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KDM4D (lysine demethylase 4D)

Identity

Alias_namesJMJD2D
jumonji domain containing 2D
lysine (K)-specific demethylase 4D
Alias_symbol (synonym)FLJ10251
Other alias
HGNC (Hugo) KDM4D
LocusID (NCBI) 55693
Atlas_Id 47034
Location 11q21  [Link to chromosome band 11q21]
Location_base_pair Starts at 94973681 and ends at 94999512 bp from pter ( according to hg38-Dec_2013)

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)KDM4D   25498
Cards
Entrez_Gene (NCBI)KDM4D  55693  lysine demethylase 4D
AliasesJMJD2D
GeneCards (Weizmann)KDM4D
Ensembl hg19 (Hinxton)ENSG00000186280 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000186280 [Gene_View]  chr11:94973681-94999512 [Contig_View]  KDM4D [Vega]
ICGC DataPortalENSG00000186280
TCGA cBioPortalKDM4D
AceView (NCBI)KDM4D
Genatlas (Paris)KDM4D
WikiGenes55693
SOURCE (Princeton)KDM4D
Genetics Home Reference (NIH)KDM4D
Genomic and cartography
GoldenPath hg38 (UCSC)KDM4D  -     chr11:94973681-94999512 +  11q21   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)KDM4D  -     11q21   [Description]    (hg19-Feb_2009)
EnsemblKDM4D - 11q21 [CytoView hg19]  KDM4D - 11q21 [CytoView hg38]
Mapping of homologs : NCBIKDM4D [Mapview hg19]  KDM4D [Mapview hg38]
OMIM609766   
Gene and transcription
Genbank (Entrez)AK001113 AK056162 AL137545 AW593120 BC031862
RefSeq transcript (Entrez)NM_018039
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)KDM4D
Cluster EST : UnigeneHs.503598 [ NCBI ]
CGAP (NCI)Hs.503598
Alternative Splicing GalleryENSG00000186280
Gene ExpressionKDM4D [ NCBI-GEO ]   KDM4D [ EBI - ARRAY_EXPRESS ]   KDM4D [ SEEK ]   KDM4D [ MEM ]
Gene Expression Viewer (FireBrowse)KDM4D [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)55693
GTEX Portal (Tissue expression)KDM4D
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ6B0I6   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ6B0I6  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ6B0I6
Splice isoforms : SwissVarQ6B0I6
Catalytic activity : Enzyme1.14.11.- [ Enzyme-Expasy ]   1.14.11.-1.14.11.- [ IntEnz-EBI ]   1.14.11.- [ BRENDA ]   1.14.11.- [ KEGG ]   
PhosPhoSitePlusQ6B0I6
Domaine pattern : Prosite (Expaxy)JMJC (PS51184)    JMJN (PS51183)   
Domains : Interpro (EBI)JmjC_dom    JmjN   
Domain families : Pfam (Sanger)JmjC (PF02373)    JmjN (PF02375)   
Domain families : Pfam (NCBI)pfam02373    pfam02375   
Domain families : Smart (EMBL)JmjC (SM00558)  JmjN (SM00545)  
Conserved Domain (NCBI)KDM4D
DMDM Disease mutations55693
Blocks (Seattle)KDM4D
PDB (SRS)3DXT    3DXU    4D6Q    4D6R    4D6S    4HON    4HOO    5F5A    5F5C    5FP4    5FP7    5FP8    5FP9    5FPA    5FPB   
PDB (PDBSum)3DXT    3DXU    4D6Q    4D6R    4D6S    4HON    4HOO    5F5A    5F5C    5FP4    5FP7    5FP8    5FP9    5FPA    5FPB   
PDB (IMB)3DXT    3DXU    4D6Q    4D6R    4D6S    4HON    4HOO    5F5A    5F5C    5FP4    5FP7    5FP8    5FP9    5FPA    5FPB   
PDB (RSDB)3DXT    3DXU    4D6Q    4D6R    4D6S    4HON    4HOO    5F5A    5F5C    5FP4    5FP7    5FP8    5FP9    5FPA    5FPB   
Structural Biology KnowledgeBase3DXT    3DXU    4D6Q    4D6R    4D6S    4HON    4HOO    5F5A    5F5C    5FP4    5FP7    5FP8    5FP9    5FPA    5FPB   
SCOP (Structural Classification of Proteins)3DXT    3DXU    4D6Q    4D6R    4D6S    4HON    4HOO    5F5A    5F5C    5FP4    5FP7    5FP8    5FP9    5FPA    5FPB   
CATH (Classification of proteins structures)3DXT    3DXU    4D6Q    4D6R    4D6S    4HON    4HOO    5F5A    5F5C    5FP4    5FP7    5FP8    5FP9    5FPA    5FPB   
SuperfamilyQ6B0I6
Human Protein AtlasENSG00000186280
Peptide AtlasQ6B0I6
HPRD17169
IPIIPI00017991   
Protein Interaction databases
DIP (DOE-UCLA)Q6B0I6
IntAct (EBI)Q6B0I6
FunCoupENSG00000186280
BioGRIDKDM4D
STRING (EMBL)KDM4D
ZODIACKDM4D
Ontologies - Pathways
QuickGOQ6B0I6
Ontology : AmiGOdouble-strand break repair via homologous recombination  regulation of protein phosphorylation  damaged DNA binding  nucleoplasm  pericentric heterochromatin  transcription, DNA-templated  regulation of transcription, DNA-templated  chromatin DNA binding  histone demethylase activity  histone demethylase activity (H3-K9 specific)  histone H3-K9 demethylation  positive regulation of chromatin binding  site of double-strand break  metal ion binding  dioxygenase activity  oxidation-reduction process  cellular response to ionizing radiation  blood microparticle  negative regulation of histone H3-K9 trimethylation  positive regulation of double-strand break repair via nonhomologous end joining  
Ontology : EGO-EBIdouble-strand break repair via homologous recombination  regulation of protein phosphorylation  damaged DNA binding  nucleoplasm  pericentric heterochromatin  transcription, DNA-templated  regulation of transcription, DNA-templated  chromatin DNA binding  histone demethylase activity  histone demethylase activity (H3-K9 specific)  histone H3-K9 demethylation  positive regulation of chromatin binding  site of double-strand break  metal ion binding  dioxygenase activity  oxidation-reduction process  cellular response to ionizing radiation  blood microparticle  negative regulation of histone H3-K9 trimethylation  positive regulation of double-strand break repair via nonhomologous end joining  
NDEx NetworkKDM4D
Atlas of Cancer Signalling NetworkKDM4D
Wikipedia pathwaysKDM4D
Orthology - Evolution
OrthoDB55693
GeneTree (enSembl)ENSG00000186280
Phylogenetic Trees/Animal Genes : TreeFamKDM4D
HOVERGENQ6B0I6
HOGENOMQ6B0I6
Homologs : HomoloGeneKDM4D
Homology/Alignments : Family Browser (UCSC)KDM4D
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerKDM4D [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)KDM4D
dbVarKDM4D
ClinVarKDM4D
1000_GenomesKDM4D 
Exome Variant ServerKDM4D
ExAC (Exome Aggregation Consortium)KDM4D (select the gene name)
Genetic variants : HAPMAP55693
Genomic Variants (DGV)KDM4D [DGVbeta]
DECIPHERKDM4D [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisKDM4D 
Mutations
ICGC Data PortalKDM4D 
TCGA Data PortalKDM4D 
Broad Tumor PortalKDM4D
OASIS PortalKDM4D [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICKDM4D  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDKDM4D
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 KDM4D
DgiDB (Drug Gene Interaction Database)KDM4D
DoCM (Curated mutations)KDM4D (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)KDM4D (select a term)
intoGenKDM4D
Cancer3DKDM4D(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM609766   
Orphanet
MedgenKDM4D
Genetic Testing Registry KDM4D
NextProtQ6B0I6 [Medical]
TSGene55693
GENETestsKDM4D
Huge Navigator KDM4D [HugePedia]
snp3D : Map Gene to Disease55693
BioCentury BCIQKDM4D
ClinGenKDM4D
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD55693
Chemical/Pharm GKB GenePA164721552
Clinical trialKDM4D
Miscellaneous
canSAR (ICR)KDM4D (select the gene name)
Probes
Litterature
PubMed21 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineKDM4D
EVEXKDM4D
GoPubMedKDM4D
iHOPKDM4D
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Fri May 19 12:21:24 CEST 2017

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