitis B virus replication and gene expression and its association with treatment responses during PEG-IFN-α antiviral therapy.
TRIM38 triggers the uniquitination and degradation of glucose transporter type 1 (GLUT1) to restrict tumor progression in bladder cancer.
Title: TRIM38 triggers the uniquitination and degradation of glucose transporter type 1 (GLUT1) to restrict tumor progression in bladder cancer.
Data suggest that mRNA/protein levels of NLRP6 are down-regulated in synovial tissues and synoviocytes of rheumatoid arthritis (RA) patients compared to osteoarthritis patients; NLRP6 provides docking site to facilitate interaction between TAB2/3 and TRIM38 in RA synoviocytes in response to TNFalpha. (NLRP6 = ; TAB2/3 = transforming growth factor-b-activated kinase 1-binding protein 2/3; TRIM38 = tripartite motif 38)
Title: NLRP6 facilitates the interaction between TAB2/3 and TRIM38 in rheumatoid arthritis fibroblast-like synoviocytes.
TRIM38 may act as a novel negative regulator for TLR3-mediated type I interferon signaling by targeting TRIF for degradation
Title: TRIM38 negatively regulates TLR3-mediated IFN-β signaling by targeting TRIF for degradation.
NF-kappaB is activated in response to TRIM38.
Title: [Identification A novel protein TRIM38 that activate NF-kappaB signaling pathways].
Enterovirus 71 infection induces degradation of TRIM38.
Title: Enterovirus 71 induces degradation of TRIM38, a potential E3 ubiquitin ligase.

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Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Hypertrophy-associated polymorphisms ascertained in a founder cohort applied to heart failure risk and mortality. EBI GWAS Catalog EBI GWAS CatalogPubMed
Variants in TF and HFE explain approximately 40% of genetic variation in serum-transferrin levels. EBI GWAS Catalog EBI GWAS CatalogPubMed

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

SHGC-132992 (e-PCR)
- UniSTS:184323

RH47677 (e-PCR)
- UniSTS:37932

RH102226 (e-PCR)
- UniSTS:96560

D8S2279 (e-PCR)
- UniSTS:473907

D6S1074 (e-PCR)
- UniSTS:66702

SHGC-58405 (e-PCR)
- UniSTS:14741

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables transcription coactivator activity	IDA Inferred from Direct Assay more info	PubMed
enables ubiquitin protein ligase activity	IBA Inferred from Biological aspect of Ancestor more info
enables ubiquitin protein ligase activity	ISS Inferred from Sequence or Structural Similarity more info
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 negative regulation of defense response to virus	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of DNA-binding transcription factor activity	IDA Inferred from Direct Assay more info	PubMed
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	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of canonical NF-kappaB signal transduction	HMP more info	PubMed
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	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of viral entry into host cell	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of viral genome replication	IEA Inferred from Electronic Annotation more info
involved_in proteasome-mediated ubiquitin-dependent protein catabolic process	IEA Inferred from Electronic Annotation more info
involved_in protein K48-linked ubiquitination	IEA Inferred from Electronic Annotation more info
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
involved_in regulation of interferon-beta production	IEA Inferred from Electronic Annotation more info
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 cytosol	TAS Traceable Author Statement more info

General protein information

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Preferred Names: E3 ubiquitin-protein ligase TRIM38

Names: RING-type E3 ubiquitin transferase TRIM38; Ro/SSA ribonucleoprotein homolog; ring finger protein 15; tripartite motif-containing protein 38; zinc finger protein RoRet

NP_006346.1

EC 2.3.2.27

XP_047274036.1

EC 2.3.2.27

XP_054210007.1

EC 2.3.2.27

XP_054210008.1

EC 2.3.2.27

XP_054210009.1

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_006355.5 → NP_006346.1 E3 ubiquitin-protein ligase TRIM38

See identical proteins and their annotated locations for NP_006346.1

Status: REVIEWED

Source sequence(s)

AK313248, KC877159, U91328

Consensus CDS

CCDS4568.1

UniProtKB/Swiss-Prot

B2R862, O00635

Related

ENSP00000349596.2, ENST00000357085.5

Conserved Domains (3) summary

smart00336
Location:88 → 129

BBOX; B-Box-type zinc finger

cd15815
Location:280 → 461

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

cd16600
Location:13 → 63

RING-HC_TRIM38_C-IV; RING finger, HC subclass, found in tripartite motif-containing protein 38 (TRIM38) and similar proteins

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

NC_000006.12 Reference GRCh38.p14 Primary Assembly

Range

25962802..25991231

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_047418080.1 → XP_047274036.1 E3 ubiquitin-protein ligase TRIM38 isoform X2

Alternate T2T-CHM13v2.0

Genomic

NC_060930.1 Alternate T2T-CHM13v2.0

Range

25828703..25857166

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_054354032.1 → XP_054210007.1 E3 ubiquitin-protein ligase TRIM38 isoform X1

UniProtKB/Swiss-Prot

B2R862, O00635
XM_054354034.1 → XP_054210009.1 E3 ubiquitin-protein ligase TRIM38 isoform X1

UniProtKB/Swiss-Prot

B2R862, O00635
XM_054354033.1 → XP_054210008.1 E3 ubiquitin-protein ligase TRIM38 isoform X1

UniProtKB/Swiss-Prot

B2R862, O00635