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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
  • E3 Ubiquitin-Protein Ligase TRIM38 3
  • 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 Interferon gamma signaling and Immune System. GO annotations related to this gene include ligase activity and signal transducer activity. An important paralog of this gene is TRIM21.

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 Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH06F026303 1.4 Ensembl ENCODE 11.1 +342.2 342181 3.1 HDGF PKNOX1 ARNT MLX CREB3L1 ARID4B SIN3A ZNF766 ZNF143 FOS ABT1 ZNF322 HIST1H3E HMGN4 HIST1H2APS4 HIST1H3G TRIM38 HIST1H2APS3 HIST1H4G HIST1H2BE
GH06F026341 1.4 Ensembl ENCODE 11.1 +379.5 379512 1.6 HDGF PKNOX1 ARNT MLX ARID4B SIN3A YBX1 ZNF2 ZNF766 CBX5 ZNF322 HMGN4 ABT1 BTN3A2 HIST1H2APS4 HIST1H2APS5 ENSG00000271071 HIST1H2BPS1 HIST1H2BA VN1R13P
GH06F026019 1.6 FANTOM5 ENCODE 9.1 +64.9 64898 16.2 MLX CREB3L1 ZFP64 FEZF1 DMAP1 YY1 SLC30A9 ZNF143 ZNF263 SP3 ABT1 HMGN4 ENSG00000272462 BTN3A2 ZNF322 HIST1H2APS5 HIST1H1C HIST1H2APS4 HIST1H2BPS1 HIST1H2BA
GH06F026309 1.2 ENCODE 11.1 +349.2 349152 4.9 MLX CREB3L1 FEZF1 DMAP1 YBX1 YY1 ZNF143 NFYC TBX21 MEF2D ABT1 BTN3A2 HIST1H4H HIST1H3E HMGN4 HIST1H2APS4 HIST1H3G TRIM38 HIST1H2APS3 RPS10P1
GH06F026534 1.2 ENCODE 11.1 +574.4 574386 5.0 MLX CREB3L1 ZFP64 FEZF1 DMAP1 YY1 ZNF263 SP3 TBX21 MEF2D HMGN4 ABT1 BTN3A2 ZNF322 GUSBP2 LOC102724851 BTN2A1 ZNF391 TRIM38 LINC00240
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

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
ENSR00001213948 811 2601 HDGF PKNOX1 WRNIP1 SIN3A ARID4B FEZF1 ZNF2 YY1 ZNF207 SP3

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

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

Antibody Products

  • Abcam antibodies for TRIM38

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:0004871 signal transducer activity IMP 12761501
GO:0005515 protein binding IPI 25416956
GO:0008270 zinc ion binding IEA --
GO:0016874 ligase activity IEA --
GO:0046872 metal ion binding 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

Inhibitory RNA Products

Clone Products

Flow Cytometry 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
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for TRIM38 gene
Compartment Confidence
cytosol 5
nucleus 3
plasma membrane 2
cytoskeleton 2
lysosome 1

Gene Ontology (GO) - Cellular Components for TRIM38 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005575 cellular_component ND --
GO:0005622 intracellular IEA --
GO:0005829 cytosol TAS --
genes like me logo Genes that share ontologies with TRIM38: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot 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:0016567 protein ubiquitination IEA --
GO:0032648 regulation of interferon-beta production IEA --
GO:0043123 positive regulation of I-kappaB kinase/NF-kappaB signaling IMP 12761501
GO:0043161 proteasome-mediated ubiquitin-dependent protein catabolic process IEA --
GO:0045070 positive regulation of viral genome replication IEA --
genes like me logo Genes that share ontologies with TRIM38: view

No data available for SIGNOR curated interactions for TRIM38 Gene

Transcripts for TRIM38 Gene

mRNA/cDNA for TRIM38 Gene

Unigene Clusters for TRIM38 Gene

Tripartite motif containing 38:
Representative Sequences:

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

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 from GTEx, Illumina, BioGPS, and SAGE 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, MaxQB, and MOPED for TRIM38 Gene



Protein tissue co-expression partners for TRIM38 Gene

NURSA nuclear receptor signaling pathways regulating expression of TRIM38 Gene:

TRIM38

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

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
chimpanzee
(Pan troglodytes)
Mammalia TRIM38 34 35
  • 99.14 (n)
cow
(Bos Taurus)
Mammalia TRIM38 34 35
  • 84.24 (n)
dog
(Canis familiaris)
Mammalia TRIM38 34 35
  • 81.15 (n)
mouse
(Mus musculus)
Mammalia Trim38 34 16 35
  • 69.86 (n)
rat
(Rattus norvegicus)
Mammalia LOC680019 34
  • 64.04 (n)
chicken
(Gallus gallus)
Aves -- 35
  • 35 (a)
OneToMany
lizard
(Anolis carolinensis)
Reptilia -- 35
  • 35 (a)
OneToMany
Species where no ortholog for TRIM38 was found in the sources mined by GeneCards:
  • 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

Variants for TRIM38 Gene

Sequence variations from dbSNP and Humsavar for TRIM38 Gene

SNP ID Clin Chr 06 pos Sequence Context AA Info Type
rs10081113 -- 25,983,873(+) CACAG(A/G)TGGTT utr-variant-3-prime
rs1014795 -- 25,976,314(-) ctcca(A/G)cctgg intron-variant, nc-transcript-variant
rs10317 -- 25,983,550(+) AGGCC(A/C/G)GAGTT downstream-variant-500B, reference, missense
rs1048388 -- 25,983,615(+) TCCTT(C/T)TCTGA downstream-variant-500B, reference, synonymous-codon
rs1048413 -- 25,984,877(+) TGTTG(A/G/T)AGTCC utr-variant-3-prime

Structural Variations from Database of Genomic Variants (DGV) for TRIM38 Gene

Variant ID Type Subtype PubMed ID
nsv428137 CNV loss 18775914
nsv1023453 CNV gain 25217958

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)

Relevant External Links for TRIM38 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
TRIM38

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot 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 64
  2. Variants in TF and HFE explain approximately 40% of genetic variation in serum-transferrin levels. (PMID: 19084217) Benyamin B. … Visscher P.M. (Am. J. Hum. Genet. 2009) 3 46 64
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4 64
  4. A 1.1-Mb transcript map of the hereditary hemochromatosis locus. (PMID: 9149941) Ruddy D.A. … Feder J.N. (Genome Res. 1997) 3 4 64
  5. A human interactome in three quantitative dimensions organized by stoichiometries and abundances. (PMID: 26496610) Hein M.Y. … Mann M. (Cell 2015) 3 64

Products for TRIM38 Gene

Sources for TRIM38 Gene

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