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Aliases for TRAFD1 Gene

Aliases for TRAFD1 Gene

  • TRAF-Type Zinc Finger Domain Containing 1 2 3 5
  • FLN29 3 4
  • TRAF-Type Zinc Finger Domain-Containing Protein 1 3
  • FLN29 Gene Product 3
  • Protein FLN29 4

External Ids for TRAFD1 Gene

Previous GeneCards Identifiers for TRAFD1 Gene

  • GC12P111027
  • GC12P112563
  • GC12P109576

Summaries for TRAFD1 Gene

Entrez Gene Summary for TRAFD1 Gene

  • The innate immune system confers host defense against viral and microbial infection, and TRAFD1 is a negative feedback regulator that controls excessive immune responses (Sanada et al., 2008 [PubMed 18849341]).[supplied by OMIM, Dec 2009]

GeneCards Summary for TRAFD1 Gene

TRAFD1 (TRAF-Type Zinc Finger Domain Containing 1) is a Protein Coding gene. Among its related pathways are Toll-like Receptor Signaling Pathway. An important paralog of this gene is XAF1.

UniProtKB/Swiss-Prot for TRAFD1 Gene

  • Negative feedback regulator that controls excessive innate immune responses. Regulates both Toll-like receptor 4 (TLR4) and DDX58/RIG1-like helicases (RLH) pathways. May inhibit the LTR pathway by direct interaction with TRAF6 and attenuation of NF-kappa-B activation. May negatively regulate the RLH pathway downstream from MAVS and upstream of NF-kappa-B and IRF3 (By similarity).

Gene Wiki entry for TRAFD1 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TRAFD1 Gene

Genomics for TRAFD1 Gene

Regulatory Elements for TRAFD1 Gene

Enhancers for TRAFD1 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
GH12G112160 0.9 dbSUPER 11.8 +37.0 36987 4.0 TBP ELF3 FOXA2 ZFP64 ZSCAN9 RAD21 YY1 RARA SLC30A9 CREM TMEM116 ADAM1A TRAFD1 NAA25 ALDH2 ERP29 MIR6861 ENSG00000200135
GH12G112161 0.9 dbSUPER 11.8 +36.6 36565 3.4 TBP ELF3 FOXA2 ZFP64 ZSCAN9 RAD21 YY1 RARA SLC30A9 CREM TMEM116 ADAM1A TRAFD1 NAA25 ALDH2 ERP29 MIR6861 ENSG00000200135
GH12G112095 1.6 FANTOM5 Ensembl ENCODE dbSUPER 4.9 -28.8 -28799 2.4 PKNOX1 INSM2 GATA2 FOS ETV6 IKZF2 JUNB TSHZ1 ZNF398 TBX21 TMEM116 TRAFD1 ALDH2 NAA25 ENSG00000200688
GH12G112166 0.7 dbSUPER 10.9 +43.3 43262 4.4 ELK4 CTCF L3MBTL2 ETV1 ZBTB11 REST ZBTB40 RAD21 GABPA SP1 ADAM1A TRAFD1 MAPKAPK5 HSPA8P14 TMEM116 MIR6861 GC12P112212
GH12G112167 0.7 dbSUPER 10.9 +44.3 44313 4.0 CTCF ETV1 ZBTB40 RAD21 ELK1 SMC3 ELK4 L3MBTL2 ZBTB11 REST ADAM1A TRAFD1 MAPKAPK5 HSPA8P14 TMEM116 MIR6861 GC12P112212
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around TRAFD1 on UCSC Golden Path with GeneCards custom track

Promoters for TRAFD1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000057496 499 1201 HDGF PKNOX1 ARID4B SIN3A DMAP1 ZNF2 ZBTB7B YY1 ZNF766 ZNF143

Genomic Location for TRAFD1 Gene

Chromosome:
12
Start:
112,125,501 bp from pter
End:
112,153,609 bp from pter
Size:
28,109 bases
Orientation:
Plus strand

Genomic View for TRAFD1 Gene

Genes around TRAFD1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TRAFD1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TRAFD1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TRAFD1 Gene

Proteins for TRAFD1 Gene

  • Protein details for TRAFD1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O14545-TRAD1_HUMAN
    Recommended name:
    TRAF-type zinc finger domain-containing protein 1
    Protein Accession:
    O14545
    Secondary Accessions:
    • A8K5L6
    • B4DI89

    Protein attributes for TRAFD1 Gene

    Size:
    582 amino acids
    Molecular mass:
    64841 Da
    Quaternary structure:
    • Interacts with MAVS, TICAM1, TRAF1, TRAF2, TRAF3 (By similarity). Interacts with TRAF6.

    Three dimensional structures from OCA and Proteopedia for TRAFD1 Gene

    Alternative splice isoforms for TRAFD1 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for TRAFD1 Gene

Post-translational modifications for TRAFD1 Gene

  • Ubiquitination at posLast=283283 and posLast=485485
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for TRAFD1 Gene

Domains & Families for TRAFD1 Gene

Protein Domains for TRAFD1 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for TRAFD1 Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with TRAFD1: view

No data available for Gene Families and UniProtKB/Swiss-Prot for TRAFD1 Gene

Function for TRAFD1 Gene

Molecular function for TRAFD1 Gene

UniProtKB/Swiss-Prot Function:
Negative feedback regulator that controls excessive innate immune responses. Regulates both Toll-like receptor 4 (TLR4) and DDX58/RIG1-like helicases (RLH) pathways. May inhibit the LTR pathway by direct interaction with TRAF6 and attenuation of NF-kappa-B activation. May negatively regulate the RLH pathway downstream from MAVS and upstream of NF-kappa-B and IRF3 (By similarity).

Gene Ontology (GO) - Molecular Function for TRAFD1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 17500595
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with TRAFD1: view
genes like me logo Genes that share phenotypes with TRAFD1: view

Animal Models for TRAFD1 Gene

MGI Knock Outs for TRAFD1:

Animal Model Products

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for TRAFD1 Gene

Localization for TRAFD1 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 TRAFD1 gene
Compartment Confidence
nucleus 3
cytosol 3

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Gene Ontology (GO) - Cellular Components for TRAFD1 Gene

Pathways & Interactions for TRAFD1 Gene

genes like me logo Genes that share pathways with TRAFD1: view

Pathways by source for TRAFD1 Gene

1 BioSystems pathway for TRAFD1 Gene

Gene Ontology (GO) - Biological Process for TRAFD1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0045824 negative regulation of innate immune response IEA,ISS --
genes like me logo Genes that share ontologies with TRAFD1: view

No data available for SIGNOR curated interactions for TRAFD1 Gene

Transcripts for TRAFD1 Gene

Unigene Clusters for TRAFD1 Gene

TRAF-type zinc finger domain containing 1:
Representative Sequences:

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for TRAFD1 Gene

ExUns: 1a · 1b ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8a · 8b · 8c · 8d ^ 9 ^ 10 ^ 11 ^ 12 ^ 13 ^ 14 ^ 15
SP1: - - - -
SP2: - - -
SP3: - -
SP4: - -
SP5: - -
SP6: - - -

Relevant External Links for TRAFD1 Gene

GeneLoc Exon Structure for
TRAFD1
ECgene alternative splicing isoforms for
TRAFD1

Expression for TRAFD1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for TRAFD1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for TRAFD1 Gene

This gene is overexpressed in Fetal Brain (16.3), Fetal ovary (10.6), Peripheral blood mononuclear cells (9.4), Monocytes (8.1), and Testis (6.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for TRAFD1 Gene



Protein tissue co-expression partners for TRAFD1 Gene

NURSA nuclear receptor signaling pathways regulating expression of TRAFD1 Gene:

TRAFD1

SOURCE GeneReport for Unigene cluster for TRAFD1 Gene:

Hs.5148

Evidence on tissue expression from TISSUES for TRAFD1 Gene

  • Nervous system(4.8)
  • Skin(4.4)
  • Liver(4.2)
genes like me logo Genes that share expression patterns with TRAFD1: view

Primer Products

No data available for mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for TRAFD1 Gene

Orthologs for TRAFD1 Gene

This gene was present in the common ancestor of chordates.

Orthologs for TRAFD1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia TRAFD1 34 35
  • 99.43 (n)
dog
(Canis familiaris)
Mammalia TRAFD1 34 35
  • 88.6 (n)
cow
(Bos Taurus)
Mammalia TRAFD1 34 35
  • 86.38 (n)
rat
(Rattus norvegicus)
Mammalia Trafd1 34
  • 81.88 (n)
mouse
(Mus musculus)
Mammalia Trafd1 34 16 35
  • 81.16 (n)
oppossum
(Monodelphis domestica)
Mammalia TRAFD1 35
  • 49 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia TRAFD1 35
  • 48 (a)
OneToOne
chicken
(Gallus gallus)
Aves TRAFD1 34 35
  • 58.13 (n)
lizard
(Anolis carolinensis)
Reptilia TRAFD1 35
  • 33 (a)
OneToOne
zebrafish
(Danio rerio)
Actinopterygii zgc:162228 34
  • 51.92 (n)
TRAFD1 35
  • 31 (a)
OneToOne
Species where no ortholog for TRAFD1 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)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • 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)

Evolution for TRAFD1 Gene

ENSEMBL:
Gene Tree for TRAFD1 (if available)
TreeFam:
Gene Tree for TRAFD1 (if available)

Paralogs for TRAFD1 Gene

Paralogs for TRAFD1 Gene

(2) SIMAP similar genes for TRAFD1 Gene using alignment to 7 proteins:

genes like me logo Genes that share paralogs with TRAFD1: view

Variants for TRAFD1 Gene

Sequence variations from dbSNP and Humsavar for TRAFD1 Gene

SNP ID Clin Chr 12 pos Sequence Context AA Info Type
rs1000014158 -- 112,140,015(+) CAAAA(-/AAT)AATAA intron-variant
rs1000021182 -- 112,128,845(+) AGACC(A/G)GCCTG intron-variant
rs1000029512 -- 112,129,804(+) CACCC(A/G)GCTAA intron-variant
rs1000068929 -- 112,147,765(+) CTCTC(A/G)GGTTC intron-variant
rs1000128050 -- 112,140,362(+) TCGCA(A/G)TGAGC intron-variant

Structural Variations from Database of Genomic Variants (DGV) for TRAFD1 Gene

Variant ID Type Subtype PubMed ID
nsv483114 CNV gain 15286789

Variation tolerance for TRAFD1 Gene

Residual Variation Intolerance Score: 36.2% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.44; 42.99% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for TRAFD1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
TRAFD1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TRAFD1 Gene

Disorders for TRAFD1 Gene

Relevant External Links for TRAFD1

Genetic Association Database (GAD)
TRAFD1
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
TRAFD1

No disorders were found for TRAFD1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for TRAFD1 Gene

Publications for TRAFD1 Gene

  1. Multiple loci influence erythrocyte phenotypes in the CHARGE Consortium. (PMID: 19862010) Ganesh S.K. … Lin J.P. (Nat. Genet. 2009) 3 46 64
  2. Genome-wide association study of 14,000 cases of seven common diseases and 3,000 shared controls. (PMID: 17554300) (Nature 2007) 3 46 64
  3. A probability-based approach for high-throughput protein phosphorylation analysis and site localization. (PMID: 16964243) Beausoleil S.A. … Gygi S.P. (Nat. Biotechnol. 2006) 3 4 64
  4. Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PMID: 17081983) Olsen J.V. … Mann M. (Cell 2006) 3 4 64
  5. FLN29, a novel interferon- and LPS-inducible gene acting as a negative regulator of toll-like receptor signaling. (PMID: 16221674) Mashima R. … Yoshimura A. (J. Biol. Chem. 2005) 3 4 64

Products for TRAFD1 Gene

Sources for TRAFD1 Gene

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