Functions and Diseases

RBP Type Non-canonical_RBPs
Diseases Disease
Drug Drug
Main interacting RNAs N.A.
Moonlighting functions N.A.
Localizations > Nucleoplasm <>Cytosol<
BulkPerturb-seq

Description

Ensembl ID ENSG00000004487 Gene ID 23028 Accession 29079
Symbol KDM1A Alias AOF2;CPRF;KDM1;LSD1;BHC110 Full Name lysine demethylase 1A
Status Confidence Length 64247 bases Strand Plus strand
Position 1 : 23019443 - 23083689 RNA binding domain N.A.
Summary This gene encodes a nuclear protein containing a SWIRM domain, a FAD-binding motif, and an amine oxidase domain. This protein is a component of several histone deacetylase complexes, though it silences genes by functioning as a histone demethylase. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Apr 2009]

RNA binding domains (RBDs)

Protein Domain Pfam ID E-value Domain number

RNA binding proteomes (RBPomes)

Pubmed ID Full Name Cell Author Time Doi

Literatures on RNA binding capacity

Pubmed ID Title Author Time Journal
31629962 lncRNA MAGI2-AS3 Prevents the Development of HCC via Recruiting KDM1A and Promoting H3K4me2 Demethylation of the RACGAP1 Promoter. Jian Pu 2019-12-06 Molecular therapy. Nucleic acids
36689133 Lnc_000048 Promotes Histone H3K4 Methylation of MAP2K2 to Reduce Plaque Stability by Recruiting KDM1A in Carotid Atherosclerosis. Shuai Zhang 2023-05-01 Molecular neurobiology
34925656 KDM1A Identified as a Potential Oncogenic Driver and Prognostic Biomarker via Multi-Omics Analysis. Lingyue Li 2021-01-01 The Canadian journal of infectious diseases & medical microbiology = Journal canadien des maladies infectieuses et de la microbiologie medicale

Transcripts

Name Transcript ID bp Protein Translation ID
KDM1A-217 ENST00000688680 3984 586aa ENSP00000509483
KDM1A-229 ENST00000691694 2797 582aa ENSP00000509771
KDM1A-216 ENST00000688235 5004 No protein -
KDM1A-235 ENST00000692975 3793 820aa ENSP00000509892
KDM1A-214 ENST00000687202 5783 No protein -
KDM1A-228 ENST00000691682 3710 802aa ENSP00000509679
KDM1A-227 ENST00000691404 3853 840aa ENSP00000509252
KDM1A-210 ENST00000686339 2483 684aa ENSP00000510111
KDM1A-230 ENST00000691813 2532 229aa ENSP00000510547
KDM1A-236 ENST00000693156 2673 700aa ENSP00000510144
KDM1A-203 ENST00000465864 3039 858aa ENSP00000473297
KDM1A-226 ENST00000691256 5786 566aa ENSP00000510513
KDM1A-215 ENST00000688122 4650 No protein -
KDM1A-231 ENST00000692056 2736 757aa ENSP00000509505
KDM1A-234 ENST00000692853 2835 790aa ENSP00000509649
KDM1A-219 ENST00000689366 5154 No protein -
KDM1A-209 ENST00000686270 2778 771aa ENSP00000509279
KDM1A-207 ENST00000685102 3099 878aa ENSP00000509257
KDM1A-224 ENST00000690627 2847 794aa ENSP00000508820
KDM1A-211 ENST00000686771 2787 774aa ENSP00000510484
KDM1A-232 ENST00000692209 2652 729aa ENSP00000510201
KDM1A-233 ENST00000692214 4254 No protein -
KDM1A-213 ENST00000686934 2946 229aa ENSP00000510751
KDM1A-221 ENST00000689853 3006 249aa ENSP00000510653
KDM1A-201 ENST00000356634 3033 852aa ENSP00000349049
KDM1A-202 ENST00000400181 3085 876aa ENSP00000383042
KDM1A-204 ENST00000481879 525 No protein -
KDM1A-220 ENST00000689677 3016 No protein -
KDM1A-212 ENST00000686793 2133 No protein -
KDM1A-222 ENST00000689971 1823 No protein -
KDM1A-218 ENST00000688943 4653 No protein -
KDM1A-223 ENST00000690391 4053 No protein -
KDM1A-205 ENST00000494920 905 301aa ENSP00000473294
KDM1A-208 ENST00000685243 1123 196aa ENSP00000508858
KDM1A-225 ENST00000690907 3464 No protein -
KDM1A-206 ENST00000602503 2810 No protein -

Gene Model

Pathways

Pathway ID Pathway Name Source

Phenotypes

ensgID Trait pValue Pubmed ID
11800Mortality3.20373545157031E-1417903295
35479Platelet Function Tests1.6653400E-005-

GWAS

ensgIDSNPChromosomePosition TraitPubmedIDOr or BEAT EFO ID

Protein-Protein Interaction (PPI)

Paralogs

Ensembl ID Source Target
Species Protein ID Perc_pos Perc_id Species Protein ID Perc_pos Perc_id

Orthologs

Ensembl ID Source Target
Species Protein ID Perc_pos Perc_id Species Protein ID Perc_pos Perc_id

Gene Ontology

Go ID Go term No. evidence Entries Species Category
GO:0000122involved_in negative regulation of transcription by RNA polymerase II3IBA,IMP,ISSHomo_sapiens(9606)Process
GO:0000380involved_in alternative mRNA splicing, via spliceosome1IEAHomo_sapiens(9606)Process
GO:0000781located_in chromosome, telomeric region1IDAHomo_sapiens(9606)Component
GO:0000785part_of chromatin2IDA,ISSHomo_sapiens(9606)Component
GO:0002039enables p53 binding1IPIHomo_sapiens(9606)Function
GO:0002052involved_in positive regulation of neuroblast proliferation1IMPHomo_sapiens(9606)Process
GO:0003682enables chromatin binding2IBA,IDAHomo_sapiens(9606)Function
GO:0005515enables protein binding1IPIHomo_sapiens(9606)Function
GO:0005634is_active_in nucleus2IDAHomo_sapiens(9606)Component
GO:0005654located_in nucleoplasm2IDA,TASHomo_sapiens(9606)Component
GO:0005667part_of transcription regulator complex1ISSHomo_sapiens(9606)Component
GO:0006357involved_in regulation of transcription by RNA polymerase II1IMPHomo_sapiens(9606)Process
GO:0006482involved_in protein demethylation1IMPHomo_sapiens(9606)Process
GO:0008134enables transcription factor binding1IBAHomo_sapiens(9606)Function
GO:0010569acts_upstream_of_or_within regulation of double-strand break repair via homologous recombination1IMPHomo_sapiens(9606)Process
GO:0010976involved_in positive regulation of neuron projection development1IEAHomo_sapiens(9606)Process
GO:0016491enables oxidoreductase activity2IBA,IDAHomo_sapiens(9606)Function
GO:0019899enables enzyme binding1IPIHomo_sapiens(9606)Function
GO:0021987involved_in cerebral cortex development1IEAHomo_sapiens(9606)Process
GO:0030374enables nuclear receptor coactivator activity1IMPHomo_sapiens(9606)Function
GO:0031398acts_upstream_of_or_within positive regulation of protein ubiquitination1IMPHomo_sapiens(9606)Process
GO:0032091involved_in negative regulation of protein binding1IMPHomo_sapiens(9606)Process
GO:0032451enables demethylase activity1IMPHomo_sapiens(9606)Function
GO:0032452enables histone demethylase activity3EXP,IDA,TASHomo_sapiens(9606)Function
GO:0032453enables histone H3K4 demethylase activity1IDAHomo_sapiens(9606)Function
GO:0032454enables histone H3K9 demethylase activity2IDA,TASHomo_sapiens(9606)Function
GO:0032880acts_upstream_of_or_within regulation of protein localization1IMPHomo_sapiens(9606)Process
GO:0032991part_of protein-containing complex1IDAHomo_sapiens(9606)Component
GO:0034644acts_upstream_of_or_within cellular response to UV1IDAHomo_sapiens(9606)Process
GO:0034720involved_in histone H3-K4 demethylation1IEAHomo_sapiens(9606)Process
GO:0035563involved_in positive regulation of chromatin binding1IEAHomo_sapiens(9606)Process
GO:0042162NOT enables telomeric DNA binding1IDAHomo_sapiens(9606)Function
GO:0042551involved_in neuron maturation1IEAHomo_sapiens(9606)Process
GO:0043392involved_in negative regulation of DNA binding1ICHomo_sapiens(9606)Process
GO:0043426enables MRF binding1IDAHomo_sapiens(9606)Function
GO:0043433involved_in negative regulation of DNA-binding transcription factor activity2IDA,IMPHomo_sapiens(9606)Process
GO:0043518involved_in negative regulation of DNA damage response, signal transduction by p53 class mediator1IMPHomo_sapiens(9606)Process
GO:0045793involved_in positive regulation of cell size1IEAHomo_sapiens(9606)Process
GO:0045892involved_in negative regulation of DNA-templated transcription1IDAHomo_sapiens(9606)Process
GO:0045944involved_in positive regulation of transcription by RNA polymerase II2IBA,IDAHomo_sapiens(9606)Process
GO:0046098involved_in guanine metabolic process1IEAHomo_sapiens(9606)Process
GO:0050660enables flavin adenine dinucleotide binding2IBA,IDAHomo_sapiens(9606)Function
GO:0050681enables nuclear androgen receptor binding1IDAHomo_sapiens(9606)Function
GO:0051091involved_in positive regulation of DNA-binding transcription factor activity1IDAHomo_sapiens(9606)Process
GO:0051572involved_in negative regulation of histone H3-K4 methylation1ISSHomo_sapiens(9606)Process
GO:0051573involved_in negative regulation of histone H3-K9 methylation1ISSHomo_sapiens(9606)Process
GO:0055001involved_in muscle cell development1ISSHomo_sapiens(9606)Process
GO:0060765involved_in regulation of androgen receptor signaling pathway1TASHomo_sapiens(9606)Process
GO:0060992involved_in response to fungicide1IEAHomo_sapiens(9606)Process
GO:0061629enables RNA polymerase II-specific DNA-binding transcription factor binding1ISSHomo_sapiens(9606)Function
GO:0061752enables telomeric repeat-containing RNA binding1IDAHomo_sapiens(9606)Function
GO:0071320involved_in cellular response to cAMP1IEAHomo_sapiens(9606)Process
GO:0071480acts_upstream_of_or_within cellular response to gamma radiation1IMPHomo_sapiens(9606)Process
GO:0090308involved_in regulation of DNA methylation-dependent heterochromatin formation1IDAHomo_sapiens(9606)Process
GO:0120162involved_in positive regulation of cold-induced thermogenesis1ISSHomo_sapiens(9606)Process
GO:0140297enables DNA-binding transcription factor binding1IDAHomo_sapiens(9606)Function
GO:0140682enables FAD-dependent H3K4me/H3K4me3 demethylase activity1IDAHomo_sapiens(9606)Function
GO:0140861involved_in DNA repair-dependent chromatin remodeling1IDAHomo_sapiens(9606)Process
GO:1902166involved_in negative regulation of intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator1IMPHomo_sapiens(9606)Process
GO:1990391part_of DNA repair complex1IDAHomo_sapiens(9606)Component
GO:1990841enables promoter-specific chromatin binding1ISSHomo_sapiens(9606)Function
GO:2000179involved_in positive regulation of neural precursor cell proliferation1ISSHomo_sapiens(9606)Process
GO:2000648involved_in positive regulation of stem cell proliferation1ISSHomo_sapiens(9606)Process

Expression