Atlas of Genetics and Cytogenetics in Oncology and Haematology


Home   Genes   Leukemias   Solid Tumours   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

X Y 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 NA

TRAF1 (TNF receptor associated factor 1)

Identity

Other namesEBI6
MGC:10353
HGNC (Hugo) TRAF1
LocusID (NCBI) 7185
Atlas_Id 42686
Location 9q33.2
Location_base_pair Starts at 123664671 and ends at 123691451 bp from pter ( according to hg19-Feb_2009)
Fusion genes
(updated 2016)
TRAF1 (9q33.2) / ALK (2p23.2)

Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 


Other Leukemias implicated (Data extracted from papers in the Atlas) [ 1 ]
  t(2;9)(p23;q33) TRAF1/ALK

External links

Nomenclature
HGNC (Hugo)TRAF1   12031
Cards
Entrez_Gene (NCBI)TRAF1  7185  TNF receptor associated factor 1
GeneCards (Weizmann)TRAF1
Ensembl hg19 (Hinxton)ENSG00000056558 [Gene_View]  chr9:123664671-123691451 [Contig_View]  TRAF1 [Vega]
Ensembl hg38 (Hinxton)ENSG00000056558 [Gene_View]  chr9:123664671-123691451 [Contig_View]  TRAF1 [Vega]
ICGC DataPortalENSG00000056558
TCGA cBioPortalTRAF1
AceView (NCBI)TRAF1
Genatlas (Paris)TRAF1
WikiGenes7185
SOURCE (Princeton)TRAF1
Genomic and cartography
GoldenPath hg19 (UCSC)TRAF1  -     chr9:123664671-123691451 -  9q33.2   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)TRAF1  -     9q33.2   [Description]    (hg38-Dec_2013)
EnsemblTRAF1 - 9q33.2 [CytoView hg19]  TRAF1 - 9q33.2 [CytoView hg38]
Mapping of homologs : NCBITRAF1 [Mapview hg19]  TRAF1 [Mapview hg38]
OMIM601711   
Gene and transcription
Genbank (Entrez)AK090468 AK295959 AK315476 AL832989 AW014547
RefSeq transcript (Entrez)NM_001190945 NM_001190947 NM_005658
RefSeq genomic (Entrez)NC_000009 NC_018920 NG_023346 NT_008470 NW_004929366
Consensus coding sequences : CCDS (NCBI)TRAF1
Cluster EST : UnigeneHs.531251 [ NCBI ]
CGAP (NCI)Hs.531251
Alternative Splicing GalleryENSG00000056558
Gene ExpressionTRAF1 [ NCBI-GEO ]   TRAF1 [ EBI - ARRAY_EXPRESS ]   TRAF1 [ SEEK ]   TRAF1 [ MEM ]
Gene Expression Viewer (FireBrowse)TRAF1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)7185
GTEX Portal (Tissue expression)TRAF1
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ13077 (Uniprot)
NextProtQ13077  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ13077
Splice isoforms : SwissVarQ13077 (Swissvar)
PhosPhoSitePlusQ13077
Domaine pattern : Prosite (Expaxy)MATH (PS50144)   
Domains : Interpro (EBI)MATH/TRAF_dom    TNF_rcpt--assoc_TRAF    TRAF-like    TRAF1    TRAF_BIRC3-bd   
Domain families : Pfam (Sanger)TRAF_BIRC3_bd (PF16673)   
Domain families : Pfam (NCBI)pfam16673   
Domain families : Smart (EMBL)MATH (SM00061)  
DMDM Disease mutations7185
Blocks (Seattle)TRAF1
PDB (SRS)3M0D   
PDB (PDBSum)3M0D   
PDB (IMB)3M0D   
PDB (RSDB)3M0D   
Structural Biology KnowledgeBase3M0D   
SCOP (Structural Classification of Proteins)3M0D   
CATH (Classification of proteins structures)3M0D   
SuperfamilyQ13077
Human Protein AtlasENSG00000056558
Peptide AtlasQ13077
HPRD03418
IPIIPI00011549   IPI00984225   
Protein Interaction databases
DIP (DOE-UCLA)Q13077
IntAct (EBI)Q13077
FunCoupENSG00000056558
BioGRIDTRAF1
STRING (EMBL)TRAF1
ZODIACTRAF1
Ontologies - Pathways
QuickGOQ13077
Ontology : AmiGOtumor necrosis factor receptor binding  protein binding  cytoplasm  cytosol  protein complex assembly  apoptotic process  signal transduction  zinc ion binding  regulation of tumor necrosis factor-mediated signaling pathway  ubiquitin protein ligase binding  thioesterase binding  positive regulation of NF-kappaB transcription factor activity  regulation of extrinsic apoptotic signaling pathway  
Ontology : EGO-EBItumor necrosis factor receptor binding  protein binding  cytoplasm  cytosol  protein complex assembly  apoptotic process  signal transduction  zinc ion binding  regulation of tumor necrosis factor-mediated signaling pathway  ubiquitin protein ligase binding  thioesterase binding  positive regulation of NF-kappaB transcription factor activity  regulation of extrinsic apoptotic signaling pathway  
Pathways : BIOCARTAHIV-I Nef: negative effector of Fas and TNF [Genes]    TNFR2 Signaling Pathway [Genes]   
Pathways : KEGGNF-kappa B signaling pathway    TNF signaling pathway    Herpes simplex infection    Epstein-Barr virus infection    Pathways in cancer    Transcriptional misregulation in cancer    Viral carcinogenesis    Small cell lung cancer   
NDEx Network
Atlas of Cancer Signalling NetworkTRAF1
Wikipedia pathwaysTRAF1
Orthology - Evolution
OrthoDB7185
GeneTree (enSembl)ENSG00000056558
Phylogenetic Trees/Animal Genes : TreeFamTRAF1
Homologs : HomoloGeneTRAF1
Homology/Alignments : Family Browser (UCSC)TRAF1
Gene fusions - Rearrangements
Polymorphisms : SNP, variants
NCBI Variation ViewerTRAF1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)TRAF1
dbVarTRAF1
ClinVarTRAF1
1000_GenomesTRAF1 
Exome Variant ServerTRAF1
ExAC (Exome Aggregation Consortium)TRAF1 (select the gene name)
Genetic variants : HAPMAP7185
Genomic Variants (DGV)TRAF1 [DGVbeta]
Mutations
ICGC Data PortalTRAF1 
TCGA Data PortalTRAF1 
Broad Tumor PortalTRAF1
OASIS PortalTRAF1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICTRAF1 
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch TRAF1
DgiDB (Drug Gene Interaction Database)TRAF1
DoCM (Curated mutations)TRAF1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)TRAF1 (select a term)
intoGenTRAF1
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] 
Diseases
DECIPHER (Syndromes)9:123664671-123691451  ENSG00000056558
CONAN: Copy Number AnalysisTRAF1 
Mutations and Diseases : HGMDTRAF1
OMIM601711   
MedgenTRAF1
Genetic Testing Registry TRAF1
NextProtQ13077 [Medical]
TSGene7185
GENETestsTRAF1
Huge Navigator TRAF1 [HugePedia]
snp3D : Map Gene to Disease7185
BioCentury BCIQTRAF1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD7185
Chemical/Pharm GKB GenePA36708
Clinical trialTRAF1
Miscellaneous
canSAR (ICR)TRAF1 (select the gene name)
Probes
Litterature
PubMed183 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineTRAF1
EVEXTRAF1
GoPubMedTRAF1
iHOPTRAF1
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Sun May 8 19:09:45 CEST 2016

Home   Genes   Leukemias   Solid Tumours   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

For comments and suggestions or contributions, please contact us

jlhuret@AtlasGeneticsOncology.org.