ENSMUSG00000056962


Mus musculus

Features
Gene ID: ENSMUSG00000056962
  
Biological name :Jmjd6
  
Synonyms : Bifunctional arginine demethylase and lysyl-hydroxylase JMJD6 / Jmjd6 / Q9ERI5
  
Possible biological names infered from orthology : arginine demethylase and lysine hydroxylase / Q6NYC1
  
Species: Mus musculus
  
Chr. number: 11
Strand: -1
Band: E2
Gene start: 116837432
Gene end: 116843449
  
Corresponding Affymetrix probe sets: 10393387 (MoGene1.0st)   1420056_s_at (Mouse Genome 430 2.0 Array)   1420057_at (Mouse Genome 430 2.0 Array)   1454109_a_at (Mouse Genome 430 2.0 Array)   
  
Cross references: Ensembl peptide - ENSMUSP00000117922
Ensembl peptide - ENSMUSP00000047570
Ensembl peptide - ENSMUSP00000115086
Ensembl peptide - ENSMUSP00000120850
Ensembl peptide - ENSMUSP00000122867
NCBI entrez gene - 107817     See in Manteia.
MGI - MGI:1858910
RefSeq - XM_006531960
RefSeq - NM_033398
RefSeq Peptide - NP_203971
swissprot - G3UVU9
swissprot - F6VRF7
swissprot - F6VMC4
swissprot - Q9ERI5
swissprot - F7BDP4
Ensembl - ENSMUSG00000056962
  
See expression report in BioGPS
See gene description in Wikigenes
See co-cited genes in PubMed


Ortholog prediction (from Ensembl)
Ortholog nameID Species
 jmjd6ENSDARG00000102896Danio rerio
 JMJD6ENSGALG00000001802Gallus gallus
 JMJD6ENSG00000070495Homo sapiens


Paralog prediction (from Ensembl)
Paralog nameIDSimilarity(%)
Jmjd4 / Q8BFT6 / JmjC domain-containing protein 4 / Q9H9V9* / jumonji domain containing 4*ENSMUSG0000003681922


Protein motifs (from Interpro)
Interpro ID Name
 IPR003347  JmjC domain


Gene Ontology (GO)
TypeGO IDTermEv.Code
 biological_processGO:0001568 blood vessel development IMP
 biological_processGO:0001822 kidney development IMP
 biological_processGO:0002040 sprouting angiogenesis 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:0006397 mRNA processing IEA
 biological_processGO:0007166 cell surface receptor signaling pathway IDA
 biological_processGO:0007275 multicellular organism development IEA
 biological_processGO:0007507 heart development IMP
 biological_processGO:0008380 RNA splicing IEA
 biological_processGO:0018395 peptidyl-lysine hydroxylation to 5-hydroxy-L-lysine IEA
 biological_processGO:0030154 cell differentiation IEA
 biological_processGO:0030324 lung development IMP
 biological_processGO:0033077 T cell differentiation in thymus IMP
 biological_processGO:0042116 macrophage activation IMP
 biological_processGO:0043277 apoptotic cell clearance IMP
 biological_processGO:0043654 recognition of apoptotic cell IMP
 biological_processGO:0048024 regulation of mRNA splicing, via spliceosome IEA
 biological_processGO:0048821 erythrocyte development IMP
 biological_processGO:0055114 oxidation-reduction process IEA
 biological_processGO:0060041 retina development in camera-type eye IMP
 biological_processGO:0070078 histone H3-R2 demethylation IEA
 biological_processGO:0070079 histone H4-R3 demethylation IEA
 cellular_componentGO:0005634 nucleus ISO
 cellular_componentGO:0005654 nucleoplasm ISS
 cellular_componentGO:0005730 nucleolus ISS
 cellular_componentGO:0005829 cytosol IDA
 cellular_componentGO:0005886 plasma membrane IDA
 molecular_functionGO:0003723 RNA binding IDA
 molecular_functionGO:0003727 single-stranded RNA binding IEA
 molecular_functionGO:0005506 iron ion binding IEA
 molecular_functionGO:0005515 protein binding IPI
 molecular_functionGO:0016491 oxidoreductase activity IEA
 molecular_functionGO:0033746 histone demethylase activity (H3-R2 specific) IEA
 molecular_functionGO:0033749 histone demethylase activity (H4-R3 specific) IEA
 molecular_functionGO:0042802 identical protein binding IEA
 molecular_functionGO:0042803 protein homodimerization activity IDA
 molecular_functionGO:0046872 metal ion binding IEA
 molecular_functionGO:0051213 dioxygenase activity IEA
 molecular_functionGO:0070815 peptidyl-lysine 5-dioxygenase activity IEA


Pathways (from Reactome)
Pathway description
HDMs demethylate histones


Phenotype (from MGI, Zfin or HPO)
IDPhenotypeDefinition Genetic BG
 MP:0000208 decreased hematocrit "less than the average percentage of a volume of a blood sample occupied by red blood cells" [MeSH:National Library of Medicine - Medical Subject Headings , 2003]
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Allelic Composition: Tmod1tm1Sung/Tmod1tm1Sung
Genetic Background: involves: 129S1/Sv * 129X1/SvJ

 MP:0000245 abnormal erythropoiesis "atypical process of red blood cell formation" [Stedman s Medical Dictionary , 27th edition:ISBN 0-683-40008-8, tc:Teresa Chu , Mouse Genome Informatics Curator]
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Allelic Composition: Tmod1tm1Sung/Tmod1tm1Sung
Genetic Background: involves: 129S1/Sv * 129X1/SvJ

Allelic Composition: Jmjd6tm1Gbf/Jmjd6tm1Gbf
Genetic Background: C57BL/6-Ptdsrtm1Gbf

 MP:0000284 double outlet right ventricle "both the aorta and the pulmonary trunk originate from the right ventricle, usually in conjunction with a ventricular septal defect" [Stedman s Medical Dictionary , 27th edition:ISBN 0-683-40008-8, J:67826]
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Allelic Composition: Jmjd6tm1Gbf/Jmjd6tm1Gbf
Genetic Background: C57BL/6-Ptdsrtm1Gbf

 MP:0000477 abnormal intestine morphology "malformation of the digestive tube passing from the stomach to the anus" [J:48968]
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Allelic Composition: Rbl1tm1Tyj/Rbl1tm1Tyj,Rbl2tm1Tyj/Rbl2+
Genetic Background: involves: 129S2/SvPas * C57BL/6

 MP:0000484 abnormal pulmonary artery morphology "structrual anomaly of the artery that arises from the right ventricle and conveys unaerated blood to the lungs " [MeSH:National Library of Medicine - Medical Subject Headings, 2003, hdene:Howard Dene, Mouse Genome Informatics Curator]
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Allelic Composition: Jmjd6tm1Gbf/Jmjd6tm1Gbf
Genetic Background: C57BL/6-Ptdsrtm1Gbf

 MP:0000527 abnormal kidney development "anomalous differentiation of the paired organs responsible for urine secretion" [cwg:Carroll-Ann W. Goldsmith , Mouse Genome Informatics curator]
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Allelic Composition: Jmjd6tm1Gbf/Jmjd6tm1Gbf
Genetic Background: C57BL/6-Ptdsrtm1Gbf

 MP:0000600 liver hypoplasia "reduced size of liver due to decreased cell number " [J:57631]
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Allelic Composition: Tmod1tm1Sung/Tmod1tm1Sung
Genetic Background: involves: 129S1/Sv * 129X1/SvJ

 MP:0000704 abnormal thymus development "anomaly in the formation and/or differentiation of the thymus" [cwg:Carroll-Ann W. Goldsmith , Mouse Genome Informatics curator]
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Allelic Composition: Tmod1tm1Sung/Tmod1tm1Sung
Genetic Background: involves: 129S1/Sv * 129X1/SvJ

 MP:0000706 small thymus "reduced size of the thymus" [J:36561, cwg:Carroll-Ann W. Goldsmith , Mouse Genome Informatics curator, J:31167]
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Allelic Composition: Jmjd6tm1Gbf/Jmjd6tm1Gbf
Genetic Background: C57BL/6-Ptdsrtm1Gbf

 MP:0000913 abnormal brain development "malformed or incomplete differentiation of the brain" [MGI:cls, J:49840]
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Allelic Composition: Fgf8tm1Mrc/Fgf8tm1Moon,Hoxa3tm1(cre)Moon/Hoxa3+
Genetic Background: involves: 129/Sv * C57BL/6

 MP:0000914 exencephaly "neurocranial defects resulting in exposure or extrusion of the brain" [Stedman s Medical Dictionary:ISBN 0-683-40008-8, J:49840]
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Allelic Composition: Fgf8tm1Mrc/Fgf8tm1Moon,Hoxa3tm1(cre)Moon/Hoxa3+
Genetic Background: involves: 129/Sv * C57BL/6

Allelic Composition: Jmjd6tm1Gbf/Jmjd6tm1Gbf
Genetic Background: C57BL/6-Ptdsrtm1Gbf

 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: Fgf8tm1Mrc/Fgf8tm1Moon,Hoxa3tm1(cre)Moon/Hoxa3+
Genetic Background: involves: 129/Sv * C57BL/6

 MP:0001293 anophthalmia "congenital absence of all tissues of the eyes" [Stedman s Medical Dictionary:ISBN 0-683-40008-8, MGI:CML, J:71979]
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Allelic Composition: Jmjd6tm1Gbf/Jmjd6tm1Gbf
Genetic Background: C57BL/6-Ptdsrtm1Gbf

 MP:0001488 increased startle reflex "reduced threshold or more severe reflex response to variable stimuli, often auditory; usually measured by amplitude of whole body flinch" [What s Wrong With My Mouse?:ISBN 0-471-31639-3, csmith:Cynthia L. Smith , Mouse Genome Informatics Curator]
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Allelic Composition: Itpr1tm1.1(NCOM)Mfgc/Itpr1tm1.1(NCOM)Mfgc
Genetic Background: C57BL/6N-Itpr1tm1.1(NCOM)Mfgc/Tcp

 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: Fgf8tm1Mrc/Fgf8tm1Moon,Hoxa3tm1(cre)Moon/Hoxa3+
Genetic Background: involves: 129/Sv * C57BL/6

 MP:0001648 abnormal apoptosis "excessive or absent cell death in a particular tissue or cell type" [Stedman s Medical Dictionary:ISBN 0-683-40008-8, MGI:cls, J:25248]
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Allelic Composition: Tmod1tm1Sung/Tmod1tm1Sung
Genetic Background: involves: 129S1/Sv * 129X1/SvJ

 MP:0001786 skin edema "accumulation of an excessive amount of fluid in the skin" [J:65039]
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Allelic Composition: Jmjd6tm1Gbf/Jmjd6tm1Gbf
Genetic Background: C57BL/6-Ptdsrtm1Gbf

 MP:0001798 impaired macrophage phagocytosis "reduced ability of these phagocytic cells to internalize particulate matter" [Immunobiology , The Immune System in Health and Disease:ISBN 0-8153-1691-7, cwg:Carroll-Ann W. Goldsmith , Mouse Genome Informatics curator]
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Allelic Composition: Tmod1tm1Sung/Tmod1tm1Sung
Genetic Background: involves: 129S1/Sv * 129X1/SvJ

 MP:0001823 thymus hypoplasia "small size due to reduced cell number in the thymus" [J:23255]
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Allelic Composition: Tmod1tm1Sung/Tmod1tm1Sung
Genetic Background: involves: 129S1/Sv * 129X1/SvJ

Allelic Composition: Jmjd6tm1Gbf/Jmjd6tm1Gbf
Genetic Background: C57BL/6-Ptdsrtm1Gbf

 MP:0001953 respiratory failure "cessation of or failure to commence breathing" [MGI:cls, J:60159]
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Allelic Composition: Fgf8tm1Mrc/Fgf8tm1Moon,Hoxa3tm1(cre)Moon/Hoxa3+
Genetic Background: involves: 129/Sv * C57BL/6

 MP:0002132 abnormal respiratory system morphology "anomalous structure of pulmonary tissues " [csmith:Cynthia L. Smith , Mouse Genome Informatics Curator]
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Allelic Composition: Rbl1tm1Tyj/Rbl1tm1Tyj,Rbl2tm1Tyj/Rbl2+
Genetic Background: involves: 129S2/SvPas * C57BL/6

 MP:0002874 decreased hemoglobin content "decrease in the total hemoglobin content in the circulating blood" [csmith:Cynthia L. Smith , Mouse Genome Informatics Curator]
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Allelic Composition: Tmod1tm1Sung/Tmod1tm1Sung
Genetic Background: involves: 129S1/Sv * 129X1/SvJ

 MP:0003717 pallor "an unnatural paleness to the skin, generally attributable to anemia" [MeSH:National Library of Medicine - Medical Subject Headings , 2003]
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Allelic Composition: Jmjd6tm1Gbf/Jmjd6tm1Gbf
Genetic Background: C57BL/6-Ptdsrtm1Gbf

 MP:0003799 impaired macrophage migration "defect in the ability of macrophages to move up a chemotactic gradient" [smb:Susan M Bello, Mouse Genome Informatics Curator]
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Allelic Composition: Tmod1tm1Sung/Tmod1tm1Sung
Genetic Background: involves: 129S1/Sv * 129X1/SvJ

 MP:0004057 thin myocardial compact layer "reduced thickness of the outer, dense layer of the myocardium " [anna:Anna Anagnostopoulos, Mouse Genome Informatics Curator]
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Allelic Composition: Jmjd6tm1Gbf/Jmjd6tm1Gbf
Genetic Background: C57BL/6-Ptdsrtm1Gbf

 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: Tmod1tm1Sung/Tmod1tm1Sung
Genetic Background: involves: 129S1/Sv * 129X1/SvJ

 MP:0004201 fetal growth retardation "slow or limited development during the fetal period (sensu Mus: from E14 through birth)" [MGI:csmith "Cynthia L. Smith, Mouse Genome Informatics Curator"]
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Allelic Composition: Jmjd6tm1Gbf/Jmjd6tm1Gbf
Genetic Background: C57BL/6-Ptdsrtm1Gbf

 MP:0005294 abnormal heart ventricle morphology "structural anomaly of one or both of the two lower chambers of the heart " [cwg:Carroll-Ann W. Goldsmith , Mouse Genome Informatics curator]
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Allelic Composition: Jmjd6tm1Gbf/Jmjd6tm1Gbf
Genetic Background: C57BL/6-Ptdsrtm1Gbf

 MP:0009395 persistence of primitive erythrocytes "presence of increased numbers of nucleated red blood cells at stages when these cells are normally replaced by mature, enucleated, red blood cells" [MGI:smb "Susan M. Bello, Mouse Genome Informatics Curator"]
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Allelic Composition: Tmod1tm1Sung/Tmod1tm1Sung
Genetic Background: involves: 129S1/Sv * 129X1/SvJ

 MP:0009642 abnormal blood homeostasis "anomaly in the processes involved in the maintenance of an internal equilibrium of various functions or chemical or protein composition of the blood" [ISBN:0-683-40008-8 "Stedman s Medical Dictionary, 27th edition", MGI:csmith "Cynthia L. Smith, Mouse Genome Informatics Curator"]
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Allelic Composition: Fgf8tm1Mrc/Fgf8tm1Moon,Hoxa3tm1(cre)Moon/Hoxa3+
Genetic Background: involves: 129/Sv * C57BL/6

 MP:0009890 cleft secondary palate "congenital fissure of the tissues normally uniting to form the secondary palate" [PMID:16680722]
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Allelic Composition: Jmjd6tm1Gbf/Jmjd6tm1Gbf
Genetic Background: C57BL/6-Ptdsrtm1Gbf

 MP:0010402 ventricular septal defect "abnormal communications between the two lower chambers of the heart, including such defects in the perimembranous, inlet, outlet (infundibular), central muscular, marginal muscular, or apical muscular regions" [MESH:C14.240.400.560.540]
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Allelic Composition: Jmjd6tm1Gbf/Jmjd6tm1Gbf
Genetic Background: C57BL/6-Ptdsrtm1Gbf

Allelic Composition: Jmjd6tm1.1Gbf/Jmjd6tm1.1Gbf
Genetic Background: C57BL/6-Jmjd6tm1.1Gbf

 MP:0010503 myocardial trabeculae hypoplasia "underdevelopment or reduced size of the supporting bundles of muscular fibers lining the walls of the heart, usually due to a reduced number of cells" [MGI:csmith "Cynthia L. Smith, Mouse Genome Informatics Curator"]
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Allelic Composition: Jmjd6tm1Gbf/Jmjd6tm1Gbf
Genetic Background: C57BL/6-Ptdsrtm1Gbf

 MP:0011075 abnormal macrophage activation involved in immune response "anomaly in the process in which a change in morphology and behavior of a macrophage results from exposure to a cytokine, chemokine, cellular ligand, or soluble factor, leading to the initiation or perpetuation of an immune response" [GO:0002281]
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Allelic Composition: Jmjd6tm1Gbf/Jmjd6tm1Gbf
Genetic Background: C57BL/6-Ptdsrtm1Gbf

 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: Tmod1tm1Sung/Tmod1tm1Sung
Genetic Background: involves: 129S1/Sv * 129X1/SvJ

 MP:0011089 complete perinatal lethality "death of all organisms of a given genotype in a population within the perinatal period (Mus: E18.5 through postnatal day 1)" [MGI:csmith]
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Allelic Composition: Fgf8tm1Mrc/Fgf8tm1Moon,Hoxa3tm1(cre)Moon/Hoxa3+
Genetic Background: involves: 129/Sv * C57BL/6

Allelic Composition: Jmjd6tm1Gbf/Jmjd6tm1Gbf
Genetic Background: C57BL/6-Ptdsrtm1Gbf

 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]
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Allelic Composition: Izumo1rtm1b(KOMP)Wtsi/Izumo1rtm1b(KOMP)Wtsi
Genetic Background: C57BL/6N-Izumo1rtm1b(KOMP)Wtsi/Rbrc

 MP:0011101 partial prenatal lethality "the appearance of lower than Mendelian ratios of organisms of a given genotype due to death of some, but not all of the organisms between fertilization and birth (Mus: approximately E18.5)" [MGI:csmith]
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Allelic Composition: Jmjd6tm1Gbf/Jmjd6tm1Gbf
Genetic Background: C57BL/6-Ptdsrtm1Gbf

 MP:0011495 abnormal head shape "any anomaly in the characteristic surface outline or contour of a head of an organism" [MGI:csmith]
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Allelic Composition: Jmjd6tm1Gbf/Jmjd6tm1Gbf
Genetic Background: C57BL/6-Ptdsrtm1Gbf

  


Interacting proteins (from Reactome)
Interactor ID Name Interaction type
 ENSMUSG00000060981 P62806 / Hist1h4h / Histone H4   / reaction






 

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