ENSMUSG00000025332


Mus musculus

Features
Gene ID: ENSMUSG00000025332
  
Biological name :Kdm5c
  
Synonyms : Kdm5c / Lysine-specific demethylase 5C / P41230
  
Possible biological names infered from orthology : lysine demethylase 5C / P41229
  
Species: Mus musculus
  
Chr. number: X
Strand: 1
Band: F3
Gene start: 152233020
Gene end: 152274535
  
Corresponding Affymetrix probe sets: 10602644 (MoGene1.0st)   1419813_at (Mouse Genome 430 2.0 Array)   1426497_at (Mouse Genome 430 2.0 Array)   1426498_at (Mouse Genome 430 2.0 Array)   1441449_at (Mouse Genome 430 2.0 Array)   1441450_s_at (Mouse Genome 430 2.0 Array)   1444157_a_at (Mouse Genome 430 2.0 Array)   1444158_at (Mouse Genome 430 2.0 Array)   1457930_at (Mouse Genome 430 2.0 Array)   
  
Cross references: Ensembl peptide - ENSMUSP00000108207
Ensembl peptide - ENSMUSP00000080814
Ensembl peptide - ENSMUSP00000108203
Ensembl peptide - ENSMUSP00000122750
Ensembl peptide - ENSMUSP00000123364
NCBI entrez gene - 20591     See in Manteia.
MGI - MGI:99781
RefSeq - XM_017318443
RefSeq - XM_006528772
RefSeq - XM_006528773
RefSeq - XM_006528774
RefSeq - XM_017318442
RefSeq - NM_013668
RefSeq - XM_006528769
RefSeq - XM_006528770
RefSeq - XM_006528771
RefSeq Peptide - NP_038696
swissprot - F7BXT3
swissprot - F6WXI0
swissprot - P41230
Ensembl - ENSMUSG00000025332
  

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
 kdm5cENSDARG00000006124Danio rerio
 KDM5CENSG00000126012Homo sapiens


Paralog prediction (from Ensembl)
Paralog nameIDSimilarity(%)
Kdm5d / Q62240 / Lysine-specific demethylase 5D / Q9BY66* / lysine demethylase 5D*ENSMUSG0000005667378
Kdm5a / Q3UXZ9 / Lysine-specific demethylase 5A / P29375* / lysine demethylase 5A*ENSMUSG0000003018052
Kdm5b / Q80Y84 / Lysine-specific demethylase 5B / Q9UGL1* / lysine demethylase 5B*ENSMUSG0000004220746
Jarid2 / Q62315 / Protein Jumonji / Q92833* / jumonji and AT-rich interaction domain containing 2*ENSMUSG0000003851812


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 ISO
 biological_processGO:0006325 chromatin organization IEA
 biological_processGO:0006351 transcription, DNA-templated IEA
 biological_processGO:0006355 regulation of transcription, DNA-templated IEA
 biological_processGO:0009636 response to toxic substance IEA
 biological_processGO:0034720 histone H3-K4 demethylation ISO
 biological_processGO:0042752 regulation of circadian rhythm NAS
 biological_processGO:0045892 negative regulation of transcription, DNA-templated IDA
 biological_processGO:0048511 rhythmic process IEA
 biological_processGO:0055114 oxidation-reduction process IEA
 cellular_componentGO:0005634 nucleus ISO
 cellular_componentGO:0005654 nucleoplasm ISO
 cellular_componentGO:0005737 cytoplasm ISO
 cellular_componentGO:0005829 cytosol ISO
 molecular_functionGO:0001085 RNA polymerase II transcription factor binding ISO
 molecular_functionGO:0003677 DNA binding IEA
 molecular_functionGO:0008270 zinc ion binding ISO
 molecular_functionGO:0016491 oxidoreductase activity IEA
 molecular_functionGO:0032453 histone demethylase activity (H3-K4 specific) ISO
 molecular_functionGO:0042802 identical protein binding ISO
 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:0000266 abnormal cardiac morphology "anomalies in the hollow, muscular organ that maintains the circulation of the blood" [MeSH:National Library of Medicine - Medical Subject Headings , 2003]
Show

Allelic Composition: Sharpincpdm-Dem/Sharpincpdm-Dem
Genetic Background: CBy.OcB3-Sharpincpdm-Dem

 MP:0000367 abnormal coat/ hair morphology "anomalous color, structure, growth, or texture of the hair" [csmith:Cynthia L. Smith , Mouse Genome Informatics Curator]
Show

Allelic Composition: Fzd4tm1.1(KOMP)Vlcg/Fzd4tm1.1(KOMP)Vlcg
Genetic Background: C57BL/6N-Fzd4tm1.1(KOMP)Vlcg/Ucd

 MP:0002084 abnormal developmental patterning "abnormal systematic arrangement of the developing body along an axis" [csmith:Cynthia L. Smith , Mouse Genome Informatics Curator]
Show

Allelic Composition: Sharpincpdm-Dem/Sharpincpdm-Dem
Genetic Background: CBy.OcB3-Sharpincpdm-Dem

 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: Chrm3tm1Abt/Chrm3tm1Abt
Genetic Background: involves: 129X1/SvJ * C57BL/6

 MP:0002591 decreased mean corpuscular volume "less than the average amount of space occupied by each red blood cell, calculated from the hematocrit and red cell count, in erythrocyte indices" [cwg:Carroll-Ann W. Goldsmith , Mouse Genome Informatics curator, Stedman s Medical Dictionary:ISBN 0-683-40008-8]
Show

Allelic Composition: Fzd4tm1.1(KOMP)Vlcg/Fzd4tm1.1(KOMP)Vlcg
Genetic Background: C57BL/6N-Fzd4tm1.1(KOMP)Vlcg/Ucd

 MP:0005562 decreased mean corpuscular hemoglobin "less than the average levels of hemoglobin contained in an erythrocyte" [RGD:Rat Genome Database submission, Stedman s Medical Dictionary:ISBN 0-683-40008-8]
Show

Allelic Composition: Fzd4tm1.1(KOMP)Vlcg/Fzd4tm1.1(KOMP)Vlcg
Genetic Background: C57BL/6N-Fzd4tm1.1(KOMP)Vlcg/Ucd

 MP:0011100 complete preweaning lethality "death of all organisms of a given genotype in a population between fertilization and weaning age (Mus: approximately 3-4 weeks of age)" [MGI:csmith]
Show

Allelic Composition: Fzd4tm1.1(KOMP)Vlcg/Fzd4tm1.1(KOMP)Vlcg
Genetic Background: C57BL/6N-Fzd4tm1.1(KOMP)Vlcg/Ucd

  


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






 

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