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

KDM4A (lysine demethylase 4A)

Identity

Alias_namesJMJD2
JMJD2A
jumonji domain containing 2
jumonji domain containing 2A
lysine (K)-specific demethylase 4A
Alias_symbol (synonym)KIAA0677
JHDM3A
TDRD14A
Other alias
HGNC (Hugo) KDM4A
LocusID (NCBI) 9682
Atlas_Id 50835
Location 1p34.2  [Link to chromosome band 1p34]
Location_base_pair Starts at 43650126 and ends at 43705518 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
KDM4A (1p34.1) / AKR1B1 (7q33)KDM4A (1p34.1) / CREB3L4 (1q21.3)KDM4A (1p34.1) / CSE1L (20q13.13)
KDM4A (1p34.1) / HYI (1p34.2)KDM4A (1p34.1) / KDM4A (1p34.1)KDM4A (1p34.1) / PNKD (2q35)
KDM4A (1p34.1) / PTPRF (1p34.2)KDM4A (1p34.1) / RYBP (3p13)KDM4A 1p34.1 / CREB3L4 1q21.3
KDM4A 1p34.1 / HYI 1p34.2KDM4A 1p34.1 / PTPRF 1p34.2KDM4A 1p34.1 / RYBP 3p13

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)KDM4A   22978
Cards
Entrez_Gene (NCBI)KDM4A  9682  lysine demethylase 4A
AliasesJHDM3A; JMJD2; JMJD2A; TDRD14A
GeneCards (Weizmann)KDM4A
Ensembl hg19 (Hinxton)ENSG00000066135 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000066135 [Gene_View]  chr1:43650126-43705518 [Contig_View]  KDM4A [Vega]
ICGC DataPortalENSG00000066135
TCGA cBioPortalKDM4A
AceView (NCBI)KDM4A
Genatlas (Paris)KDM4A
WikiGenes9682
SOURCE (Princeton)KDM4A
Genetics Home Reference (NIH)KDM4A
Genomic and cartography
GoldenPath hg38 (UCSC)KDM4A  -     chr1:43650126-43705518 +  1p34.2   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)KDM4A  -     1p34.2   [Description]    (hg19-Feb_2009)
EnsemblKDM4A - 1p34.2 [CytoView hg19]  KDM4A - 1p34.2 [CytoView hg38]
Mapping of homologs : NCBIKDM4A [Mapview hg19]  KDM4A [Mapview hg38]
OMIM609764   
Gene and transcription
Genbank (Entrez)AB014577 AK294596 AK300039 AK310295 BC002558
RefSeq transcript (Entrez)NM_014663
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)KDM4A
Cluster EST : UnigeneHs.155983 [ NCBI ]
CGAP (NCI)Hs.155983
Alternative Splicing GalleryENSG00000066135
Gene ExpressionKDM4A [ NCBI-GEO ]   KDM4A [ EBI - ARRAY_EXPRESS ]   KDM4A [ SEEK ]   KDM4A [ MEM ]
Gene Expression Viewer (FireBrowse)KDM4A [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)9682
GTEX Portal (Tissue expression)KDM4A
Protein : pattern, domain, 3D structure
UniProt/SwissProtO75164   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtO75164  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProO75164
Splice isoforms : SwissVarO75164
Catalytic activity : Enzyme1.14.11.- [ Enzyme-Expasy ]   1.14.11.-1.14.11.- [ IntEnz-EBI ]   1.14.11.- [ BRENDA ]   1.14.11.- [ KEGG ]   
PhosPhoSitePlusO75164
Domaine pattern : Prosite (Expaxy)EPHD (PS51805)    JMJC (PS51184)    JMJN (PS51183)   
Domains : Interpro (EBI)JmjC_dom    JmjN    Tudor    Znf_FYVE_PHD    Znf_PHD    Znf_RING/FYVE/PHD   
Domain families : Pfam (Sanger)JmjC (PF02373)    JmjN (PF02375)   
Domain families : Pfam (NCBI)pfam02373    pfam02375   
Domain families : Smart (EMBL)JmjC (SM00558)  JmjN (SM00545)  PHD (SM00249)  TUDOR (SM00333)  
Conserved Domain (NCBI)KDM4A
DMDM Disease mutations9682
Blocks (Seattle)KDM4A
PDB (SRS)###############################################################################################################################################################################################################################################################   
PDB (PDBSum)###############################################################################################################################################################################################################################################################   
PDB (IMB)###############################################################################################################################################################################################################################################################   
PDB (RSDB)###############################################################################################################################################################################################################################################################   
Structural Biology KnowledgeBase###############################################################################################################################################################################################################################################################   
SCOP (Structural Classification of Proteins)###############################################################################################################################################################################################################################################################   
CATH (Classification of proteins structures)###############################################################################################################################################################################################################################################################   
SuperfamilyO75164
Human Protein AtlasENSG00000066135
Peptide AtlasO75164
HPRD17168
IPIIPI00005666   IPI00909921   
Protein Interaction databases
DIP (DOE-UCLA)O75164
IntAct (EBI)O75164
FunCoupENSG00000066135
BioGRIDKDM4A
STRING (EMBL)KDM4A
ZODIACKDM4A
Ontologies - Pathways
QuickGOO75164
Ontology : AmiGOfibrillar center  protein binding  nucleus  nucleoplasm  pericentric heterochromatin  cytosol  transcription, DNA-templated  zinc ion binding  negative regulation of autophagy  positive regulation of gene expression  negative regulation of gene expression  cardiac muscle hypertrophy in response to stress  viral process  histone demethylation  ubiquitin protein ligase binding  response to nutrient levels  histone demethylase activity  methylated histone binding  positive regulation of neuron differentiation  negative regulation of transcription, DNA-templated  negative regulation of astrocyte differentiation  histone demethylase activity (H3-K36 specific)  oxidation-reduction process  negative regulation of cell death  histone H3-K36 demethylation  negative regulation of histone H3-K9 trimethylation  
Ontology : EGO-EBIfibrillar center  protein binding  nucleus  nucleoplasm  pericentric heterochromatin  cytosol  transcription, DNA-templated  zinc ion binding  negative regulation of autophagy  positive regulation of gene expression  negative regulation of gene expression  cardiac muscle hypertrophy in response to stress  viral process  histone demethylation  ubiquitin protein ligase binding  response to nutrient levels  histone demethylase activity  methylated histone binding  positive regulation of neuron differentiation  negative regulation of transcription, DNA-templated  negative regulation of astrocyte differentiation  histone demethylase activity (H3-K36 specific)  oxidation-reduction process  negative regulation of cell death  histone H3-K36 demethylation  negative regulation of histone H3-K9 trimethylation  
NDEx NetworkKDM4A
Atlas of Cancer Signalling NetworkKDM4A
Wikipedia pathwaysKDM4A
Orthology - Evolution
OrthoDB9682
GeneTree (enSembl)ENSG00000066135
Phylogenetic Trees/Animal Genes : TreeFamKDM4A
HOVERGENO75164
HOGENOMO75164
Homologs : HomoloGeneKDM4A
Homology/Alignments : Family Browser (UCSC)KDM4A
Gene fusions - Rearrangements
Fusion : MitelmanKDM4A/CREB3L4 [1p34.1/1q21.3]  
Fusion : MitelmanKDM4A/HYI [1p34.1/1p34.2]  [t(1;1)(p34;p34)]  
Fusion : MitelmanKDM4A/PNKD [1p34.1/2q35]  [t(1;2)(p34;q35)]  
Fusion : MitelmanKDM4A/PTPRF [1p34.1/1p34.2]  [t(1;1)(p34;p34)]  
Fusion : MitelmanKDM4A/RYBP [1p34.1/3p13]  [t(1;3)(p34;p13)]  
Fusion: TCGAKDM4A 1p34.1 CREB3L4 1q21.3 BRCA
Fusion: TCGAKDM4A 1p34.1 HYI 1p34.2 BRCA
Fusion: TCGAKDM4A 1p34.1 PTPRF 1p34.2 BRCA
Fusion: TCGAKDM4A 1p34.1 RYBP 3p13 LUAD
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerKDM4A [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)KDM4A
dbVarKDM4A
ClinVarKDM4A
1000_GenomesKDM4A 
Exome Variant ServerKDM4A
ExAC (Exome Aggregation Consortium)KDM4A (select the gene name)
Genetic variants : HAPMAP9682
Genomic Variants (DGV)KDM4A [DGVbeta]
DECIPHERKDM4A [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisKDM4A 
Mutations
ICGC Data PortalKDM4A 
TCGA Data PortalKDM4A 
Broad Tumor PortalKDM4A
OASIS PortalKDM4A [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICKDM4A  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDKDM4A
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
BioMutasearch KDM4A
DgiDB (Drug Gene Interaction Database)KDM4A
DoCM (Curated mutations)KDM4A (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)KDM4A (select a term)
intoGenKDM4A
Cancer3DKDM4A(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM609764   
Orphanet
MedgenKDM4A
Genetic Testing Registry KDM4A
NextProtO75164 [Medical]
TSGene9682
GENETestsKDM4A
Target ValidationKDM4A
Huge Navigator KDM4A [HugePedia]
snp3D : Map Gene to Disease9682
BioCentury BCIQKDM4A
ClinGenKDM4A
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD9682
Chemical/Pharm GKB GenePA164721403
Clinical trialKDM4A
Miscellaneous
canSAR (ICR)KDM4A (select the gene name)
Probes
Litterature
PubMed70 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineKDM4A
EVEXKDM4A
GoPubMedKDM4A
iHOPKDM4A
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 Sep 18 13:56:57 CEST 2017

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.