ENSMUSG00000030180


Mus musculus

Features
Gene ID: ENSMUSG00000030180
  
Biological name :Kdm5a
  
Synonyms : Kdm5a / Lysine-specific demethylase 5A / Q3UXZ9
  
Possible biological names infered from orthology : lysine demethylase 5A / P29375
  
Species: Mus musculus
  
Chr. number: 6
Strand: 1
Band: F1
Gene start: 120364124
Gene end: 120444574
  
Corresponding Affymetrix probe sets: 10541216 (MoGene1.0st)   1437105_at (Mouse Genome 430 2.0 Array)   1437106_at (Mouse Genome 430 2.0 Array)   1441318_at (Mouse Genome 430 2.0 Array)   1444842_at (Mouse Genome 430 2.0 Array)   1445541_at (Mouse Genome 430 2.0 Array)   1452360_a_at (Mouse Genome 430 2.0 Array)   
  
Cross references: Ensembl peptide - ENSMUSP00000144720
Ensembl peptide - ENSMUSP00000145375
Ensembl peptide - ENSMUSP00000145021
Ensembl peptide - ENSMUSP00000005108
NCBI entrez gene - 214899     See in Manteia.
MGI - MGI:2136980
RefSeq - NM_145997
RefSeq - XM_011241281
RefSeq Peptide - NP_666109
swissprot - A0A0N4SVA7
swissprot - Q3UXZ9
swissprot - Q921T5
swissprot - A0A0N4SUK6
Ensembl - ENSMUSG00000030180
  

This gene has been taged as a transcription factor by TFT
See expression report in BioGPS
See gene description in Wikigenes
See co-cited genes in PubMed


Ortholog prediction (from Ensembl)
Ortholog nameID Species
 KDM5AENSGALG00000012986Gallus gallus
 KDM5AENSG00000073614Homo sapiens


Paralog prediction (from Ensembl)
Paralog nameIDSimilarity(%)
Kdm5b / Q80Y84 / Lysine-specific demethylase 5B / Q9UGL1* / lysine demethylase 5B*ENSMUSG0000004220748
Kdm5c / P41230 / Lysine-specific demethylase 5C / P41229* / lysine demethylase 5C*ENSMUSG0000002533248
Kdm5d / Q62240 / Lysine-specific demethylase 5D / Q9BY66* / lysine demethylase 5D*ENSMUSG0000005667346
Jarid2 / Q62315 / Protein Jumonji / Q92833* / jumonji and AT-rich interaction domain containing 2*ENSMUSG0000003851811


Protein motifs (from Interpro)
Interpro ID Name
 IPR001606  ARID DNA-binding domain
 IPR001965  Zinc finger, PHD-type
 IPR003347  JmjC domain
 IPR003349  JmjN domain
 IPR004198  Zinc finger, C5HC2-type
 IPR011011  Zinc finger, FYVE/PHD-type
 IPR013083  Zinc finger, RING/FYVE/PHD-type
 IPR013637  Lysine-specific demethylase-like domain
 IPR019786  Zinc finger, PHD-type, conserved site
 IPR019787  Zinc finger, PHD-finger
 IPR036431  ARID DNA-binding domain superfamily


Gene Ontology (GO)
TypeGO IDTermEv.Code
 biological_processGO:0000122 negative regulation of transcription by RNA polymerase II IMP
 biological_processGO:0006325 chromatin organization IEA
 biological_processGO:0006351 transcription, DNA-templated IEA
 biological_processGO:0006355 regulation of transcription, DNA-templated IEA
 biological_processGO:0007275 multicellular organism development IEA
 biological_processGO:0007283 spermatogenesis IEA
 biological_processGO:0008584 male gonad development IEA
 biological_processGO:0032922 circadian regulation of gene expression IMP
 biological_processGO:0034720 histone H3-K4 demethylation IEA
 biological_processGO:0034721 histone H3-K4 demethylation, trimethyl-H3-K4-specific IEA
 biological_processGO:0045893 positive regulation of transcription, DNA-templated IEA
 biological_processGO:0048511 rhythmic process IEA
 biological_processGO:0051090 regulation of DNA-binding transcription factor activity IEA
 biological_processGO:0055114 oxidation-reduction process IEA
 biological_processGO:1901726 negative regulation of histone deacetylase activity IDA
 cellular_componentGO:0005634 nucleus IEA
 cellular_componentGO:0005730 nucleolus IEA
 cellular_componentGO:0019907 cyclin-dependent protein kinase activating kinase holoenzyme complex IEA
 cellular_componentGO:0032993 protein-DNA complex IDA
 molecular_functionGO:0001046 core promoter sequence-specific DNA binding IEA
 molecular_functionGO:0003677 DNA binding IEA
 molecular_functionGO:0003682 chromatin binding IDA
 molecular_functionGO:0003700 DNA-binding transcription factor activity IEA
 molecular_functionGO:0003713 transcription coactivator activity IDA
 molecular_functionGO:0005515 protein binding IPI
 molecular_functionGO:0008270 zinc ion binding IEA
 molecular_functionGO:0016491 oxidoreductase activity IEA
 molecular_functionGO:0031490 chromatin DNA binding IDA
 molecular_functionGO:0034647 histone demethylase activity (H3-trimethyl-K4 specific) IEA
 molecular_functionGO:0034648 histone demethylase activity (H3-dimethyl-K4 specific) IEA
 molecular_functionGO:0035064 methylated histone binding IEA
 molecular_functionGO:0042393 histone binding IEA
 molecular_functionGO:0046872 metal ion binding IEA
 molecular_functionGO:0051213 dioxygenase activity IEA


Pathways (from Reactome)
Pathway description
HDMs demethylate histones


Phenotype (from MGI, Zfin or HPO)
IDPhenotypeDefinition Genetic BG
 MP:0000219 increased neutrophil count "greater than normal neutrophil numbers" [cwg:Carroll-Ann W. Goldsmith , Mouse Genome Informatics curator]
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Allelic Composition: Dmdmdx-5Cv/Dmdmdx-5Cv
Genetic Background: B6Ros.Cg-Dmdmdx-5Cv/J

 MP:0001265 reduced body size "smaller than average body weight, height and/or length of an organism compared to controls" [Stedman s Medical Dictionary , 27th edition:ISBN 0-683-40008-8, J:23170]
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Allelic Composition: Dmdmdx-5Cv/Dmdmdx-5Cv
Genetic Background: B6Ros.Cg-Dmdmdx-5Cv/J

 MP:0002083 premature death "death after 3 weeks of age, but before normal life span" [csmith:Cynthia L. Smith , Mouse Genome Informatics Curator]
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Allelic Composition: Men1tm2.1Mmey/Men1tm2.1Mmey,Tg(Ins2-cre)23Herr/0
Genetic Background: involves: 129S6/SvEvTac * C57BL/6 * CBA/J * FVB/N

Allelic Composition: Kdm5atm1.1Kael/Kdm5atm1.1Kael,Rb1tm1Tyj/Rb1+
Genetic Background: involves: 129S2/SvPas * 129S6/SvEvTac * FVB/N

 MP:0002123 abnormal hematopoiesis "abnormal development of the enucleated fetal and adult erythrocytes that develop in the aorta, genital ridge and mesonephros region and later in the fetal and adult liver" [csmith:Cynthia L. Smith , Mouse Genome Informatics Curator]
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Allelic Composition: Dmdmdx-5Cv/Dmdmdx-5Cv
Genetic Background: B6Ros.Cg-Dmdmdx-5Cv/J

 MP:0002169 no phenotype detected "normal, viable and fertile appearance and behavior; indistinguishable from controls" [csmith:Cynthia L. Smith , Mouse Genome Informatics Curator]
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Allelic Composition: Dmdmdx-5Cv/Dmdmdx-5Cv
Genetic Background: B6Ros.Cg-Dmdmdx-5Cv/J

 MP:0003077 abnormal cell cycle "failure to progress or abnormal progression through the stages of of the cell cycle" [smb:Susan M. Bello, Mouse Genome Informatics Curator, J:91266]
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Allelic Composition: Dmdmdx-5Cv/Dmdmdx-5Cv
Genetic Background: B6Ros.Cg-Dmdmdx-5Cv/J

 MP:0003364 insulinoma "a pancreatic islet beta cell adenoma that secretes excess insulin" [Stedman s Medical Dictionary , 27th edition:ISBN 0-683-40008-8, ncbi:Matthew Mailman, NCBI request]
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Allelic Composition: Kdm5atm1Kael/Kdm5atm1Kael,Men1tm2.1Mmey/Men1tm2.1Mmey,Tg(Ins2-cre)23Herr/0
Genetic Background: involves: 129S6/SvEvTac * C57BL/6 * CBA/J * FVB/N

 MP:0003492 abnormal involuntary movement "anomalies in movements that occur independent of planning (eg. reflexive behavior)" [Nmice:Neuromice Consortium Submission]
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Allelic Composition: Dmdmdx-5Cv/Dmdmdx-5Cv
Genetic Background: B6Ros.Cg-Dmdmdx-5Cv/J

 MP:0004808 abnormal hematopoietic stem cell morphology "any structural anomaly of the multipotent, self-renewing stem cells found in the bone marrow and the fetal liver; these give rise to all the types of both the myeloid and lymphoid cell lineages" [MGI:csmith "Cynthia L. Smith, Mouse Genome Informatics Curator"]
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Allelic Composition: Dmdmdx-5Cv/Dmdmdx-5Cv
Genetic Background: B6Ros.Cg-Dmdmdx-5Cv/J

 MP:0004924 abnormal behavior "anomalies in the actions, reactions, or performance of an organism in response to external or internal stimuli compared to controls" [MGI:csmith "Cynthia L. Smith, Mouse Genome Informatics Curator"]
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Allelic Composition: Dmdmdx-5Cv/Dmdmdx-5Cv
Genetic Background: B6Ros.Cg-Dmdmdx-5Cv/J

 MP:0005076 abnormal cell differentiation "anomaly in the process whereby relatively unspecialized cells, e. g. embryonic or regenerative cells, acquire specialized structural and/or functional features that characterize the cells, tissues, or organs of the mature organism or some other relatively stable phase of the organism s life history" [cwg:Carroll-Ann W. Goldsmith , Mouse Genome Informatics curator]
Show

Allelic Composition: Kdm5atm1.1Kael/Kdm5atm1.1Kael,Rb1tm1Tyj/Rb1tm1Tyj
Genetic Background: involves: 129S2/SvPas * 129S6/SvEvTac * FVB/N

 MP:0005215 abnormal islet of Langerhans morphology "anomalous morphology of these structures that are scattered throughout the pancreas and comprise its endocrine portion; within each islet there are three cell types: alpha, beta, and delta " [MeSH:National Library of Medicine - Medical Subject Headings , 2003]
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Allelic Composition: Kdm5atm1Kael/Kdm5atm1Kael,Men1tm2.1Mmey/Men1tm2.1Mmey,Tg(Ins2-cre)23Herr/0
Genetic Background: involves: 129S6/SvEvTac * C57BL/6 * CBA/J * FVB/N

 MP:0005491 islet cell hyperplasia "increased numbers cells within the structures that are scattered throughout the pancreas and comprise its endocrine portion" [J:48446, MeSH:National Library of Medicine - Medical Subject Headings , 2003]
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Allelic Composition: Kdm5atm1Kael/Kdm5atm1Kael,Men1tm2.1Mmey/Men1tm2.1Mmey,Tg(Ins2-cre)23Herr/0
Genetic Background: involves: 129S6/SvEvTac * C57BL/6 * CBA/J * FVB/N

 MP:0008008 early cellular replicative senescence "increase in the progression of the process in which a cell progresses from its inception to the end of its lifespan, which occurs as the cell continues cycles of growth and division" [MGI:smb "Susan M. Bello, Mouse Genome Informatics Curator"]
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Allelic Composition: Kdm5atm1Kael/Kdm5atm1Kael,Men1tm2.1Mmey/Men1tm2.1Mmey,Tg(Ins2-cre)23Herr/0
Genetic Background: involves: 129S6/SvEvTac * C57BL/6 * CBA/J * FVB/N

Allelic Composition: Kdm5atm1Kael/Kdm5atm1Kael
Genetic Background: involves: 129S6/SvEvTac * C57BL/6 * CBA

Allelic Composition: Kdm5atm1.1Kael/Kdm5atm1.1Kael
Genetic Background: involves: 129S6/SvEvTac * FVB/N

 MP:0010316 increased thyroid tumor incidence "greater than the expected number of neoplams in the thyroid occurring in a specific population in a given time period" [MGI:csmith "Cynthia L. Smith, Mouse Genome Informatics Curator"]
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Allelic Composition: Kdm5atm1.1Kael/Kdm5a+,Rb1tm1Tyj/Rb1+
Genetic Background: involves: 129S2/SvPas * 129S6/SvEvTac * FVB/N

Allelic Composition: Kdm5atm1.1Kael/Kdm5atm1.1Kael,Rb1tm1Tyj/Rb1+
Genetic Background: involves: 129S2/SvPas * 129S6/SvEvTac * FVB/N

 MP:0010320 increased pituitary gland tumor incidence "greater than the expected number of neoplams in the pituitary gland occurring in a specific population in a given time period" [MGI:csmith "Cynthia L. Smith, Mouse Genome Informatics Curator"]
Show

Allelic Composition: Kdm5atm1.1Kael/Kdm5a+,Rb1tm1Tyj/Rb1+
Genetic Background: involves: 129S2/SvPas * 129S6/SvEvTac * FVB/N

Allelic Composition: Kdm5atm1.1Kael/Kdm5atm1.1Kael,Rb1tm1Tyj/Rb1+
Genetic Background: involves: 129S2/SvPas * 129S6/SvEvTac * FVB/N

 MP:0011087 complete neonatal lethality "death of all organisms of a given genotype in a population within the neonatal period after birth (Mus: P0)" [MGI:csmith]
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Allelic Composition: Tyrp1rgsc101/Tyrp1rgsc101
Genetic Background: involves: C57BL/6JJcl * DBA/2JJcl

 MP:0011092 complete embryonic lethality "death of all organisms of a given genotype in a population within the embryonic period prior to organogenesis (Mus: prior to E14)" [MGI:csmith]
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Allelic Composition: Kdm5atm1.1Kael/Kdm5a+,Rb1tm1Tyj/Rb1tm1Tyj
Genetic Background: involves: 129S2/SvPas * 129S6/SvEvTac * FVB/N

Allelic Composition: Kdm5atm1.1Kael/Kdm5atm1.1Kael,Rb1tm1Tyj/Rb1tm1Tyj
Genetic Background: involves: 129S2/SvPas * 129S6/SvEvTac * FVB/N

 MP:0011703 increased fibroblast proliferation "greater the expansion rate of a fibroblast cell population by cell division" [MGI:csmith]
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Allelic Composition: Kdm5atm1.1Kael/Kdm5a+,Rb1tm1Tyj/Rb1tm1Tyj
Genetic Background: involves: 129S2/SvPas * 129S6/SvEvTac * FVB/N

  


Interacting proteins (from Reactome)
Interactor ID Name Interaction type
No match






 

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