ENSMUSG00000024201


Mus musculus

Features
Gene ID: ENSMUSG00000024201
  
Biological name :Kdm4b
  
Synonyms : Kdm4b / Lysine-specific demethylase 4B / Q91VY5
  
Possible biological names infered from orthology : lysine demethylase 4B / O94953
  
Species: Mus musculus
  
Chr. number: 17
Strand: 1
Band: D
Gene start: 56326062
Gene end: 56402870
  
Corresponding Affymetrix probe sets: 10446084 (MoGene1.0st)   1424044_at (Mouse Genome 430 2.0 Array)   
  
Cross references: Ensembl peptide - ENSMUSP00000118089
Ensembl peptide - ENSMUSP00000025036
Ensembl peptide - ENSMUSP00000084045
Ensembl peptide - ENSMUSP00000116789
NCBI entrez gene - 193796     See in Manteia.
MGI - MGI:2442355
RefSeq - XM_017317356
RefSeq - XM_006523898
RefSeq - XM_006523899
RefSeq - XM_017317353
RefSeq - XM_017317354
RefSeq - XM_017317355
RefSeq - NM_172132
RefSeq - XM_006523894
RefSeq - XM_006523895
RefSeq - XM_006523896
RefSeq - XM_006523897
RefSeq Peptide - NP_742144
swissprot - F7BTY2
swissprot - B0V2M9
swissprot - B0V2M7
swissprot - Q91VY5
Ensembl - ENSMUSG00000024201
  
See expression report in BioGPS
See gene description in Wikigenes
See co-cited genes in PubMed


Ortholog prediction (from Ensembl)
Ortholog nameID Species
 kdm4bENSDARG00000099675Danio rerio
 ENSGALG00000034592Gallus gallus
 KDM4BENSG00000127663Homo sapiens


Paralog prediction (from Ensembl)
Paralog nameIDSimilarity(%)
Kdm4c / Q8VCD7 / Mus musculus lysine (K)-specific demethylase 4C (Kdm4c), transcript variant 3, mRNA. / Q9H3R0* / lysine demethylase 4C*ENSMUSG0000002839751
Kdm4a / Q8BW72 / Lysine-specific demethylase 4A / O75164* / AL451062.3* / lysine demethylase 4A*ENSMUSG0000003332649
Kdm4d / Q3U2K5 / Lysine-specific demethylase 4D / KDM4E* / KDM4F* / B2RXH2* / Q6B0I6* / lysine demethylase 4E* / lysine demethylase 4D* / lysine demethylase 4F*ENSMUSG0000005391425


Protein motifs (from Interpro)
Interpro ID Name
 IPR001965  Zinc finger, PHD-type
 IPR002999  Tudor domain
 IPR003347  JmjC domain
 IPR003349  JmjN domain
 IPR011011  Zinc finger, FYVE/PHD-type
 IPR013083  Zinc finger, RING/FYVE/PHD-type
 IPR034732  Extended PHD (ePHD) domain


Gene Ontology (GO)
TypeGO IDTermEv.Code
 biological_processGO:0006325 chromatin organization IEA
 biological_processGO:0006351 transcription, DNA-templated IEA
 biological_processGO:0006355 regulation of transcription, DNA-templated IEA
 biological_processGO:0033169 histone H3-K9 demethylation ISO
 biological_processGO:0055114 oxidation-reduction process IEA
 biological_processGO:0070544 histone H3-K36 demethylation ISO
 biological_processGO:1900113 negative regulation of histone H3-K9 trimethylation IMP
 cellular_componentGO:0005634 nucleus IEA
 cellular_componentGO:0005829 cytosol IEA
 cellular_componentGO:0031618 nuclear pericentric heterochromatin IDA
 molecular_functionGO:0016491 oxidoreductase activity IEA
 molecular_functionGO:0032452 histone demethylase activity IDA
 molecular_functionGO:0032454 histone demethylase activity (H3-K9 specific) ISO
 molecular_functionGO:0046872 metal ion binding IEA
 molecular_functionGO:0051213 dioxygenase activity IEA
 molecular_functionGO:0051864 histone demethylase activity (H3-K36 specific) ISO


Pathways (from Reactome)
Pathway description
HDMs demethylate histones
Recruitment and ATM-mediated phosphorylation of repair and signaling proteins at DNA double strand breaks
Estrogen-dependent gene expression


Phenotype (from MGI, Zfin or HPO)
IDPhenotypeDefinition Genetic BG
 MP:0000628 abnormal mammary gland development "aberration in the differentiation of the mammary gland during early embryogenesis or during sexual maturity" [Stedman s Medical Dictionary:ISBN 0-683-40008-8]
Show

Allelic Composition: Kdm4btm1.2Okad/Kdm4btm1.2Okad
Genetic Background: involves: 129P2/OlaHsd

 MP:0000662 abnormal branching of the mammary ductal tree "anomaly in the development of the channels that secrete milk and direct milk to the nipple" [smb:Susan M Bello, Mouse Genome Informatics Curator]
Show

Allelic Composition: Kdm4btm1.2Okad/Kdm4btm1.2Okad
Genetic Background: involves: 129P2/OlaHsd

 MP:0001257 increased body length "increased crown to tail distance compared to controls" [cwg:Carroll W. Goldsmith, Mouse Genome Informatics Curator]
Show

Allelic Composition: Hdac8tm1a(EUCOMM)Wtsi/Hdac8tm1a(EUCOMM)Wtsi
Genetic Background: C57BL/6N-Hdac8tm1a(EUCOMM)Wtsi/Wtsi

 MP:0002169 no phenotype detected "normal, viable and fertile appearance and behavior; indistinguishable from controls" [csmith:Cynthia L. Smith , Mouse Genome Informatics Curator]
Show

Allelic Composition: Cryabtm1.1Ady/Cryab+
Genetic Background: involves: 129X1/SvJ * C57BL/6 * C57BL/6J

Allelic Composition: Kdm4btm1.2Okad/Kdm4btm1.2Okad
Genetic Background: involves: 129P2/OlaHsd

 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"]
Show

Allelic Composition: Hdac8tm1a(EUCOMM)Wtsi/Hdac8tm1a(EUCOMM)Wtsi
Genetic Background: C57BL/6N-Hdac8tm1a(EUCOMM)Wtsi/Wtsi

 MP:0005553 increased circulating creatinine level "greater than the normal blood concentration of this product of creatine catabolism; abnormal levels indicative of renal dysfunction" [Stedman s Medical Dictionary:ISBN 0-683-40008-8, RGD:Rat Genome Database submission]
Show

Allelic Composition: Hdac8tm1a(EUCOMM)Wtsi/Hdac8tm1a(EUCOMM)Wtsi
Genetic Background: C57BL/6N-Hdac8tm1a(EUCOMM)Wtsi/Wtsi

 MP:0005567 decreased circulating total protein level "less than the average total concentration of these macromolecules in the blood " [RGD:Rat Genome Database submission]
Show

Allelic Composition: Hdac8tm1a(EUCOMM)Wtsi/Hdac8tm1a(EUCOMM)Wtsi
Genetic Background: C57BL/6N-Hdac8tm1a(EUCOMM)Wtsi/Wtsi

 MP:0010174 decreased mammary gland epithelium proliferation "decrease in the expansion rate of the cells of the mammary gland epithelium by cell division" [MGI:csmith "Cynthia L. Smith, Mouse Genome Informatics Curator"]
Show

Allelic Composition: Kdm4btm1.2Okad/Kdm4btm1.2Okad
Genetic Background: involves: 129P2/OlaHsd

  


Interacting proteins (from Reactome)
Interactor ID Name Interaction type
 ENSMUSG00000020380 Rad50 / RAD50 double strand break repair protein / Q92878* / AC116366.3*  / complex / reaction
 ENSMUSG00000014074 Q80XJ2 / Rnf168 / E3 ubiquitin-protein ligase RNF168 / Q8IYW5* / ring finger protein 168*  / complex / reaction
 ENSMUSG00000057406 Nsd2 / Q8BVE8 / Histone-lysine N-methyltransferase NSD2 / O96028* / nuclear receptor binding SET domain protein 2*  / complex / reaction
 ENSMUSG00000060743 H3f3a / P84244 / Histone H3.3 / P84243* / H3 histone family member 3A*  / complex / reaction
 ENSMUSG00000026021 Sumo1 / P63166 / Small ubiquitin-related modifier 1 / P63165* / small ubiquitin-like modifier 1*  / reaction / complex
 ENSMUSG00000031928 Mre11a / Q61216 / Double-strand break repair protein MRE11 / MRE11* / P49959* / MRE11 homolog, double strand break repair nuclease*  / complex / reaction
 ENSMUSG00000030451 Herc2 / Q4U2R1 / E3 ubiquitin-protein ligase HERC2 / O95714* / HECT and RLD domain containing E3 ubiquitin protein ligase 2*  / complex / reaction
 ENSMUSG00000034218 Atm / Q62388 / Serine-protein kinase ATM / Q13315* / ATM serine/threonine kinase*  / reaction / complex
 ENSMUSG00000061607 Mdc1 / Q14676* / mediator of DNA damage checkpoint 1*  / reaction / complex
 ENSMUSG00000022674 Q9D2M8 / Ube2v2 / ubiquitin-conjugating enzyme E2 variant 2 / Q15819* / ubiquitin conjugating enzyme E2 V2*  / complex
 ENSMUSG00000024926 Kat5 / Q8CHK4 / Histone acetyltransferase KAT5 / Q92993* / lysine acetyltransferase 5*  / reaction / complex
 ENSMUSG00000015120 Ube2i / P63280 / ubiquitin-conjugating enzyme E2I / P63279*  / reaction
 ENSMUSG00000049932 H2afx / P27661 / Histone H2AX / P16104* / H2A histone family member X*  / complex / reaction
 ENSMUSG00000060981 P62806 / Hist1h4h / Histone H4   / reaction / complex
 ENSMUSG00000028224 Nbn / Q9R207 / Nibrin / O60934*  / reaction / complex
 ENSMUSG00000004934 Pias4 / Q9JM05 / protein inhibitor of activated STAT 4 / Q8N2W9*  / complex / reaction
 ENSMUSG00000100210 P84228 / Hist1h3f / Histone H3.2   / complex / reaction
 ENSMUSG00000099517 P68433 / Hist1h3g / Histone H3.1   / reaction / complex
 ENSMUSG00000090083 Rnf8 / Q8VC56 / E3 ubiquitin-protein ligase RNF8 / O76064* / ring finger protein 8*  / complex / reaction
 ENSMUSG00000098374 Gm28043 / RNF8* / O76064* / ring finger protein 8*  / complex / reaction
 ENSMUSG00000019768 Esr1 / P19785 / Estrogen receptor / P03372* / estrogen receptor 1*  / reaction / complex






 

1 s.

 
External programs and data are copyrighted by and are the property of their respective authors.
The Manteia system, data and analyses are provided "as is" with no warranties, expressed or implied as to capabilities or accuracy. User assumes the entire risk as to the results and performance of the software, data and documentation


                   

© Olivier Tassy / Olivier Pourquie 2007-2024
contact: otassy@igbmc.fr