ENSMUSG00000018476


Mus musculus

Features
Gene ID: ENSMUSG00000018476
  
Biological name :Kdm6b
  
Synonyms : Kdm6b / Lysine-specific demethylase 6B / Q5NCY0
  
Possible biological names infered from orthology : lysine demethylase 6B / O15054
  
Species: Mus musculus
  
Chr. number: 11
Strand: -1
Band: B3
Gene start: 69398508
Gene end: 69413675
  
Corresponding Affymetrix probe sets: 10387372 (MoGene1.0st)   1440346_at (Mouse Genome 430 2.0 Array)   1442643_at (Mouse Genome 430 2.0 Array)   1447612_x_at (Mouse Genome 430 2.0 Array)   1456610_at (Mouse Genome 430 2.0 Array)   
  
Cross references: Ensembl peptide - ENSMUSP00000091620
NCBI entrez gene - 216850     See in Manteia.
MGI - MGI:2448492
RefSeq - XM_011248923
RefSeq - NM_001017426
RefSeq - XM_011248921
RefSeq - XM_011248922
RefSeq - XM_006532898
RefSeq - XM_011248919
RefSeq - XM_011248920
RefSeq Peptide - NP_001017426
swissprot - Q5NCY0
Ensembl - ENSMUSG00000018476
  
See expression report in BioGPS
See gene description in Wikigenes
See co-cited genes in PubMed


Ortholog prediction (from Ensembl)
Ortholog nameID Species
 kdm6baENSDARG00000088087Danio rerio
 KDM6BENSG00000132510Homo sapiens


Paralog prediction (from Ensembl)
Paralog nameIDSimilarity(%)
Kdm6a / O70546 / Lysine-specific demethylase 6A / O15550* / lysine demethylase 6A*ENSMUSG0000003736928
Uty / ubiquitously transcribed tetratricopeptide repeat gene, Y chromosome / O14607* / ubiquitously transcribed tetratricopeptide repeat containing, Y-linked*ENSMUSG0000006845724


Protein motifs (from Interpro)
Interpro ID Name
 IPR003347  JmjC domain
 IPR011990  Tetratricopeptide-like helical domain superfamily
 IPR029518  Lysine-specific demethylase 6B


Gene Ontology (GO)
TypeGO IDTermEv.Code
 biological_processGO:0006325 chromatin organization IEA
 biological_processGO:0006338 chromatin remodeling IMP
 biological_processGO:0006954 inflammatory response IEA
 biological_processGO:0010468 regulation of gene expression IMP
 biological_processGO:0016577 histone demethylation IMP
 biological_processGO:0045165 cell fate commitment IMP
 biological_processGO:0045446 endothelial cell differentiation IMP
 biological_processGO:0045944 positive regulation of transcription by RNA polymerase II IDA
 biological_processGO:0048333 mesodermal cell differentiation IMP
 biological_processGO:0055007 cardiac muscle cell differentiation IMP
 biological_processGO:0055114 oxidation-reduction process IEA
 biological_processGO:0070301 cellular response to hydrogen peroxide IDA
 biological_processGO:0071557 histone H3-K27 demethylation IDA
 cellular_componentGO:0005634 nucleus IDA
 molecular_functionGO:0005515 protein binding IPI
 molecular_functionGO:0008013 beta-catenin binding IPI
 molecular_functionGO:0016491 oxidoreductase activity IEA
 molecular_functionGO:0043565 sequence-specific DNA binding IDA
 molecular_functionGO:0046872 metal ion binding IEA
 molecular_functionGO:0051213 dioxygenase activity IEA
 molecular_functionGO:0071558 histone demethylase activity (H3-K27 specific) IDA


Pathways (from Reactome)
Pathway description
Oxidative Stress Induced Senescence
HDMs demethylate histones


Phenotype (from MGI, Zfin or HPO)
IDPhenotypeDefinition Genetic BG
 MP:0000160 kyphosis "forward curvature of the spine, characterized by extensive flexion. " [J:62023, J:66943, Stedman s Medical Dictionary , 27th edition:ISBN 0-683-40008-8, cml:Cathleen M. Lutz , Mouse Genome Informatics Curator]
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Allelic Composition: Psen1tm1Tak/Psen1+
Genetic Background: involves: 129S1/Sv * 129X1/SvJ * C57BL/6

 MP:0000164 abnormal cartilage development "anomalous formation of the nonvascular, resilient, flexible connective tissue found primarily in joints, walls of the throax, and tubular structures, but which also comprises most of the skeleton in early fetal life " [Stedman s Medical Dictionary:ISBN 0-683-40008-8]
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Allelic Composition: Psen1tm1Tak/Psen1+
Genetic Background: involves: 129S1/Sv * 129X1/SvJ * C57BL/6

 MP:0000351 increased cell proliferation "greater than the normal growth and reproduction of similar cells" [cwg:Carroll-Ann W. Goldsmith , Mouse Genome Informatics curator]
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Allelic Composition: Slc2a9tm1Khm/Slc2a9tm1Khm,Tg(Vil1-cre)997Gum/0
Genetic Background: involves: 129 * C57BL/6 * C57BL/6J

 MP:0000547 short limbs "reduced average length of the extremities" [MGI:CLS, J:61509]
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Allelic Composition: Psen1tm1Tak/Psen1+
Genetic Background: involves: 129S1/Sv * 129X1/SvJ * C57BL/6

 MP:0001148 enlarged testes "increased size of the male reproductive glands" [Stedman s Medical Dictionary:ISBN 0-683-40008-8, J:63229]
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Allelic Composition: Mfap2tm1Mech/Mfap2tm1Mech,Mfap5tm1Mech/Mfap5tm1Mech
Genetic Background: involves: 129X1/SvJ

 MP:0001175 abnormal lung morphology "malformed organ of respiration" [J:35802]
Show

Allelic Composition: Appl1tm1.2Test/Appl1tm1.2Test
Genetic Background: involves: 129X1/SvJ

 MP:0001176 abnormal lung development "malformation or arrest of differentiation of the organs of respiration" [Stedman s Medical Dictionary:ISBN 0-683-40008-8, J:54931]
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Allelic Composition: Psen1tm1Tak/Psen1+
Genetic Background: involves: 129S1/Sv * 129X1/SvJ * C57BL/6

 MP:0001179 thicker alveolar septa 
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Allelic Composition: Appl1tm1.2Test/Appl1tm1.2Test
Genetic Background: involves: 129X1/SvJ

 MP:0001575 cyanosis "a dark bluish or purple skin discoloration resulting from deficient oxygenation of the blood" [Stedman s Medical Dictionary:ISBN 0-683-40008-8, J:60159]
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Allelic Composition: Nfkb1tm1Sley/Nfkb1tm1Sley
Genetic Background: involves: 129S4/SvJae

Allelic Composition: Kdm6btm1.1Cdcn/Kdm6btm1.1Cdcn
Genetic Background: involves: C57BL/6

 MP:0002058 neonatal lethality "death of animal within one day after birth" [Stedman s Medical Dictionary , 27th edition:ISBN 0-683-40008-8, csmith:Cynthia L. Smith , Mouse Genome Informatics Curator]
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Allelic Composition: Slc2a9tm1Khm/Slc2a9tm1Khm,Tg(Vil1-cre)997Gum/0
Genetic Background: involves: 129 * C57BL/6 * C57BL/6J

 MP:0002081 perinatal lethality "death anytime between E18.5 and postnatal day 1 " [csmith:Cynthia L. Smith , Mouse Genome Informatics Curator]
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Allelic Composition: Appl1tm1.2Test/Appl1tm1.2Test
Genetic Background: involves: 129X1/SvJ

 MP:0002082 postnatal lethality "premature death anytime after postnatal day 1 to weaning age (3 weeks)" [csmith:Cynthia L. Smith , Mouse Genome Informatics Curator]
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Allelic Composition: Mfap2tm1Mech/Mfap2tm1Mech,Mfap5tm1Mech/Mfap5tm1Mech
Genetic Background: involves: 129X1/SvJ

 MP:0002113 abnormal skeleton development "anomalous differentiation or remodeling of bone tissue resulting in morphological abnormality" [csmith:Cynthia L. Smith , Mouse Genome Informatics Curator]
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Allelic Composition: Psen1tm1Tak/Psen1+
Genetic Background: involves: 129S1/Sv * 129X1/SvJ * C57BL/6

 MP:0002114 abnormal axial skeleton morphology "abnormal development of vertebral, spinal or sternal bones resulting in morphological abnormality" [csmith:Cynthia L. Smith , Mouse Genome Informatics Curator]
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Allelic Composition: Psen1tm1Tak/Psen1+
Genetic Background: involves: 129S1/Sv * 129X1/SvJ * C57BL/6

 MP:0002133 abnormal respiratory system physiology "anomalous function of the pulmonary system; inability or reduced ability to intake and exchange oxygen and carbon dioxide with the environment" [csmith:Cynthia L. Smith , Mouse Genome Informatics Curator]
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Allelic Composition: Slc2a9tm1Khm/Slc2a9tm1Khm,Tg(Vil1-cre)997Gum/0
Genetic Background: involves: 129 * C57BL/6 * C57BL/6J

 MP:0003409 decreased width of hypertrophic chondrocyte zone "decreased width of cartilage cell matrix layer " [Stedman s Medical Dictionary , 27th edition:ISBN 0-683-40008-8]
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Allelic Composition: Kdm6btm1.1Cdcn/Kdm6btm1.1Cdcn
Genetic Background: involves: C57BL/6

 MP:0003419 delayed endochondral bone ossification "late onset of bone formation in bones that form from cartilage" [smb:Susan M Bello, Mouse Genome Informatics Curator, J:94631]
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Allelic Composition: Kdm6btm1.1Cdcn/Kdm6btm1.1Cdcn
Genetic Background: involves: C57BL/6

 MP:0003633 abnormal nervous system physiology 
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Allelic Composition: Nfkb1tm1Sley/Nfkb1tm1Sley
Genetic Background: involves: 129S4/SvJae

 MP:0004200 reduced fetal size "smaller proportions of a fetus compared to littermates (sensu Mus: from E14 through birth)" [MGI:csmith "Cynthia L. Smith, Mouse Genome Informatics Curator"]
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Allelic Composition: Kdm6btm1.1Cdcn/Kdm6btm1.1Cdcn
Genetic Background: involves: C57BL/6

 MP:0004351 short humerus "reduced length of one or both of the bones of the forelimb that articulates with the scapula above and the radius and ulna below" [ISBN:0-683-40008-8 "Stedman s Medical Dictionary, 27th edition"]
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Allelic Composition: Kdm6btm1.1Cdcn/Kdm6btm1.1Cdcn
Genetic Background: involves: C57BL/6

 MP:0004686 decreased length of long bones "reduced end-to-end length of the several elongated bones of the extremities" [MGI:csmith "Cynthia L. Smith, Mouse Genome Informatics Curator"]
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Allelic Composition: Kdm6btm1.1Cdcn/Kdm6btm1.1Cdcn
Genetic Background: involves: C57BL/6

 MP:0005025 response to infection "the body s reaction to invasion and multiplication of microorganisms in its tissues, or the body s reaction to components of or toxins produced by pathogenic mircroorganisms " [MeSH:National Library of Medicine - Medical Subject Headings , 2003, cwg:Carroll-Ann W. Goldsmith , Mouse Genome Informatics curator]
Show

Allelic Composition: Appl1tm1.2Test/Appl1tm1.2Test
Genetic Background: involves: 129X1/SvJ

 MP:0006378 abnormal spermatogonia morphology "anomaly in the number, structure or development of the large unspecialized male germ cells that give rise to spermatocytes" [ISBN:0-8036-0655-99 "Taber s Cyclopedic Medical Dictionary, 19th edition", MGI:smb "Susan M. Bello, Mouse Genome Informatics Curator"]
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Allelic Composition: Mfap2tm1Mech/Mfap2tm1Mech,Mfap5tm1Mech/Mfap5tm1Mech
Genetic Background: involves: 129X1/SvJ

 MP:0008395 abnormal osteoblast differentiation "atypical production of or inability to produce bone-forming cells, which normally form an osseous matrix (osteoid) in which they become enclosed as an osteocytes" [MGI:csmith "Cynthia L. Smith, Mouse Genome Informatics Curator"]
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Allelic Composition: Kdm6btm1.1Cdcn/Kdm6btm1.1Cdcn
Genetic Background: involves: C57BL/6

 MP:0008723 impaired eosinophil recruitment "reduced diffusion or accumulation of eosinophils in tissues or cells in response to a wide variety of substances released at the sites of inflammatory reactions" [MGI:csmith "Cynthia L. Smith, Mouse Genome Informatics Curator"]
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Allelic Composition: Appl1tm1.2Test/Appl1tm1.2Test
Genetic Background: involves: 129X1/SvJ

 MP:0009250 abnormal appendicular skeleton morphology "any structural anomaly of the bones of the limbs, shoulder and pelvic girdles" [ISBN:0-683-40008-8 "Stedman s Medical Dictionary, 27th edition"]
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Allelic Composition: Kdm6btm1.1Cdcn/Kdm6btm1.1Cdcn
Genetic Background: involves: C57BL/6

 MP:0009431 decreased fetal weight "reduced weight of a fetus compared to controls (sensu Mus: from E14 through birth)" [MGI:csmith "Cynthia L. Smith, Mouse Genome Informatics Curator"]
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Allelic Composition: Kdm6btm1.1Cdcn/Kdm6btm1.1Cdcn
Genetic Background: involves: C57BL/6

 MP:0010143 enhanced fertility "increased ability to produce live offspring" [MGI:mnk "Michelle Knowlton, Mouse Genome Informatics Curator"]
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Allelic Composition: Mfap2tm1Mech/Mfap2tm1Mech,Mfap5tm1Mech/Mfap5tm1Mech
Genetic Background: involves: 129X1/SvJ

 MP:0010745 abnormal pre-Botzinger complex morphology "any structural anomaly of the group of interneurons within the medulla oblongata s ventral respiratory group that are important for the generation of ventilatory (inspiratory) rhythmogenesis" [PMID:18826652]
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Allelic Composition: Nfkb1tm1Sley/Nfkb1tm1Sley
Genetic Background: involves: 129S4/SvJae

 MP:0010746 abnormal pre-Botzinger complex physiology "any functional anomaly of the group of interneurons within the medulla oblongata s ventral respiratory group that are important for the generation of ventilatory (inspiratory) rhythmogenesis" [PMID:18826652]
Show

Allelic Composition: Nfkb1tm1Sley/Nfkb1tm1Sley
Genetic Background: involves: 129S4/SvJae

 MP:0011085 complete postnatal lethality "premature death anytime between the neonatal period and weaning age of all organisms of a given genotype in a population (Mus: P1 to approximately 3 weeks of age)" [MGI:csmith]
Show

Allelic Composition: Nfkb1tm1Sley/Nfkb1tm1Sley
Genetic Background: involves: 129S4/SvJae

 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]
Show

Allelic Composition: Nfkb1tm1Sley/Nfkb1tm1Sley
Genetic Background: involves: 129S4/SvJae

Allelic Composition: Kdm6btm1.1Cdcn/Kdm6btm1.1Cdcn
Genetic Background: involves: C57BL/6

 MP:0014101 decreased chondrocyte proliferation "decreased amount of multiplication or reproduction of chondrocytes by cell division, resulting in the expansion of their population" [GO:0035988]
Show

Allelic Composition: Kdm6btm1.1Cdcn/Kdm6btm1.1Cdcn
Genetic Background: involves: C57BL/6

 MP:0014106 delayed chondrocyte differentiation "delay in the process in which a chondroblast acquires specialized structural and/or functional features of a chondrocyte" [GO:0002062]
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Allelic Composition: Kdm6btm1.1Cdcn/Kdm6btm1.1Cdcn
Genetic Background: involves: C57BL/6

 MP:0020040 decreased bone ossification "decrease in the formation of bone or of a bony substance, or the conversion of fibrous tissue or of cartilage into bone or a bony substance" [ORCID: orcid.org/0000-0003-4606-0597]
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Allelic Composition: Kdm6btm1.1Cdcn/Kdm6btm1.1Cdcn
Genetic Background: involves: C57BL/6

 MP:0020137 decreased bone mineralization "decrease in the rate at which minerals are deposited into bone" []
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Allelic Composition: Kdm6btm1.1Cdcn/Kdm6btm1.1Cdcn
Genetic Background: involves: C57BL/6

  


Interacting proteins (from Reactome)
Interactor ID Name Interaction type
 ENSMUSG00000060743 H3f3a / P84244 / Histone H3.3 / P84243* / H3 histone family member 3A*  / reaction
 ENSMUSG00000100210 P84228 / Hist1h3f / Histone H3.2   / reaction
 ENSMUSG00000060981 P62806 / Hist1h4h / Histone H4   / reaction
 ENSMUSG00000099517 P68433 / Hist1h3g / Histone H3.1   / reaction






 

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