Atlas of Genetics and Cytogenetics in Oncology and Haematology


Home   Genes   Leukemias   Solid Tumors   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

TRIM39 (tripartite motif containing 39)

Identity

Alias_namesRNF23
ring finger protein 23
tripartite motif-containing 39
Other aliasTFP
TRIM39B
HGNC (Hugo) TRIM39
LocusID (NCBI) 56658
Atlas_Id 75151
Location 6p22.1  [Link to chromosome band 6p22]
Location_base_pair Starts at 30326844 and ends at 30343729 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)
CD84 (1q23.3) / TRIM39 (6p22.1)

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)TRIM39   10065
Cards
Entrez_Gene (NCBI)TRIM39  56658  tripartite motif containing 39
AliasesRNF23; TFP; TRIM39B
GeneCards (Weizmann)TRIM39
Ensembl hg19 (Hinxton)ENSG00000204599 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000204599 [Gene_View]  ENSG00000204599 [Sequence]  chr6:30326844-30343729 [Contig_View]  TRIM39 [Vega]
ICGC DataPortalENSG00000204599
TCGA cBioPortalTRIM39
AceView (NCBI)TRIM39
Genatlas (Paris)TRIM39
WikiGenes56658
SOURCE (Princeton)TRIM39
Genetics Home Reference (NIH)TRIM39
Genomic and cartography
GoldenPath hg38 (UCSC)TRIM39  -     chr6:30326844-30343729 +  6p22.1   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)TRIM39  -     6p22.1   [Description]    (hg19-Feb_2009)
EnsemblTRIM39 - 6p22.1 [CytoView hg19]  TRIM39 - 6p22.1 [CytoView hg38]
Mapping of homologs : NCBITRIM39 [Mapview hg19]  TRIM39 [Mapview hg38]
OMIM605700   
Gene and transcription
Genbank (Entrez)AB046381 AI159923 AK292512 AX776007 BC007661
RefSeq transcript (Entrez)NM_021253 NM_172016
RefSeq genomic (Entrez)NC_000006 NC_018917 NT_113891 NT_167244 NT_167245 NT_167246 NT_167248 NT_167249
Consensus coding sequences : CCDS (NCBI)TRIM39
Cluster EST : UnigeneHs.413493 [ NCBI ]
CGAP (NCI)Hs.413493
Alternative Splicing GalleryENSG00000204599
Gene ExpressionTRIM39 [ NCBI-GEO ]   TRIM39 [ EBI - ARRAY_EXPRESS ]   TRIM39 [ SEEK ]   TRIM39 [ MEM ]
Gene Expression Viewer (FireBrowse)TRIM39 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)56658
GTEX Portal (Tissue expression)TRIM39
Human Protein AtlasENSG00000204599-TRIM39 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9HCM9   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9HCM9  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9HCM9
Splice isoforms : SwissVarQ9HCM9
Catalytic activity : Enzyme2.3.2.27 [ Enzyme-Expasy ]   2.3.2.272.3.2.27 [ IntEnz-EBI ]   2.3.2.27 [ BRENDA ]   2.3.2.27 [ KEGG ]   
PhosPhoSitePlusQ9HCM9
Domaine pattern : Prosite (Expaxy)B302_SPRY (PS50188)    ZF_BBOX (PS50119)    ZF_RING_1 (PS00518)    ZF_RING_2 (PS50089)   
Domains : Interpro (EBI)B30.2/SPRY    Butyrophylin    ConA-like_dom    PRY    SPRY_dom    Znf_B-box    Znf_RING    Znf_RING/FYVE/PHD    Znf_RING_CS   
Domain families : Pfam (Sanger)PRY (PF13765)    SPRY (PF00622)    zf-B_box (PF00643)   
Domain families : Pfam (NCBI)pfam13765    pfam00622    pfam00643   
Domain families : Smart (EMBL)BBOX (SM00336)  PRY (SM00589)  RING (SM00184)  SPRY (SM00449)  
Conserved Domain (NCBI)TRIM39
DMDM Disease mutations56658
Blocks (Seattle)TRIM39
PDB (SRS)2DID    2DIF    2ECJ   
PDB (PDBSum)2DID    2DIF    2ECJ   
PDB (IMB)2DID    2DIF    2ECJ   
PDB (RSDB)2DID    2DIF    2ECJ   
Structural Biology KnowledgeBase2DID    2DIF    2ECJ   
SCOP (Structural Classification of Proteins)2DID    2DIF    2ECJ   
CATH (Classification of proteins structures)2DID    2DIF    2ECJ   
SuperfamilyQ9HCM9
Human Protein Atlas [tissue]ENSG00000204599-TRIM39 [tissue]
Peptide AtlasQ9HCM9
HPRD09298
IPIIPI00873841   IPI00293604   IPI00942619   IPI00643713   IPI01011847   IPI01009635   IPI01021442   IPI01021831   IPI00855713   IPI00794471   IPI00796458   IPI00790532   IPI00790609   
Protein Interaction databases
DIP (DOE-UCLA)Q9HCM9
IntAct (EBI)Q9HCM9
FunCoupENSG00000204599
BioGRIDTRIM39
STRING (EMBL)TRIM39
ZODIACTRIM39
Ontologies - Pathways
QuickGOQ9HCM9
Ontology : AmiGO###############################################################################################################################################################################################################################################################                    
Ontology : EGO-EBI###############################################################################################################################################################################################################################################################                    
NDEx NetworkTRIM39
Atlas of Cancer Signalling NetworkTRIM39
Wikipedia pathwaysTRIM39
Orthology - Evolution
OrthoDB56658
GeneTree (enSembl)ENSG00000204599
Phylogenetic Trees/Animal Genes : TreeFamTRIM39
HOVERGENQ9HCM9
HOGENOMQ9HCM9
Homologs : HomoloGeneTRIM39
Homology/Alignments : Family Browser (UCSC)TRIM39
Gene fusions - Rearrangements
Fusion : QuiverTRIM39
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerTRIM39 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)TRIM39
dbVarTRIM39
ClinVarTRIM39
1000_GenomesTRIM39 
Exome Variant ServerTRIM39
ExAC (Exome Aggregation Consortium)ENSG00000204599
GNOMAD BrowserENSG00000204599
Varsome BrowserTRIM39
Genetic variants : HAPMAP56658
Genomic Variants (DGV)TRIM39 [DGVbeta]
DECIPHERTRIM39 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisTRIM39 
Mutations
ICGC Data PortalTRIM39 
TCGA Data PortalTRIM39 
Broad Tumor PortalTRIM39
OASIS PortalTRIM39 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICTRIM39  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDTRIM39
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 TRIM39
DgiDB (Drug Gene Interaction Database)TRIM39
DoCM (Curated mutations)TRIM39 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)TRIM39 (select a term)
intoGenTRIM39
Cancer3DTRIM39(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM605700   
Orphanet
DisGeNETTRIM39
MedgenTRIM39
Genetic Testing Registry TRIM39
NextProtQ9HCM9 [Medical]
TSGene56658
GENETestsTRIM39
Target ValidationTRIM39
Huge Navigator TRIM39 [HugePedia]
snp3D : Map Gene to Disease56658
BioCentury BCIQTRIM39
ClinGenTRIM39
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD56658
Chemical/Pharm GKB GenePA35535
Clinical trialTRIM39
Miscellaneous
canSAR (ICR)TRIM39 (select the gene name)
Probes
Litterature
PubMed28 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineTRIM39
EVEXTRIM39
GoPubMedTRIM39
iHOPTRIM39
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 : Mon Jul 30 14:36:35 CEST 2018

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

For comments and suggestions or contributions, please contact us

jlhuret@AtlasGeneticsOncology.org.