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TRIM24 (tripartite motif-containing 24)

Written2006-02Elena Belloni, Pier Giuseppe Pelicci, Pier Paolo Di Fiore
IFOM, Fondazione Istituto FIRC di Oncologia Molecolare, and IEO, Istituto Europero di Oncologia, Milan, Italy
Updated2006-12Jean-Loup Huret
Genetics, Dept Medical Information, University of Poitiers; CHU Poitiers Hospital, F-86021 Poitiers, France

(Note : for Links provided by Atlas : click)

Identity

Alias_namesTIF1
transcriptional intermediary factor 1
tripartite motif-containing 24
Alias_symbol (synonym)hTIF1
Tif1a
RNF82
TIF1A
Other aliasPTC6
TF1A
TIF1ALPHA
HGNC (Hugo) TRIM24
LocusID (NCBI) 8805
Atlas_Id 504
Location 7q33  [Link to chromosome band 7q33]
Location_base_pair Starts at 138460334 and ends at 138585587 bp from pter ( according to hg19-Feb_2009)  [Mapping TRIM24.png]
Fusion genes
(updated 2017)
Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)
NFU1 (2p13.3) / TRIM24 (7q33)RARA (17q21.2) / TRIM24 (7q33)RET (10q11.21) / TRIM24 (7q33)
ST7 (7q31.2) / TRIM24 (7q33)TRIM24 (7q33) / BRAF (7q34)TRIM24 (7q33) / FGFR1 (8p11.23)
TRIM24 (7q33) / NTN4 (12q22)TRIM24 (7q33) / NTRK2 (9q21.33)TRIM24 (7q33) / RARA (17q21.2)
TRIM24 (7q33) / RET (10q11.21)TRIM24 (7q33) / SVOPL (7q34)TRIM24 (7q33) / ULK4 (3p22.1)

DNA/RNA

Description The TRIM24 gene is organized in 19 exons. There are 2 corresponding transcripts, which give rise to 2 different isoforms (alternative splicing), the first one being shorter.
transcript = 3905 bp; protein = 1016 amino acids; transcript = 4007 bp; protein = 1050 amino acids.

Protein

 
Description TRIM24 encodes a nuclear protein, transcription intermediary factor 1a displaying an RBCC motif (RING finger, B-BOX, and coiled-coil domains, also called tripartite motif, TRIM) in its N-terminus and PHD and bromo domains at the C-terminus. The following is a scheme (not drawn to scale) of the protein and its domains.
Expression ubiquitously and early in development, but also in many adult tissues
Localisation The protein localizes to the nucleus (nuclear bodies).
Function Transcriptional regulator of nuclear receptors, including retinoic acid, thyroid, vitamin D3, and estrogen receptors; participates in multiprotein complexes; interacts with numerous proteins involved in chromatin structure; recruitment of TRIM24 to specific sites in the genome would ensure the localization of initiating RNA polII, and of chromatin remodeling complexes; may function through modulation of chromatin states (regulator of higher order chromatin structures, in order to promote silencing on euchromatic genes); TRIM24 has been demonstrated to possess an intrinsic transcriptional silencing activity which requires histone deacetylation; interacts directly with members of the heterochromatin protein 1 family. May be a key regulator of developmental and physiological processes.
Homology TRIM28/TIF1B, TRIM33/TIF1G, TRIM66/TIF1D

Implicated in

Note
  
Entity t(7;8)(q34;p11) in leukemia --> TRIM24 - FGFR1
Disease acute myeloid leukemia (AML), 8p11 myeloproliferative syndrome (EMS).
Cytogenetics t(7;8)(q34;p11)
Hybrid/Mutated Gene TRIM24-FGFR1; FGFR1-TRIM24
Abnormal Protein The 2 predicted fusion proteins are organized as follows: TRIM24-FGFR1 contains the RING, BBOX and BBC domains from TRIM24 and the TK domain from FGFR1; FGFR1-TRIM24 contains the signal peptide along with the 3 IG-LIKE and transmembrane domains from FGFR1 and the PHD with the BROMO domains from TRIM24.
  
  
Entity t(7;10)(q34;q11) in papillary thyroid carcinoma: --> TRIM24 - RET
Disease Found in one case of papillary thyroid carcinoma, in a child (a boy aged 4 yrs) exposed to radioactive fallout after the Chernobyl reactor accident (note: children exposed to Chernobyl radioactive fallout frequently developped papillary thyroid carcinoma (PTC), and a very high prevalence of RET rearrangements was found in these childhood PTC, compared to PTC of adults).
Abnormal Protein Fusion of the 5' end of TRIM24 including the RBCC (RING finger, B-BOX, and coiled-coil domains) motif to the 3' end of RET including the tyrosine kinase domain (and loosing the ligand binding and transmembrane domains of RET).
Oncogenesis The fusion protein could form dimers (via the coiled coil domain) and show constitutive tyrosine phosphorylation?
  

Breakpoints

 

Bibliography

8p11 myeloproliferative syndrome with a novel t(7;8) translocation leading to fusion of the FGFR1 and TIF1 genes.
Belloni E, Trubia M, Gasparini P, Micucci C, Tapinassi C, Confalonieri S, Nuciforo P, Martino B, Lo-Coco F, Pelicci PG, Di Fiore PP
Genes, chromosomes & cancer. 2005 ; 42 (3) : 320-325.
PMID 15609342
 
TIF1delta, a novel HP1-interacting member of the transcriptional intermediary factor 1 (TIF1) family expressed by elongating spermatids.
Khetchoumian K, Teletin M, Mark M, Lerouge T, Cerviño M, Oulad-Abdelghani M, Chambon P, Losson R
The Journal of biological chemistry. 2004 ; 279 (46) : 48329-48341.
PMID 15322135
 
The transcription coactivator HTIF1 and a related protein are fused to the RET receptor tyrosine kinase in childhood papillary thyroid carcinomas.
Klugbauer S, Rabes HM
Oncogene. 1999 ; 18 (30) : 4388-4393.
PMID 10439047
 
A possible involvement of TIF1 alpha and TIF1 beta in the epigenetic control of transcription by nuclear receptors.
Le Douarin B, Nielsen AL, Garnier JM, Ichinose H, Jeanmougin F, Losson R, Chambon P
The EMBO journal. 1996 ; 15 (23) : 6701-6715.
PMID 8978696
 
Differential interaction of nuclear receptors with the putative human transcriptional coactivator hTIF1.
Thénot S, Henriquet C, Rochefort H, Cavaillè V
The Journal of biological chemistry. 1997 ; 272 (18) : 12062-12068.
PMID 9115274
 
Role of TIF1alpha as a modulator of embryonic transcription in the mouse zygote.
Torres-Padilla ME, Zernicka-Goetz M
The Journal of cell biology. 2006 ; 174 (3) : 329-338.
PMID 16880268
 

Citation

This paper should be referenced as such :
Huret JL
TRIM24 (tripartite motif-containing 24);
Atlas Genet Cytogenet Oncol Haematol. in press
On line version : http://AtlasGeneticsOncology.org/Genes/TRIM24ID504ch7q34.html
History of this paper:
Huret, JL. TRIM 24 (tripartite motif-containing 24). Atlas Genet Cytogenet Oncol Haematol. 2007;11(2):111-112.
http://documents.irevues.inist.fr/bitstream/handle/2042/38410/12-2006-TRIM24ID504ch7q34.pdf


Other Leukemias implicated (Data extracted from papers in the Atlas) [ 2 ]
  8p11 myeloproliferative syndrome (FGFR1)
t(7;8)(q34;p11) TRIM24/FGFR1


External links

Nomenclature
HGNC (Hugo)TRIM24   11812
Cards
AtlasTRIM24ID504ch7q34
Entrez_Gene (NCBI)TRIM24  8805  tripartite motif containing 24
AliasesPTC6; RNF82; TF1A; TIF1; 
TIF1A; TIF1ALPHA; hTIF1
GeneCards (Weizmann)TRIM24
Ensembl hg19 (Hinxton)ENSG00000122779 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000122779 [Gene_View]  chr7:138460334-138585587 [Contig_View]  TRIM24 [Vega]
ICGC DataPortalENSG00000122779
TCGA cBioPortalTRIM24
AceView (NCBI)TRIM24
Genatlas (Paris)TRIM24
WikiGenes8805
SOURCE (Princeton)TRIM24
Genetics Home Reference (NIH)TRIM24
Genomic and cartography
GoldenPath hg38 (UCSC)TRIM24  -     chr7:138460334-138585587 +  7q33-q34   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)TRIM24  -     7q33-q34   [Description]    (hg19-Feb_2009)
EnsemblTRIM24 - 7q33-q34 [CytoView hg19]  TRIM24 - 7q33-q34 [CytoView hg38]
Mapping of homologs : NCBITRIM24 [Mapview hg19]  TRIM24 [Mapview hg38]
OMIM188550   603406   
Gene and transcription
Genbank (Entrez)AA844662 AF009353 AF119042 AK075306 AK302679
RefSeq transcript (Entrez)NM_003852 NM_015905
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)TRIM24
Cluster EST : UnigeneHs.490287 [ NCBI ]
CGAP (NCI)Hs.490287
Alternative Splicing GalleryENSG00000122779
Gene ExpressionTRIM24 [ NCBI-GEO ]   TRIM24 [ EBI - ARRAY_EXPRESS ]   TRIM24 [ SEEK ]   TRIM24 [ MEM ]
Gene Expression Viewer (FireBrowse)TRIM24 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)8805
GTEX Portal (Tissue expression)TRIM24
Human Protein AtlasENSG00000122779-TRIM24 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtO15164   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtO15164  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProO15164
Splice isoforms : SwissVarO15164
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 ]   
PhosPhoSitePlusO15164
Domaine pattern : Prosite (Expaxy)BROMODOMAIN_1 (PS00633)    BROMODOMAIN_2 (PS50014)    ZF_BBOX (PS50119)    ZF_PHD_1 (PS01359)    ZF_PHD_2 (PS50016)    ZF_RING_1 (PS00518)    ZF_RING_2 (PS50089)   
Domains : Interpro (EBI)Bbox_C    Bromodomain    Bromodomain_CS    Zinc_finger_PHD-type_CS    Znf_B-box    Znf_FYVE_PHD    Znf_PHD    Znf_PHD-finger    Znf_RING    Znf_RING/FYVE/PHD    Znf_RING_CS   
Domain families : Pfam (Sanger)Bromodomain (PF00439)    PHD (PF00628)    zf-B_box (PF00643)   
Domain families : Pfam (NCBI)pfam00439    pfam00628    pfam00643   
Domain families : Smart (EMBL)BBC (SM00502)  BBOX (SM00336)  BROMO (SM00297)  PHD (SM00249)  RING (SM00184)  
Conserved Domain (NCBI)TRIM24
DMDM Disease mutations8805
Blocks (Seattle)TRIM24
PDB (SRS)2YYN    3O33    3O34    3O35    3O36    3O37    4YAB    4YAD    4YAT    4YAX    4YBM    4YBS    4YBT    4YC9    4ZQL   
PDB (PDBSum)2YYN    3O33    3O34    3O35    3O36    3O37    4YAB    4YAD    4YAT    4YAX    4YBM    4YBS    4YBT    4YC9    4ZQL   
PDB (IMB)2YYN    3O33    3O34    3O35    3O36    3O37    4YAB    4YAD    4YAT    4YAX    4YBM    4YBS    4YBT    4YC9    4ZQL   
PDB (RSDB)2YYN    3O33    3O34    3O35    3O36    3O37    4YAB    4YAD    4YAT    4YAX    4YBM    4YBS    4YBT    4YC9    4ZQL   
Structural Biology KnowledgeBase2YYN    3O33    3O34    3O35    3O36    3O37    4YAB    4YAD    4YAT    4YAX    4YBM    4YBS    4YBT    4YC9    4ZQL   
SCOP (Structural Classification of Proteins)2YYN    3O33    3O34    3O35    3O36    3O37    4YAB    4YAD    4YAT    4YAX    4YBM    4YBS    4YBT    4YC9    4ZQL   
CATH (Classification of proteins structures)2YYN    3O33    3O34    3O35    3O36    3O37    4YAB    4YAD    4YAT    4YAX    4YBM    4YBS    4YBT    4YC9    4ZQL   
SuperfamilyO15164
Human Protein Atlas [tissue]ENSG00000122779-TRIM24 [tissue]
Peptide AtlasO15164
HPRD04556
IPIIPI00005184   IPI00184317   IPI01012915   IPI00444332   IPI00925852   IPI00926068   
Protein Interaction databases
DIP (DOE-UCLA)O15164
IntAct (EBI)O15164
FunCoupENSG00000122779
BioGRIDTRIM24
STRING (EMBL)TRIM24
ZODIACTRIM24
Ontologies - Pathways
QuickGOO15164
Ontology : AmiGOp53 binding  chromatin binding  transcription coactivator activity  protein tyrosine kinase activity  ubiquitin-protein transferase activity  receptor binding  protein binding  nucleus  nucleoplasm  nuclear euchromatin  perichromatin fibrils  cytosol  transcription from RNA polymerase II promoter  zinc ion binding  negative regulation of cell proliferation  protein ubiquitination  protein ubiquitination  ligand-dependent nuclear receptor binding  peptidyl-tyrosine phosphorylation  protein catabolic process  regulation of protein stability  estrogen response element binding  methylated histone binding  regulation of apoptotic process  sequence-specific DNA binding  negative regulation of transcription, DNA-templated  positive regulation of transcription, DNA-templated  protein autophosphorylation  calcium ion homeostasis  ubiquitin protein ligase activity  regulation of vitamin D receptor signaling pathway  lysine-acetylated histone binding  cellular response to estrogen stimulus  regulation of signal transduction by p53 class mediator  
Ontology : EGO-EBIp53 binding  chromatin binding  transcription coactivator activity  protein tyrosine kinase activity  ubiquitin-protein transferase activity  receptor binding  protein binding  nucleus  nucleoplasm  nuclear euchromatin  perichromatin fibrils  cytosol  transcription from RNA polymerase II promoter  zinc ion binding  negative regulation of cell proliferation  protein ubiquitination  protein ubiquitination  ligand-dependent nuclear receptor binding  peptidyl-tyrosine phosphorylation  protein catabolic process  regulation of protein stability  estrogen response element binding  methylated histone binding  regulation of apoptotic process  sequence-specific DNA binding  negative regulation of transcription, DNA-templated  positive regulation of transcription, DNA-templated  protein autophosphorylation  calcium ion homeostasis  ubiquitin protein ligase activity  regulation of vitamin D receptor signaling pathway  lysine-acetylated histone binding  cellular response to estrogen stimulus  regulation of signal transduction by p53 class mediator  
REACTOMEO15164 [protein]
REACTOME PathwaysR-HSA-6802952 [pathway]   
NDEx NetworkTRIM24
Atlas of Cancer Signalling NetworkTRIM24
Wikipedia pathwaysTRIM24
Orthology - Evolution
OrthoDB8805
GeneTree (enSembl)ENSG00000122779
Phylogenetic Trees/Animal Genes : TreeFamTRIM24
HOVERGENO15164
HOGENOMO15164
Homologs : HomoloGeneTRIM24
Homology/Alignments : Family Browser (UCSC)TRIM24
Gene fusions - Rearrangements
Fusion : MitelmanTRIM24/FGFR1 [7q33/8p11.23]  
Fusion : MitelmanTRIM24/NTRK2 [7q33/9q21.33]  [t(7;9)(q34;q21)]  
Fusion : MitelmanTRIM24/RET [7q33/10q11.21]  [t(7;10)(q34;q11)]  
Fusion : MitelmanTRIM24/ULK4 [7q33/3p22.1]  [t(3;7)(p22;q34)]  
Fusion : COSMICTRIM24 [7q33]  -  RET [10q11.21]  [fusion_1521]  [fusion_1522]  
Fusion: TCGATRIM24 7q33 NTRK2 9q21.33 LUAD
Fusion: TCGATRIM24 7q33 SVOPL 7q34 BRCA
Fusion: TCGATRIM24 7q33 ULK4 3p22.1 BRCA
Fusion : TICdbTRIM24 [7q33]  -  FGFR1 [8p11.23]
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerTRIM24 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)TRIM24
dbVarTRIM24
ClinVarTRIM24
1000_GenomesTRIM24 
Exome Variant ServerTRIM24
ExAC (Exome Aggregation Consortium)ENSG00000122779
GNOMAD BrowserENSG00000122779
Genetic variants : HAPMAP8805
Genomic Variants (DGV)TRIM24 [DGVbeta]
DECIPHERTRIM24 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisTRIM24 
Mutations
ICGC Data PortalTRIM24 
TCGA Data PortalTRIM24 
Broad Tumor PortalTRIM24
OASIS PortalTRIM24 [ Somatic mutations - Copy number]
Cancer Gene: CensusTRIM24 
Somatic Mutations in Cancer : COSMICTRIM24  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDTRIM24
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 TRIM24
DgiDB (Drug Gene Interaction Database)TRIM24
DoCM (Curated mutations)TRIM24 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)TRIM24 (select a term)
intoGenTRIM24
NCG5 (London)TRIM24
Cancer3DTRIM24(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM188550    603406   
Orphanet905   
MedgenTRIM24
Genetic Testing Registry TRIM24
NextProtO15164 [Medical]
TSGene8805
GENETestsTRIM24
Target ValidationTRIM24
Huge Navigator TRIM24 [HugePedia]
snp3D : Map Gene to Disease8805
BioCentury BCIQTRIM24
ClinGenTRIM24
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD8805
Chemical/Pharm GKB GenePA36519
Clinical trialTRIM24
Miscellaneous
canSAR (ICR)TRIM24 (select the gene name)
Probes
Litterature
PubMed68 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineTRIM24
EVEXTRIM24
GoPubMedTRIM24
iHOPTRIM24
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Thu Oct 12 16:36:02 CEST 2017

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