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KDM1A (lysine demethylase 1A)

Identity

Alias_namesAOF2
KDM1
amine oxidase (flavin containing) domain 2
lysine (K)-specific demethylase 1
Alias_symbol (synonym)KIAA0601
BHC110
LSD1
Other aliasCPRF
HGNC (Hugo) KDM1A
LocusID (NCBI) 23028
Atlas_Id 51150
Location 1p36.12  [Link to chromosome band 1p36]
Location_base_pair Starts at 23345941 and ends at 23410184 bp from pter ( according to hg19-Feb_2009)
Fusion genes
(updated 2016)
HNRNPR (1p36.12) / KDM1A (1p36.12)KDM1A (1p36.12) / KDM1A (1p36.12)

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)KDM1A   29079
Cards
Entrez_Gene (NCBI)KDM1A  23028  lysine demethylase 1A
AliasesAOF2; BHC110; CPRF; KDM1; 
LSD1
GeneCards (Weizmann)KDM1A
Ensembl hg19 (Hinxton)ENSG00000004487 [Gene_View]  chr1:23345941-23410184 [Contig_View]  KDM1A [Vega]
Ensembl hg38 (Hinxton)ENSG00000004487 [Gene_View]  chr1:23345941-23410184 [Contig_View]  KDM1A [Vega]
ICGC DataPortalENSG00000004487
TCGA cBioPortalKDM1A
AceView (NCBI)KDM1A
Genatlas (Paris)KDM1A
WikiGenes23028
SOURCE (Princeton)KDM1A
Genetics Home Reference (NIH)KDM1A
Genomic and cartography
GoldenPath hg19 (UCSC)KDM1A  -     chr1:23345941-23410184 +  1p36.12   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)KDM1A  -     1p36.12   [Description]    (hg38-Dec_2013)
EnsemblKDM1A - 1p36.12 [CytoView hg19]  KDM1A - 1p36.12 [CytoView hg38]
Mapping of homologs : NCBIKDM1A [Mapview hg19]  KDM1A [Mapview hg38]
OMIM609132   
Gene and transcription
Genbank (Entrez)AA664447 AB011173 AK128669 AK290328 AL833812
RefSeq transcript (Entrez)NM_001009999 NM_015013
RefSeq genomic (Entrez)NC_000001 NC_018912 NT_032977 NW_004929289
Consensus coding sequences : CCDS (NCBI)KDM1A
Cluster EST : UnigeneHs.591518 [ NCBI ]
CGAP (NCI)Hs.591518
Alternative Splicing GalleryENSG00000004487
Gene ExpressionKDM1A [ NCBI-GEO ]   KDM1A [ EBI - ARRAY_EXPRESS ]   KDM1A [ SEEK ]   KDM1A [ MEM ]
Gene Expression Viewer (FireBrowse)KDM1A [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)23028
GTEX Portal (Tissue expression)KDM1A
Protein : pattern, domain, 3D structure
UniProt/SwissProtO60341   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtO60341  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProO60341
Splice isoforms : SwissVarO60341
Catalytic activity : Enzyme1.-.-.- [ Enzyme-Expasy ]   1.-.-.-1.-.-.- [ IntEnz-EBI ]   1.-.-.- [ BRENDA ]   1.-.-.- [ KEGG ]   
PhosPhoSitePlusO60341
Domaine pattern : Prosite (Expaxy)SWIRM (PS50934)   
Domains : Interpro (EBI)Amino_oxidase    FAD/NAD-binding_dom    Hist_Lys-spec_deMease    Homeodomain-like    SWIRM    WHTH_DNA-bd_dom   
Domain families : Pfam (Sanger)Amino_oxidase (PF01593)    SWIRM (PF04433)   
Domain families : Pfam (NCBI)pfam01593    pfam04433   
Conserved Domain (NCBI)KDM1A
DMDM Disease mutations23028
Blocks (Seattle)KDM1A
PDB (SRS)2COM    2DW4    2EJR    2H94    2HKO    2IW5    2L3D    2UXN    2UXX    2V1D    2X0L    2XAF    2XAG    2XAH    2XAJ    2XAQ    2XAS    2Y48    2Z3Y    2Z5U    3ABT    3ABU    3ZMS    3ZMT    3ZMU    3ZMV    3ZMZ    3ZN0    3ZN1    4BAY    4CZZ    4KUM    4UV8    4UV9    4UVA    4UVB    4UVC    4UXN    5AFW   
PDB (PDBSum)2COM    2DW4    2EJR    2H94    2HKO    2IW5    2L3D    2UXN    2UXX    2V1D    2X0L    2XAF    2XAG    2XAH    2XAJ    2XAQ    2XAS    2Y48    2Z3Y    2Z5U    3ABT    3ABU    3ZMS    3ZMT    3ZMU    3ZMV    3ZMZ    3ZN0    3ZN1    4BAY    4CZZ    4KUM    4UV8    4UV9    4UVA    4UVB    4UVC    4UXN    5AFW   
PDB (IMB)2COM    2DW4    2EJR    2H94    2HKO    2IW5    2L3D    2UXN    2UXX    2V1D    2X0L    2XAF    2XAG    2XAH    2XAJ    2XAQ    2XAS    2Y48    2Z3Y    2Z5U    3ABT    3ABU    3ZMS    3ZMT    3ZMU    3ZMV    3ZMZ    3ZN0    3ZN1    4BAY    4CZZ    4KUM    4UV8    4UV9    4UVA    4UVB    4UVC    4UXN    5AFW   
PDB (RSDB)2COM    2DW4    2EJR    2H94    2HKO    2IW5    2L3D    2UXN    2UXX    2V1D    2X0L    2XAF    2XAG    2XAH    2XAJ    2XAQ    2XAS    2Y48    2Z3Y    2Z5U    3ABT    3ABU    3ZMS    3ZMT    3ZMU    3ZMV    3ZMZ    3ZN0    3ZN1    4BAY    4CZZ    4KUM    4UV8    4UV9    4UVA    4UVB    4UVC    4UXN    5AFW   
Structural Biology KnowledgeBase2COM    2DW4    2EJR    2H94    2HKO    2IW5    2L3D    2UXN    2UXX    2V1D    2X0L    2XAF    2XAG    2XAH    2XAJ    2XAQ    2XAS    2Y48    2Z3Y    2Z5U    3ABT    3ABU    3ZMS    3ZMT    3ZMU    3ZMV    3ZMZ    3ZN0    3ZN1    4BAY    4CZZ    4KUM    4UV8    4UV9    4UVA    4UVB    4UVC    4UXN    5AFW   
SCOP (Structural Classification of Proteins)2COM    2DW4    2EJR    2H94    2HKO    2IW5    2L3D    2UXN    2UXX    2V1D    2X0L    2XAF    2XAG    2XAH    2XAJ    2XAQ    2XAS    2Y48    2Z3Y    2Z5U    3ABT    3ABU    3ZMS    3ZMT    3ZMU    3ZMV    3ZMZ    3ZN0    3ZN1    4BAY    4CZZ    4KUM    4UV8    4UV9    4UVA    4UVB    4UVC    4UXN    5AFW   
CATH (Classification of proteins structures)2COM    2DW4    2EJR    2H94    2HKO    2IW5    2L3D    2UXN    2UXX    2V1D    2X0L    2XAF    2XAG    2XAH    2XAJ    2XAQ    2XAS    2Y48    2Z3Y    2Z5U    3ABT    3ABU    3ZMS    3ZMT    3ZMU    3ZMV    3ZMZ    3ZN0    3ZN1    4BAY    4CZZ    4KUM    4UV8    4UV9    4UVA    4UVB    4UVC    4UXN    5AFW   
SuperfamilyO60341
Human Protein AtlasENSG00000004487
Peptide AtlasO60341
HPRD09800
IPIIPI00456631   IPI00217540   IPI01015618   
Protein Interaction databases
DIP (DOE-UCLA)O60341
IntAct (EBI)O60341
FunCoupENSG00000004487
BioGRIDKDM1A
STRING (EMBL)KDM1A
ZODIACKDM1A
Ontologies - Pathways
QuickGOO60341
Ontology : AmiGOnegative regulation of transcription from RNA polymerase II promoter  negative regulation of transcription from RNA polymerase II promoter  nuclear chromosome, telomeric region  nuclear chromatin  nuclear chromatin  RNA polymerase II transcription factor binding  in utero embryonic development  p53 binding  chromatin binding  transcription factor activity, sequence-specific DNA binding  histone deacetylase activity  protein binding  nucleus  nucleoplasm  nucleoplasm  transcription factor complex  transcription, DNA-templated  regulation of transcription from RNA polymerase II promoter  protein demethylation  blood coagulation  transcription factor binding  cell proliferation  regulation of double-strand break repair via homologous recombination  regulation of primitive erythrocyte differentiation  oxidoreductase activity  histone deacetylation  enzyme binding  pituitary gland development  ligand-dependent nuclear receptor transcription coactivator activity  granulocyte differentiation  negative regulation of protein binding  demethylase activity  histone demethylase activity  histone demethylase activity  histone demethylase activity  histone demethylase activity (H3-K4 specific)  histone demethylase activity (H3-K9 specific)  histone H3-K9 demethylation  positive regulation of histone ubiquitination  cellular response to UV  histone demethylase activity (H3-dimethyl-K4 specific)  histone H3-K4 demethylation  telomeric DNA binding  protein complex  negative regulation of DNA binding  MRF binding  negative regulation of sequence-specific DNA binding transcription factor activity  negative regulation of sequence-specific DNA binding transcription factor activity  negative regulation of DNA damage response, signal transduction by p53 class mediator  transcription regulatory region DNA binding  positive regulation of erythrocyte differentiation  positive regulation of megakaryocyte differentiation  negative regulation of transcription, DNA-templated  positive regulation of transcription from RNA polymerase II promoter  positive regulation of hormone biosynthetic process  flavin adenine dinucleotide binding  androgen receptor binding  positive regulation of sequence-specific DNA binding transcription factor activity  negative regulation of histone H3-K4 methylation  negative regulation of histone H3-K9 methylation  muscle cell development  oxidation-reduction process  telomeric repeat-containing RNA binding  cellular response to gamma radiation  negative regulation of intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator  regulation of cellular protein localization  DNA repair complex  positive regulation of neural precursor cell proliferation  positive regulation of stem cell proliferation  
Ontology : EGO-EBInegative regulation of transcription from RNA polymerase II promoter  negative regulation of transcription from RNA polymerase II promoter  nuclear chromosome, telomeric region  nuclear chromatin  nuclear chromatin  RNA polymerase II transcription factor binding  in utero embryonic development  p53 binding  chromatin binding  transcription factor activity, sequence-specific DNA binding  histone deacetylase activity  protein binding  nucleus  nucleoplasm  nucleoplasm  transcription factor complex  transcription, DNA-templated  regulation of transcription from RNA polymerase II promoter  protein demethylation  blood coagulation  transcription factor binding  cell proliferation  regulation of double-strand break repair via homologous recombination  regulation of primitive erythrocyte differentiation  oxidoreductase activity  histone deacetylation  enzyme binding  pituitary gland development  ligand-dependent nuclear receptor transcription coactivator activity  granulocyte differentiation  negative regulation of protein binding  demethylase activity  histone demethylase activity  histone demethylase activity  histone demethylase activity  histone demethylase activity (H3-K4 specific)  histone demethylase activity (H3-K9 specific)  histone H3-K9 demethylation  positive regulation of histone ubiquitination  cellular response to UV  histone demethylase activity (H3-dimethyl-K4 specific)  histone H3-K4 demethylation  telomeric DNA binding  protein complex  negative regulation of DNA binding  MRF binding  negative regulation of sequence-specific DNA binding transcription factor activity  negative regulation of sequence-specific DNA binding transcription factor activity  negative regulation of DNA damage response, signal transduction by p53 class mediator  transcription regulatory region DNA binding  positive regulation of erythrocyte differentiation  positive regulation of megakaryocyte differentiation  negative regulation of transcription, DNA-templated  positive regulation of transcription from RNA polymerase II promoter  positive regulation of hormone biosynthetic process  flavin adenine dinucleotide binding  androgen receptor binding  positive regulation of sequence-specific DNA binding transcription factor activity  negative regulation of histone H3-K4 methylation  negative regulation of histone H3-K9 methylation  muscle cell development  oxidation-reduction process  telomeric repeat-containing RNA binding  cellular response to gamma radiation  negative regulation of intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator  regulation of cellular protein localization  DNA repair complex  positive regulation of neural precursor cell proliferation  positive regulation of stem cell proliferation  
NDEx NetworkKDM1A
Atlas of Cancer Signalling NetworkKDM1A
Wikipedia pathwaysKDM1A
Orthology - Evolution
OrthoDB23028
GeneTree (enSembl)ENSG00000004487
Phylogenetic Trees/Animal Genes : TreeFamKDM1A
HOVERGENO60341
HOGENOMO60341
Homologs : HomoloGeneKDM1A
Homology/Alignments : Family Browser (UCSC)KDM1A
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerKDM1A [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)KDM1A
dbVarKDM1A
ClinVarKDM1A
1000_GenomesKDM1A 
Exome Variant ServerKDM1A
ExAC (Exome Aggregation Consortium)KDM1A (select the gene name)
Genetic variants : HAPMAP23028
Genomic Variants (DGV)KDM1A [DGVbeta]
DECIPHER (Syndromes)1:23345941-23410184  ENSG00000004487
CONAN: Copy Number AnalysisKDM1A 
Mutations
ICGC Data PortalKDM1A 
TCGA Data PortalKDM1A 
Broad Tumor PortalKDM1A
OASIS PortalKDM1A [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICKDM1A  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDKDM1A
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
BioMutasearch KDM1A
DgiDB (Drug Gene Interaction Database)KDM1A
DoCM (Curated mutations)KDM1A (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)KDM1A (select a term)
intoGenKDM1A
Cancer3DKDM1A(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM609132   
Orphanet
MedgenKDM1A
Genetic Testing Registry KDM1A
NextProtO60341 [Medical]
TSGene23028
GENETestsKDM1A
Huge Navigator KDM1A [HugePedia]
snp3D : Map Gene to Disease23028
BioCentury BCIQKDM1A
ClinGenKDM1A
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD23028
Chemical/Pharm GKB GenePA165751392
Clinical trialKDM1A
Miscellaneous
canSAR (ICR)KDM1A (select the gene name)
Probes
Litterature
PubMed199 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineKDM1A
EVEXKDM1A
GoPubMedKDM1A
iHOPKDM1A
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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