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TRIM42 (tripartite motif containing 42)

Identity

Alias_namestripartite motif-containing 42
Alias_symbol (synonym)FLJ40097
PPP1R40
T4A1
Other alias
HGNC (Hugo) TRIM42
LocusID (NCBI) 287015
Atlas_Id 75155
Location 3q23  [Link to chromosome band 3q23]
Location_base_pair Starts at 140678024 and ends at 140701150 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2017)
Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)

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

 


External links

Nomenclature
HGNC (Hugo)TRIM42   19014
Cards
Entrez_Gene (NCBI)TRIM42  287015  tripartite motif containing 42
AliasesPPP1R40; T4A1
GeneCards (Weizmann)TRIM42
Ensembl hg19 (Hinxton)ENSG00000155890 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000155890 [Gene_View]  chr3:140678024-140701150 [Contig_View]  TRIM42 [Vega]
ICGC DataPortalENSG00000155890
TCGA cBioPortalTRIM42
AceView (NCBI)TRIM42
Genatlas (Paris)TRIM42
WikiGenes287015
SOURCE (Princeton)TRIM42
Genetics Home Reference (NIH)TRIM42
Genomic and cartography
GoldenPath hg38 (UCSC)TRIM42  -     chr3:140678024-140701150 +  3q23   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)TRIM42  -     3q23   [Description]    (hg19-Feb_2009)
EnsemblTRIM42 - 3q23 [CytoView hg19]  TRIM42 - 3q23 [CytoView hg38]
Mapping of homologs : NCBITRIM42 [Mapview hg19]  TRIM42 [Mapview hg38]
Gene and transcription
Genbank (Entrez)AF521868 AK097416 AK310536 AL833848 BC130472
RefSeq transcript (Entrez)NM_152616
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)TRIM42
Cluster EST : UnigeneHs.343487 [ NCBI ]
CGAP (NCI)Hs.343487
Alternative Splicing GalleryENSG00000155890
Gene ExpressionTRIM42 [ NCBI-GEO ]   TRIM42 [ EBI - ARRAY_EXPRESS ]   TRIM42 [ SEEK ]   TRIM42 [ MEM ]
Gene Expression Viewer (FireBrowse)TRIM42 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)287015
GTEX Portal (Tissue expression)TRIM42
Human Protein AtlasENSG00000155890-TRIM42 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ8IWZ5   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ8IWZ5  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ8IWZ5
Splice isoforms : SwissVarQ8IWZ5
PhosPhoSitePlusQ8IWZ5
Domaine pattern : Prosite (Expaxy)COS (PS51262)    FN3 (PS50853)    ZF_BBOX (PS50119)    ZF_RING_1 (PS00518)    ZF_RING_2 (PS50089)   
Domains : Interpro (EBI)COS_domain    FN3_dom    Ig-like_fold    Znf_B-box    Znf_RING    Znf_RING_CS   
Domain families : Pfam (Sanger)fn3 (PF00041)    zf-B_box (PF00643)   
Domain families : Pfam (NCBI)pfam00041    pfam00643   
Domain families : Smart (EMBL)BBOX (SM00336)  FN3 (SM00060)  
Conserved Domain (NCBI)TRIM42
DMDM Disease mutations287015
Blocks (Seattle)TRIM42
SuperfamilyQ8IWZ5
Human Protein Atlas [tissue]ENSG00000155890-TRIM42 [tissue]
Peptide AtlasQ8IWZ5
HPRD15559
IPIIPI00217444   IPI00386076   
Protein Interaction databases
DIP (DOE-UCLA)Q8IWZ5
IntAct (EBI)Q8IWZ5
FunCoupENSG00000155890
BioGRIDTRIM42
STRING (EMBL)TRIM42
ZODIACTRIM42
Ontologies - Pathways
QuickGOQ8IWZ5
Ontology : AmiGOprotein binding  intracellular  zinc ion binding  
Ontology : EGO-EBIprotein binding  intracellular  zinc ion binding  
NDEx NetworkTRIM42
Atlas of Cancer Signalling NetworkTRIM42
Wikipedia pathwaysTRIM42
Orthology - Evolution
OrthoDB287015
GeneTree (enSembl)ENSG00000155890
Phylogenetic Trees/Animal Genes : TreeFamTRIM42
HOVERGENQ8IWZ5
HOGENOMQ8IWZ5
Homologs : HomoloGeneTRIM42
Homology/Alignments : Family Browser (UCSC)TRIM42
Gene fusions - Rearrangements
Tumor Fusion PortalTRIM42
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerTRIM42 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)TRIM42
dbVarTRIM42
ClinVarTRIM42
1000_GenomesTRIM42 
Exome Variant ServerTRIM42
ExAC (Exome Aggregation Consortium)ENSG00000155890
GNOMAD BrowserENSG00000155890
Genetic variants : HAPMAP287015
Genomic Variants (DGV)TRIM42 [DGVbeta]
DECIPHERTRIM42 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisTRIM42 
Mutations
ICGC Data PortalTRIM42 
TCGA Data PortalTRIM42 
Broad Tumor PortalTRIM42
OASIS PortalTRIM42 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICTRIM42  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDTRIM42
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 TRIM42
DgiDB (Drug Gene Interaction Database)TRIM42
DoCM (Curated mutations)TRIM42 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)TRIM42 (select a term)
intoGenTRIM42
Cancer3DTRIM42(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM
Orphanet
DisGeNETTRIM42
MedgenTRIM42
Genetic Testing Registry TRIM42
NextProtQ8IWZ5 [Medical]
TSGene287015
GENETestsTRIM42
Target ValidationTRIM42
Huge Navigator TRIM42 [HugePedia]
snp3D : Map Gene to Disease287015
BioCentury BCIQTRIM42
ClinGenTRIM42
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD287015
Chemical/Pharm GKB GenePA134894780
Clinical trialTRIM42
Miscellaneous
canSAR (ICR)TRIM42 (select the gene name)
Probes
Litterature
PubMed13 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineTRIM42
EVEXTRIM42
GoPubMedTRIM42
iHOPTRIM42
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Tue Nov 21 13:09:19 CET 2017

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