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Aliases for TRIM40 Gene

Aliases for TRIM40 Gene

  • Tripartite Motif Containing 40 2 3 5
  • Probable E3 NEDD8-Protein Ligase 3 4
  • RING Finger Protein 35 3 4
  • RNF35 3 4
  • Tripartite Motif-Containing Protein 40 3
  • Tripartite Motif-Containing 40 2
  • Ring Finger RNF35 3

External Ids for TRIM40 Gene

Previous GeneCards Identifiers for TRIM40 Gene

  • GC06P030189
  • GC06P029875
  • GC06P030210
  • GC06P030212
  • GC06P030103
  • GC06P029920
  • GC06P030281
  • GC06P030317
  • GC06P030367
  • GC06P030517
  • GC06P030724
  • GC06P030883
  • GC06P031037

Summaries for TRIM40 Gene

Entrez Gene Summary for TRIM40 Gene

  • This gene encodes a member of the tripartite motif (TRIM) protein family. The encoded protein may play a role as a negative regulator against inflammation and carcinogenesis in the gastrointestinal tract. Alternatively spliced transcript variants that encode different protein isoforms have been described. [provided by RefSeq, Feb 2014]

GeneCards Summary for TRIM40 Gene

TRIM40 (Tripartite Motif Containing 40) is a Protein Coding gene. Gene Ontology (GO) annotations related to this gene include nucleotide binding.

UniProtKB/Swiss-Prot for TRIM40 Gene

  • May function as an E3 ubiquitin-protein ligase of the NEDD8 conjugation pathway. Promotes neddylation of IKBKG/NEMO, stabilizing NFKBIA, and inhibiting of NF-kappaB nuclear translocation and activity.

Additional gene information for TRIM40 Gene

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TRIM40 Gene

Genomics for TRIM40 Gene

GeneHancer (GH) Regulatory Elements for TRIM40 Gene

Promoters and enhancers for TRIM40 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH06I030133 Promoter/Enhancer 1.4 EPDnew ENCODE 558.2 +1.1 1102 4.2 FOXA2 ARID4B DMAP1 ETS1 SLC30A9 ATF7 RUNX3 SP5 MIER2 PPARG TRIM40 TRIM31 HLA-K HLA-A HCG4P3 TRIM31-AS1 TRIM10 TRIM15 PPP1R10 TRIM39
GH06I030129 Enhancer 1.2 Ensembl ENCODE 38.5 -3.6 -3602 3.1 HDGF PKNOX1 MLX ARNT ARID4B FEZF1 ZNF2 IRF4 ZNF143 DEK TRIM40 TRIM31 TRIM31-AS1 TRIM15 TRIM10 HLA-A HCG18 ENSG00000252228 GC06M030355
GH06I030210 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 9.6 +78.4 78379 4.1 PKNOX1 MLX ARID4B SIN3A DMAP1 ZNF2 ZBTB7B YY1 ZNF213 ZNF143 TRIM26 PIR43263 HLA-U DHX16 HLA-W MICD TRIM39 ZNRD1 PPP1R10 PAIP1P1
GH06I030143 Enhancer 0.6 ENCODE 32.9 +10.0 10023 1.8 ATF1 FEZF1 MCM2 ATF2 RARA ZBTB5 ZNF335 PRDM6 SCRT2 CREB1 HLA-U TRIM40 TRIM31 ZFP57 DHX16 HCG4P3 IFITM4P TRIM15
GH06I030122 Enhancer 0.5 ENCODE 31.9 -11.4 -11420 1.5 ZNF335 PKNOX1 PRDM6 POLR3A HLF GC06M030297 GC06M030307 GC06M030308 GC06M030309 GC06M030316 GC06M030318 GC06M030320 GC06M030322 PIR32445 HLA-U
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around TRIM40 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the TRIM40 gene promoter:

Genomic Locations for TRIM40 Gene

Genomic Locations for TRIM40 Gene
14,264 bases
Plus strand

Genomic View for TRIM40 Gene

Genes around TRIM40 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TRIM40 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TRIM40 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

Proteins for TRIM40 Gene

  • Protein details for TRIM40 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Tripartite motif-containing protein 40
    Protein Accession:
    Secondary Accessions:
    • Q5SRJ6
    • Q5SS36
    • Q8TD96

    Protein attributes for TRIM40 Gene

    258 amino acids
    Molecular mass:
    29336 Da
    Quaternary structure:
    • Interacts with NEDD8.

    Alternative splice isoforms for TRIM40 Gene


neXtProt entry for TRIM40 Gene

Post-translational modifications for TRIM40 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for TRIM40 Gene

No data available for DME Specific Peptides for TRIM40 Gene

Domains & Families for TRIM40 Gene

Gene Families for TRIM40 Gene

Suggested Antigen Peptide Sequences for TRIM40 Gene

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the TRIM/RBCC family.
  • Belongs to the TRIM/RBCC family.
genes like me logo Genes that share domains with TRIM40: view

Function for TRIM40 Gene

Molecular function for TRIM40 Gene

UniProtKB/Swiss-Prot Function:
May function as an E3 ubiquitin-protein ligase of the NEDD8 conjugation pathway. Promotes neddylation of IKBKG/NEMO, stabilizing NFKBIA, and inhibiting of NF-kappaB nuclear translocation and activity.

Phenotypes From GWAS Catalog for TRIM40 Gene

Gene Ontology (GO) - Molecular Function for TRIM40 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 21474709
GO:0008270 zinc ion binding IEA --
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with TRIM40: view
genes like me logo Genes that share phenotypes with TRIM40: view

miRNA for TRIM40 Gene

miRTarBase miRNAs that target TRIM40

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for TRIM40 Gene

Localization for TRIM40 Gene

Subcellular locations from

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 TRIM40 gene
Compartment Confidence
nucleus 3
cytosol 2

Gene Ontology (GO) - Cellular Components for TRIM40 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005622 intracellular IEA --
GO:0008385 IkappaB kinase complex IDA 21474709
genes like me logo Genes that share ontologies with TRIM40: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Subcellular locations from the Human Protein Atlas (HPA) for TRIM40 Gene

Pathways & Interactions for TRIM40 Gene

SuperPathways for TRIM40 Gene

No Data Available

Gene Ontology (GO) - Biological Process for TRIM40 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0030308 negative regulation of cell growth IEA --
GO:0032088 negative regulation of NF-kappaB transcription factor activity IDA 21474709
GO:0042177 negative regulation of protein catabolic process IDA 21474709
GO:0045116 protein neddylation IDA 21474709
GO:1900181 negative regulation of protein localization to nucleus IDA 21474709
genes like me logo Genes that share ontologies with TRIM40: view

No data available for Pathways by source and SIGNOR curated interactions for TRIM40 Gene

Drugs & Compounds for TRIM40 Gene

No Compound Related Data Available

Transcripts for TRIM40 Gene

mRNA/cDNA for TRIM40 Gene

(6) REFSEQ mRNAs :
(1) Additional mRNA sequences :
(5) Selected AceView cDNA sequences:
(4) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for TRIM40 Gene

Tripartite motif containing 40:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for TRIM40 Gene

No ASD Table

Relevant External Links for TRIM40 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for TRIM40 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for TRIM40 Gene

mRNA differential expression in normal tissues according to GTEx for TRIM40 Gene

This gene is overexpressed in Liver (x18.0), Small Intestine - Terminal Ileum (x13.9), Colon - Transverse (x13.0), and Testis (x4.7).

Protein differential expression in normal tissues from HIPED for TRIM40 Gene

This gene is overexpressed in Heart (60.4) and Platelet (8.6).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for TRIM40 Gene

Protein tissue co-expression partners for TRIM40 Gene

NURSA nuclear receptor signaling pathways regulating expression of TRIM40 Gene:


SOURCE GeneReport for Unigene cluster for TRIM40 Gene:


mRNA Expression by UniProt/SwissProt for TRIM40 Gene:

Tissue specificity: Highly expressed in normal gastrointestinal epithelia but that is down-regulated in gastrointestinal carcinomas and chronic inflammatory lesions of the gastrointestinal tract.
genes like me logo Genes that share expression patterns with TRIM40: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for TRIM40 Gene

Orthologs for TRIM40 Gene

This gene was present in the common ancestor of mammals.

Orthologs for TRIM40 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia TRIM40 33 34
  • 99.42 (n)
(Bos Taurus)
Mammalia TRIM40 33 34
  • 80.99 (n)
(Mus musculus)
Mammalia Trim40 33 16 34
  • 77.01 (n)
(Rattus norvegicus)
Mammalia Trim40 33
  • 74.25 (n)
(Monodelphis domestica)
Mammalia TRIM40 34
  • 39 (a)
Species where no ortholog for TRIM40 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)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • dog (Canis familiaris)
  • 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)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • 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 TRIM40 Gene

Gene Tree for TRIM40 (if available)
Gene Tree for TRIM40 (if available)

Paralogs for TRIM40 Gene

(1) SIMAP similar genes for TRIM40 Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with TRIM40: view

No data available for Paralogs for TRIM40 Gene

Variants for TRIM40 Gene

Sequence variations from dbSNP and Humsavar for TRIM40 Gene

SNP ID Clin Chr 06 pos Variation AA Info Type
rs1000868084 -- 30,137,811(+) T/G intron_variant
rs1001100035 -- 30,146,202(+) G/A intron_variant
rs1001492369 -- 30,139,993(+) G/A intron_variant
rs1001725678 -- 30,145,868(+) C/A intron_variant
rs1001762476 -- 30,134,433(+) G/A upstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for TRIM40 Gene

Variant ID Type Subtype PubMed ID
esv2731777 CNV deletion 23290073
esv3411275 CNV duplication 20981092
nsv1074389 CNV deletion 25765185
nsv1122126 CNV deletion 24896259
nsv1144137 CNV deletion 24896259
nsv601264 CNV loss 21841781

Variation tolerance for TRIM40 Gene

Residual Variation Intolerance Score: 83.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 6.21; 76.05% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for TRIM40 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TRIM40 Gene

Disorders for TRIM40 Gene

Additional Disease Information for TRIM40

Genetic Association Database
Human Genome Epidemiology Navigator
ATLAS of Genetics and Cytogenetics in Oncology and Haematology

No disorders were found for TRIM40 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for TRIM40 Gene

Publications for TRIM40 Gene

  1. TRIM40 promotes neddylation of IKKγ and is downregulated in gastrointestinal cancers. (PMID: 21474709) Noguchi K … Hatakeyama S (Carcinogenesis 2011) 3 4 58
  2. A major histocompatibility Class I locus contributes to multiple sclerosis susceptibility independently from HLA-DRB1*15:01. (PMID: 20593013) Cree BA … IMSGC (PloS one 2010) 3 44 58
  3. High-density SNP screening of the major histocompatibility complex in systemic lupus erythematosus demonstrates strong evidence for independent susceptibility regions. (PMID: 19851445) Barcellos LF … Criswell LA (PLoS genetics 2009) 3 44 58
  4. Rapid evolution of major histocompatibility complex class I genes in primates generates new disease alleles in humans via hitchhiking diversity. (PMID: 16702430) Shiina T … Bahram S (Genetics 2006) 3 4 58
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 58

Products for TRIM40 Gene

Sources for TRIM40 Gene

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