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Aliases for TRIM38 Gene

Aliases for TRIM38 Gene

  • Tripartite Motif Containing 38 2 3 5
  • Tripartite Motif-Containing Protein 38 3 4
  • Zinc Finger Protein RoRet 3 4
  • Ring Finger Protein 15 2 3
  • RNF15 3 4
  • RORET 3 4
  • Ro/SSA Ribonucleoprotein Homolog 3
  • Tripartite Motif-Containing 38 2
  • RING Finger Protein 15 4
  • EC 6.3.2.- 4

External Ids for TRIM38 Gene

Previous HGNC Symbols for TRIM38 Gene

  • RNF15

Previous GeneCards Identifiers for TRIM38 Gene

  • GC06P026006
  • GC06P026071
  • GC06P026070
  • GC06P025906
  • GC06P025965
  • GC06P025966
  • GC06P025967
  • GC06P025968
  • GC06P025969

Summaries for TRIM38 Gene

Entrez Gene Summary for TRIM38 Gene

  • 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]

GeneCards Summary for TRIM38 Gene

TRIM38 (Tripartite Motif Containing 38) is a Protein Coding gene. Among its related pathways are Immune System and Interferon gamma signaling. GO annotations related to this gene include ligase activity and signal transducer activity. An important paralog of this gene is TRIM58.

UniProtKB/Swiss-Prot for TRIM38 Gene

  • E3 ubiquitin-protein ligase. Mediates Lys-48-linked polyubiquitination and proteasomal degradation of the critical TLR adapter TICAM1, inhibiting TLR3-mediated type I interferon signaling.

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TRIM38 Gene

Genomics for TRIM38 Gene

Regulatory Elements for TRIM38 Gene

Enhancers for TRIM38 Gene
GeneHancer Identifier Score Enhancer Sources TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Other Gene Targets for Enhancer

Enhancers around TRIM38 on UCSC Golden Path with GeneCards custom track

Promoters for TRIM38 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around TRIM38 on UCSC Golden Path with GeneCards custom track

Genomic Location for TRIM38 Gene

Chromosome:
6
Start:
25,962,689 bp from pter
End:
25,991,226 bp from pter
Size:
28,538 bases
Orientation:
Plus strand

Genomic View for TRIM38 Gene

Genes around TRIM38 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TRIM38 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TRIM38 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TRIM38 Gene

Proteins for TRIM38 Gene

  • Protein details for TRIM38 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O00635-TRI38_HUMAN
    Recommended name:
    E3 ubiquitin-protein ligase TRIM38
    Protein Accession:
    O00635
    Secondary Accessions:
    • B2R862

    Protein attributes for TRIM38 Gene

    Size:
    465 amino acids
    Molecular mass:
    53416 Da
    Quaternary structure:
    No Data Available

neXtProt entry for TRIM38 Gene

Proteomics data for TRIM38 Gene at MOPED

Post-translational modifications for TRIM38 Gene

  • Ubiquitination at Lys 122, Lys 137, and Lys 227
  • Modification sites at PhosphoSitePlus

Other Protein References for TRIM38 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for TRIM38 Gene

Domains & Families for TRIM38 Gene

Gene Families for TRIM38 Gene

Suggested Antigen Peptide Sequences for TRIM38 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

O00635

UniProtKB/Swiss-Prot:

TRI38_HUMAN :
  • Contains 1 B30.2/SPRY domain.
  • Contains 1 B box-type zinc finger.
Domain:
  • Contains 1 B30.2/SPRY domain.
Similarity:
  • Contains 1 B box-type zinc finger.
  • Contains 1 RING-type zinc finger.
genes like me logo Genes that share domains with TRIM38: view

Function for TRIM38 Gene

Molecular function for TRIM38 Gene

UniProtKB/Swiss-Prot Function:
E3 ubiquitin-protein ligase. Mediates Lys-48-linked polyubiquitination and proteasomal degradation of the critical TLR adapter TICAM1, inhibiting TLR3-mediated type I interferon signaling.

Enzyme Numbers (IUBMB) for TRIM38 Gene

Gene Ontology (GO) - Molecular Function for TRIM38 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016874 ligase activity IEA --
genes like me logo Genes that share ontologies with TRIM38: view
genes like me logo Genes that share phenotypes with TRIM38: view

Animal Model Products

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for TRIM38 Gene

Localization for TRIM38 Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for TRIM38 Gene COMPARTMENTS Subcellular localization image for TRIM38 gene
Compartment Confidence
cytosol 5
nucleus 3
cytoskeleton 2
plasma membrane 2
lysosome 1
vacuole 1

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Gene Ontology (GO) - Cellular Components for TRIM38 Gene

Pathways & Interactions for TRIM38 Gene

genes like me logo Genes that share pathways with TRIM38: view

Pathways by source for TRIM38 Gene

UniProtKB/Swiss-Prot O00635-TRI38_HUMAN

  • Pathway: Protein modification; protein ubiquitination.

Gene Ontology (GO) - Biological Process for TRIM38 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0019221 cytokine-mediated signaling pathway TAS --
GO:0045070 positive regulation of viral genome replication IEA --
GO:0046598 positive regulation of viral entry into host cell IDA 18248090
GO:0050687 negative regulation of defense response to virus IEA --
GO:0051092 positive regulation of NF-kappaB transcription factor activity IDA 23077300
genes like me logo Genes that share ontologies with TRIM38: view

No data available for SIGNOR curated interactions for TRIM38 Gene

Drugs & Compounds for TRIM38 Gene

No Compound Related Data Available

Transcripts for TRIM38 Gene

mRNA/cDNA for TRIM38 Gene

Unigene Clusters for TRIM38 Gene

Tripartite motif containing 38:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for TRIM38 Gene

ExUns: 1a · 1b · 1c · 1d · 1e ^ 2 ^ 3 ^ 4 ^ 5 ^ 6a · 6b · 6c · 6d · 6e ^ 7 ^ 8 ^ 9a · 9b ^ 10 ^ 11a · 11b
SP1: - -
SP2: -
SP3:
SP4: - -
SP5: - - -
SP6: -
SP7: - -
SP8:

Relevant External Links for TRIM38 Gene

GeneLoc Exon Structure for
TRIM38
ECgene alternative splicing isoforms for
TRIM38

Expression for TRIM38 Gene

mRNA expression in normal human tissues for TRIM38 Gene

mRNA differential expression in normal tissues according to GTEx for TRIM38 Gene

This gene is overexpressed in Whole Blood (x4.7).

Protein differential expression in normal tissues from HIPED for TRIM38 Gene

This gene is overexpressed in Bone marrow stromal cell (15.5), Lymph node (12.0), and Peripheral blood mononuclear cells (7.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MOPED, and MaxQB for TRIM38 Gene



SOURCE GeneReport for Unigene cluster for TRIM38 Gene Hs.584851

mRNA Expression by UniProt/SwissProt for TRIM38 Gene

O00635-TRI38_HUMAN
Tissue specificity: Ubiquitous.
genes like me logo Genes that share expression patterns with TRIM38: view

Protein tissue co-expression partners for TRIM38 Gene

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery for TRIM38 Gene

Orthologs for TRIM38 Gene

This gene was present in the common ancestor of chordates.

Orthologs for TRIM38 Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia TRIM38 35
  • 84.24 (n)
  • 76.47 (a)
TRIM38 36
  • 77 (a)
OneToOne
dog
(Canis familiaris)
Mammalia TRIM38 35
  • 81.15 (n)
  • 71.49 (a)
TRIM38 36
  • 71 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Trim38 35
  • 69.86 (n)
  • 57.17 (a)
Trim38 16
Trim38 36
  • 55 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia TRIM38 35
  • 99.14 (n)
  • 98.92 (a)
TRIM38 36
  • 99 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia LOC680019 35
  • 64.04 (n)
  • 50.88 (a)
chicken
(Gallus gallus)
Aves -- 36
  • 35 (a)
OneToMany
lizard
(Anolis carolinensis)
Reptilia -- 36
  • 35 (a)
OneToMany
Species with no ortholog for TRIM38:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for TRIM38 Gene

ENSEMBL:
Gene Tree for TRIM38 (if available)
TreeFam:
Gene Tree for TRIM38 (if available)

Paralogs for TRIM38 Gene

Pseudogenes.org Pseudogenes for TRIM38 Gene

genes like me logo Genes that share paralogs with TRIM38: view

Variants for TRIM38 Gene

Sequence variations from dbSNP and Humsavar for TRIM38 Gene

SNP ID Clin Chr 06 pos Sequence Context AA Info Type
rs10317 - 25,983,550(+) AGGCC(A/C/G)GAGTT reference, missense
rs1014795 -- 25,976,314(-) ctcca(A/G)cctgg intron-variant
rs1048388 -- 25,983,615(+) TCCTT(C/T)TCTGA reference, synonymous-codon
rs1048413 -- 25,984,877(+) TGTTG(A/G/T)AGTCC utr-variant-3-prime
rs1048415 -- 25,984,880(+) TGAAG(A/G/T)CCTAC utr-variant-3-prime

Variation tolerance for TRIM38 Gene

Residual Variation Intolerance Score: 78.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 4.32; 63.04% of all genes are more intolerant (likely to be disease-causing)

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot , Structural Variations from Database of Genomic Variants (DGV) and Relevant External Links for TRIM38 Gene

Disorders for TRIM38 Gene

Relevant External Links for TRIM38

Genetic Association Database (GAD)
TRIM38
Human Genome Epidemiology (HuGE) Navigator
TRIM38
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
TRIM38

No disorders were found for TRIM38 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for TRIM38 Gene

Publications for TRIM38 Gene

  1. TRIM38 negatively regulates TLR3-mediated IFN-I^ signaling by targeting TRIF for degradation. (PMID: 23056470) Xue Q. … Hung T. (PLoS ONE 2012) 3 4 67
  2. A human interactome in three quantitative dimensions organized by stoichiometries and abundances. (PMID: 26496610) Hein M.Y. … Mann M. (Cell 2015) 3
  3. TRIM38 inhibits TNFI+- and IL-1I^-triggered NF-I_B activation by mediating lysosome-dependent degradation of TAB2/3. (PMID: 24434549) Hu M.M. … Shu H.B. (Proc. Natl. Acad. Sci. U.S.A. 2014) 3
  4. A proteome-scale map of the human interactome network. (PMID: 25416956) Rolland T. … Vidal M. (Cell 2014) 3
  5. TRIM protein-mediated regulation of inflammatory and innate immune signaling and its association with antiretroviral activity. (PMID: 23077300) Uchil P.D. … Mothes W. (J. Virol. 2013) 3

Products for TRIM38 Gene

Sources for TRIM38 Gene

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