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 (NCBI)RNF23
TFP
TRIM39B
HGNC (Hugo) TRIM39
HGNC Previous nameRNF23
HGNC Previous namering finger protein 23
 tripartite motif-containing 39
LocusID (NCBI) 56658
Atlas_Id 75151
Location 6p22.1  [Link to chromosome band 6p22]
Location_base_pair Starts at 30327231 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    tripartite motif containing 39
AliasesRNF23; TFP; TRIM39B
GeneCards (Weizmann)TRIM39
Ensembl hg19 (Hinxton)ENSG00000204599 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000204599 [Gene_View]  ENSG00000204599 [Sequence]  chr6:30327231-30343729 [Contig_View]  TRIM39 [Vega]
ICGC DataPortalENSG00000204599
TCGA cBioPortalTRIM39
AceView (NCBI)TRIM39
Genatlas (Paris)TRIM39
SOURCE (Princeton)TRIM39
Genetics Home Reference (NIH)TRIM39
Genomic and cartography
GoldenPath hg38 (UCSC)TRIM39  -     chr6:30327231-30343729 +  6p22.1   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)TRIM39  -     6p22.1   [Description]    (hg19-Feb_2009)
GoldenPathTRIM39 - 6p22.1 [CytoView hg19]  TRIM39 - 6p22.1 [CytoView hg38]
ImmunoBaseENSG00000204599
Genome Data Viewer NCBITRIM39 [Mapview hg19]  
OMIM605700   
Gene and transcription
Genbank (Entrez)AB046381 AI159923 AK292512 AX776007 BC007661
RefSeq transcript (Entrez)NM_001369521 NM_001369522 NM_001369523 NM_021253 NM_172016
Consensus coding sequences : CCDS (NCBI)TRIM39
Gene ExpressionTRIM39 [ NCBI-GEO ]   TRIM39 [ EBI - ARRAY_EXPRESS ]   TRIM39 [ SEEK ]   TRIM39 [ MEM ]
Gene Expression Viewer (FireBrowse)TRIM39 [ Firebrowse - Broad ]
GenevisibleExpression of TRIM39 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
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 ]   [ MEROPS ]
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    B30.2/SPRY_sf    Butyrophylin_SPRY    ConA-like_dom_sf    PRY    PRY/SPRY_TRIM39    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
PDB (RSDB)2DID    2DIF    2ECJ   
PDB Europe2DID    2DIF    2ECJ   
PDB (PDBSum)2DID    2DIF    2ECJ   
PDB (IMB)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
AlphaFold pdb e-kbQ9HCM9   
Human Protein Atlas [tissue]ENSG00000204599-TRIM39 [tissue]
HPRD09298
Protein Interaction databases
DIP (DOE-UCLA)Q9HCM9
IntAct (EBI)Q9HCM9
BioGRIDTRIM39
STRING (EMBL)TRIM39
ZODIACTRIM39
Ontologies - Pathways
QuickGOQ9HCM9
Ontology : AmiGOprotein binding  nucleus  cytoplasm  mitochondrion  cytosol  apoptotic process  mitotic G2 DNA damage checkpoint signaling  zinc ion binding  regulation of gene expression  protein ubiquitination  protein ubiquitination  negative regulation of proteasomal ubiquitin-dependent protein catabolic process  negative regulation of proteasomal ubiquitin-dependent protein catabolic process  identical protein binding  negative regulation of I-kappaB kinase/NF-kappaB signaling  innate immune response  protein stabilization  protein stabilization  ubiquitin protein ligase activity  regulation of cell cycle G1/S phase transition  negative regulation of ubiquitin-dependent protein catabolic process  positive regulation of apoptotic signaling pathway  positive regulation of apoptotic signaling pathway  
Ontology : EGO-EBIprotein binding  nucleus  cytoplasm  mitochondrion  cytosol  apoptotic process  mitotic G2 DNA damage checkpoint signaling  zinc ion binding  regulation of gene expression  protein ubiquitination  protein ubiquitination  negative regulation of proteasomal ubiquitin-dependent protein catabolic process  negative regulation of proteasomal ubiquitin-dependent protein catabolic process  identical protein binding  negative regulation of I-kappaB kinase/NF-kappaB signaling  innate immune response  protein stabilization  protein stabilization  ubiquitin protein ligase activity  regulation of cell cycle G1/S phase transition  negative regulation of ubiquitin-dependent protein catabolic process  positive regulation of apoptotic signaling pathway  positive regulation of apoptotic signaling pathway  
NDEx NetworkTRIM39
Atlas of Cancer Signalling NetworkTRIM39
Wikipedia pathwaysTRIM39
Orthology - Evolution
OrthoDB56658
GeneTree (enSembl)ENSG00000204599
Phylogenetic Trees/Animal Genes : TreeFamTRIM39
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
MonarchTRIM39
1000_GenomesTRIM39 
Exome Variant ServerTRIM39
GNOMAD BrowserENSG00000204599
Varsome BrowserTRIM39
ACMGTRIM39 variants
VarityQ9HCM9
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]  
Somatic Mutations in Cancer : COSMIC3DTRIM39
Mutations and Diseases : HGMDTRIM39
LOVD (Leiden Open Variation Database)[gene] [transcripts] [variants]
BioMutaTRIM39
DgiDB (Drug Gene Interaction Database)TRIM39
DoCM (Curated mutations)TRIM39
CIViC (Clinical Interpretations of Variants in Cancer)TRIM39
Cancer3DTRIM39
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM605700   
Orphanet
DisGeNETTRIM39
MedgenTRIM39
Genetic Testing Registry TRIM39
NextProtQ9HCM9 [Medical]
GENETestsTRIM39
Target ValidationTRIM39
Huge Navigator TRIM39 [HugePedia]
ClinGenTRIM39
Clinical trials, drugs, therapy
MyCancerGenomeTRIM39
Protein Interactions : CTDTRIM39
Pharm GKB GenePA35535
PharosQ9HCM9
Clinical trialTRIM39
Miscellaneous
canSAR (ICR)TRIM39
HarmonizomeTRIM39
DataMed IndexTRIM39
Probes
Litterature
PubMed38 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
EVEXTRIM39
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 Oct 4 16:26:53 CEST 2021

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.