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JMJD6 Gene

protein-coding   GIFtS: 49

GC17M070137
jumonji domain containing 6
(Previous name: phosphatidylserine receptor )
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
(Previous symbol: PTDSR)
Products    

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
About This Section

Aliases & Descriptions
jumonji domain containing 61 2     Peptide-lysine 5-dioxygenase JMJD62 3
Phosphatidylserine receptor1 2 3     Histone arginine demethylase JMJD62 3
KIAA05851 2 3     PTDSR2 3
PTDSR11 2     PSR2 5
Lysyl-hydroxylase JMJD62 3     bifunctional arginine demethylase and lysyl-hydroxylase JMJD62
Jumonji domain-containing protein 62 3     EC 1.14.11.-3
JmjC domain-containing protein 62 3     Protein PTDSR3

External Ids:    HGNC: 193551   Entrez Gene: 232102   Ensembl: ENSG000000704957   UniProtKB: Q6NYC13   

Export aliases for JMJD6 gene to outside databases

Previous GC identifers: GC17M072221 GC17M074708


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

Entrez Gene summary for JMJD6:
This gene encodes a nuclear protein with a JmjC domain. JmjC domain-containing proteins are predicted to function as
protein hydroxylases or histone demethylases. This protein was first identified as a putative phosphatidylserine
receptor involved in phagocytosis of apoptotic cells; however, subsequent studies have indicated that it does not
directly function in the clearance of apoptotic cells, and questioned whether it is a true phosphatidylserine
receptor. Multiple transcript variants encoding different isoforms have been found for this gene. (provided by RefSeq)

UniProtKB/Swiss-Prot: JMJD6_HUMAN, Q6NYC1
Function: Dioxygenase that can both act as a histone arginine demethylase and a lysyl-hydroxylase. Arginine demethylase
which demethylates histone H3 at 'Arg-2' (H3R2me) and histone H4 at 'Arg-3' (H4R3me), thereby playing a central role
in histone code. Also acts as a lysyl-hydroxylase that catalyzes 5-hydroxylation on specific lysine residues of target
proteins such as U2AF2/U2AF65 and LUC7L2. Acts as a regulator of RNA splicing by mediating 5-hydroxylation of
U2AF2/U2AF65, affecting the pre-mRNA splicing activity of U2AF2/U2AF65. Required for differentiation of multiple
organs during embryogenesis. Probably acts as a key regulator of hematopoietic differentiation. Seems to be necessary
for the regulation of macrophage cytokine responses

Gene Wiki entry for JMJD6

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 60), Regulatory elements and Epigenetics data according to Qiagen and/or SABiosciences)
About This Section

Regulatory elements:
   Search SABiosciences Regulatory transcription factor binding sites for JMJD6
         Other transcription factors

   Search SABiosciences Chromatin IP Primers for JMJD6

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays for JMJD6 


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 17q25   Ensembl cytogenetic band:  17q25.1   HGNC cytogenetic band: 17q25

JMJD6 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
JMJD6 gene location

GeneLoc gene densities for chromosome 17         GeneLoc Exon Structure

GeneLoc location for GC17M070137:  view genomic region     (about GC identifiers)

Start:
70,136,605 bp from pter
End:
70,150,592 bp from pter
Size:
13,988 bases
Orientation:
minus strand

1 alternative location:
Chr17- 74,708,914-74,722,881     
RefSeq DNA sequence:
NC_000017.10  NT_010783.15  

(According to 1UniProtKB, neXtProt, and/or Ensembl, Phosphorylation sites according to 2Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Millipore, Sigma-Aldrich, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, and/or ProSpec,
Biochemical Assays by Millipore, Sigma-Aldrich, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Dec 2010 and Entrez Gene, Antibodies by Millipore, Sigma-Aldrich, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, and/or Epitomics)
About This Section

UniProtKB/Swiss-Prot: JMJD6_HUMAN, Q6NYC1 (See protein sequence)
Recommended Name: Bifunctional arginine demethylase and lysyl-hydroxylase JMJD6  
Size: 403 amino acids; 46462 Da
Cofactor: Binds 1 Fe(2+) ion per subunit
Subunit: Interacts with LUC7L2, LUC7L3 and U2AF2/U2AF65
Subcellular location: Nucleus
Caution: Was initially thought to constitute the phosphatidylserine receptor, a receptor that mediates recognition of
phosphatidylserine, a specific marker only present at the surface of apoptotic cells. Phosphatidylserine receptor
probably participates in apoptotic cell phagocytosis. This protein was identified using phage display expressing mAb
217, an antibody that specifically recognizes phosphatidylserine receptor. However, its nuclear localization and the
fact that mAb 217 antibody still recognizes the phosphatidylserine receptor in mice lacking JMJD6, strongly suggest
that it does not constitute the receptor for phosphatidylserine and is not involved in apoptotic cell removal
Sequence caution: Sequence=AAH47003.1; Type=Erroneous initiation; Sequence=BAA25511.1; Type=Erroneous initiation;
PDB structures from and Proteopedia :
3K2O (3D)    3LD8 (3D)    3LDB (3D)    
Secondary accessions: B3KMN8 B4DGX1 Q86VY0 Q8IUM5 Q9Y4E2
Alternative splicing: 3 isoforms:  Q6NYC1-1   Q6NYC1-2   Q6NYC1-3   

Explore the universe of human proteins at neXtProt for JMJD6: NX_Q6NYC1 

Post-translational modifications:

  • View phosphorylation sites using PhosphoSite2


  • REFSEQ proteins (2 alternative transcripts): 
    NP_001074930.1  NP_055982.2  


    ENSEMBL proteins: 
    ENSP00000345857 ENSP00000394085 ENSP00000380750 ENSP00000302916 


    Human Recombinant Proteins 
    Browse Purified and Recombinant Proteins at Millipore
    Browse Human Recombinant Proteins at Sigma-Aldrich
    Browse R&D Systems for human recombinant proteins
    Browse recombinant and purified proteins available from Enzo Life Sciences
    OriGene Purified Protein: JMJD6
    OriGene Protein Over-expression Lysate (see all 2): JMJD6
    GenScript Custom Purified and Recombinant Proteins Services for JMJD6 
    Novus Biologicals Proteins for JMJD6
    Novus Biologicals Lysate for JMJD6
    Browse Sino Biological Recombinant Proteins
    Browse ProSpec Recombinant Proteins

    2 Gene Ontology (GO) cellular component terms (GO ID links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634 nucleus IDA17534701
    GO:0005886 plasma membrane IEA--
    About this table

    JMJD6 for ontologies           About GeneDecksing



    Antibodies for JMJD6: 
    Browse Millipore's Extensive Line of Mono- and Polyclonal Antibodies
    Sigma-Aldrich Antibody Arrays and Antibodies for JMJD6
    R&D Systems Antibodies for JMJD6 (PSR)
    OriGene Antibodies: JMJD6
    GenScript Custom Superior Antibodies Services for JMJD6 
    Novus Biologicals Antibodies for JMJD6
    Epitomics antibodies for JMJD6

    Assays for JMJD6: 
    Browse Kits and Assays available from Millipore
    Browse ELISAs at Sigma-Aldrich
    OriGene Custom Immunoassay Development 
    Browse OriGene Fluorogenic Cell Assay Kits 
    Browse R&D Systems for biochemical assays
    GenScript Custom Assay Services for JMJD6 
    Browse Enzo Life Sciences for kits & assays
    Browse ELISAs and CLIAs at Uscn 


    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section

    JMJD6 for domains           About GeneDecksing

    2 InterPro domains/families:
     IPR003347 TF_JmjC_AAH
     IPR013129 TF_JmjC

    Graphical View of Domain Structure for InterPro Entry Q6NYC1

    ProtoNet protein and cluster: Q6NYC1

    UniProtKB/Swiss-Prot: JMJD6_HUMAN, Q6NYC1
    Domain: The nuclear localization signal motifs are necessary and sufficient to target it into the nucleus
    Similarity: Belongs to the JMJD6 family
    Similarity: Contains 1 JmjC domain


    (According to UniProtKB, IUBMB,and/or Genatlas, Animal models from MGI Dec 24 2010,
    shRNA from OriGene, Sigma-Aldrich, RNAi from Millipore, siRNAs from Sigma-Aldrich, OriGene, Qiagen, Super-pooled esiRNAs from Sigma-Aldrich, microRNA from Sigma-Aldrich, Qiagen, SABiosciences, Clones from Millipore, Sigma-Aldrich, OriGene, GenScript, Sino Biological, Cell Lines from GenScript, Ontologies according to Gene Ontology Consortium 01 Dec 2010 via Entrez Gene.)
    About This Section

    UniProtKB/Swiss-Prot: JMJD6_HUMAN, Q6NYC1
    Function: Dioxygenase that can both act as a histone arginine demethylase and a lysyl-hydroxylase. Arginine demethylase
    which demethylates histone H3 at 'Arg-2' (H3R2me) and histone H4 at 'Arg-3' (H4R3me), thereby playing a central role
    in histone code. Also acts as a lysyl-hydroxylase that catalyzes 5-hydroxylation on specific lysine residues of target
    proteins such as U2AF2/U2AF65 and LUC7L2. Acts as a regulator of RNA splicing by mediating 5-hydroxylation of
    U2AF2/U2AF65, affecting the pre-mRNA splicing activity of U2AF2/U2AF65. Required for differentiation of multiple
    organs during embryogenesis. Probably acts as a key regulator of hematopoietic differentiation. Seems to be necessary
    for the regulation of macrophage cytokine responses
    Induction: Up-regulated upon cytokine treatment, but not upon TNF treatment
    Enzyme Number (IUBMB): EC 1.14.11.- 

    Inhib.
    RNA:
        
    Browse for Gene Knock-down Tools from Millipore
    Browse Nano Scale siRNA at Sigma-Aldrich
    Sigma-Aldrich esiRNA and siRNA for JMJD6
    Sigma-Aldrich shRNA for JMJD6
    OriGene 29mer shRNA kits in GFP-retroviral vector (see all 4): JMJD6
    OriGene shRNA RFP (see all 4): JMJD6
    OriGene basic RS shRNA (see all 4): JMJD6
    OriGene siRNA (see all 2): JMJD6
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing of JMJD6 
    miRNA:Sigma-Aldrich microRNA Mimics for JMJD6
    Browse microRNA target validation systems at Sigma-Aldrich 
    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of JMJD6 
    3 SABiosciences Assays for microRNAs that regulate JMJD6:
    hsa-miR-708 hsa-miR-298 hsa-miR-28-5p

    Gene
    Editing:
    Browse CompoZr Knockout ZFN at Sigma-Aldrich 

    Clones:Browse Clones for the Expression of Recombinant Proteins Available from Millipore
    Browse iPSC Reprogramming Factors at Sigma-Aldrich
    OriGene GFP tagged cDNA clones in CMV expression vector (see all 2): JMJD6
    OriGene Myc/DDK tagged cDNA clones in CMV expression vector (see all 2): JMJD6
    OriGene untagged cDNA clones in CMV expression vector (see all 3): JMJD6
    OriGene 3'-UTR clone (see all 2): JMJD6 
    Browse MicroRNA Expression Plasmids 
    GenScript Custom cDNA clone Services for JMJD6 
    Browse Sino Biological Human cDNA Clones

    Cell
    Lines:
      
    GenScript Custom overexpressing Cell Line Services for JMJD6 

    5/9 Gene Ontology (GO) molecular function terms (GO ID links to tree view) (see all 9):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0004872 receptor activity IEA--
    GO:0005515 protein binding IPI19574390
    GO:0016491 oxidoreductase activity IEA--
    GO:0016702 oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen IEA--
    GO:0033746 histone demethylase activity (H3-R2 specific) IDA17947579
    About this table

    JMJD6 for ontologies           About GeneDecksing

    Animal Models: 15/17 MGI mutant phenotypes (inferred from 6 alleles(MGI details for Jmjd6) (see all 17):

    cardiovascular systemcellularcraniofacialdigestive/alimentarygrowth/size
    hematopoietic systemhomeostasis/metabolismimmune systemlethality-prenatal/perinatalliver/biliary system
    musclenervous systemno phenotypic analysisrenal/urinary systemrespiratory system

    JMJD6 for phenotypes           About GeneDecksing


    (Pathways according to Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB, Sets of similar genes according to GeneDecks, PCR Arrays from SABiosciences, Proteins Network according to SABiosciences, Sigma-Aldrich, Interactions according to 1UniProtKB, 2MINT, and/or 3STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Dec 2010 via Entrez Gene).
    About This Section


    JMJD6 for pathways           About GeneDecksing

    1 Sigma-Aldrich "Your Favorite Gene" (powered by Ingenuity) Pathway for  JMJD6
        IL-12 Signaling and Production in Macrophages

        SABiosciences Custom Pathway-Focused PCR Arrays for JMJD6 

        Sigma-Aldrich "Your Favorite Gene" (powered by Ingenuity) Molecular Interaction Network for JMJD6
        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for JMJD6

    5/23 Gene Ontology (GO) biological process terms (GO ID links to tree view) (see all 23):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0001568 blood vessel development IEA--
    GO:0001822 kidney development IEA--
    GO:0006397 mRNA processing IEA--
    GO:0006915 apoptosis IEA--
    GO:0007166 cell surface receptor linked signaling pathway IEA--
    About this table

    JMJD6 for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, Sigma-Aldrich, Tocris Bioscience, and/or Novoseek and Drugs according to Enzo Life Sciences and/or PharmGKB)
    About This Section

    JMJD6 for compounds           About GeneDecksing

    Browse Small Molecules at Sigma-Aldrich
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for JMJD6
    4 Novoseek chemical compound relationships for JMJD6 gene
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    phosphatidylserine 89.7 83 11877474 (5), 11742274 (3), 15622002 (3), 17534843 (2) (see all 44)
    phosphoserine 58.3 2 10936187 (1), 7583670 (1)
    phospholipid 26.7 2 9915844 (1), 7583670 (1)
    lipid 3.1 1 10936187 (1)
    About this table



    (GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 228 Homo sapiens; Dec 8 2010) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    non coding RNAs according to RNAdb,
    ESTs according to GeneTide,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from Millipore,
    siRNAs from Sigma-Aldrich, OriGene, Qiagen, Super-pooled esiRNAs from Sigma-Aldrich,
    shRNA from Sigma-Aldrich, OriGene, microRNA from Sigma-Aldrich, Qiagen, SABiosciences,
    Tagged/untagged cDNA clones from OriGene, Sigma-Aldrich, GenScript, Primers from OriGene and/or SABiosciences)
    About This Section

    Inhib.
    RNA:
         
    Browse for Gene Knock-down Tools from Millipore
    Browse Nano Scale siRNA at Sigma-Aldrich
    Sigma-Aldrich esiRNA and siRNA for JMJD6
    Sigma-Aldrich shRNA for JMJD6
    OriGene 29mer shRNA kits in GFP-retroviral vector (see all 4): JMJD6
    OriGene shRNA RFP (see all 4): JMJD6
    OriGene basic RS shRNA (see all 4): JMJD6
    OriGene siRNA (see all 2): JMJD6
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing of JMJD6 
    miRNA: Sigma-Aldrich microRNA Mimics for JMJD6
    Browse microRNA target validation systems at Sigma-Aldrich 
    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of JMJD6 
    3 SABiosciences Assays for microRNAs that regulate JMJD6:
    hsa-miR-708 hsa-miR-298 hsa-miR-28-5p
    Clones: Browse FLAG tag genes at Sigma-Aldrich
    OriGene GFP tagged cDNA clones in CMV expression vector (see all 2): JMJD6
    OriGene Myc/DDK tagged cDNA clones in CMV expression vector (see all 2): JMJD6
    OriGene untagged cDNA clones in CMV expression vector (see all 3): JMJD6
    OriGene 3'-UTR Clone (see all 2): JMJD6 
    Browse OriGene MicroRNA Expression Plasmids 
    GenScript Custom cDNA clone Services for JMJD6 
    Primers: OriGene genome-wide validated SYBR primer pairs: JMJD6
    Browse OriGene validated miRNA SYBR primer pairs 
    SABiosciences RT2 qPCR Primer Assay for JMJD6: PPH09860A

    REFSEQ mRNAs for JMJD6 gene (2 alternative transcripts): 

    NM_001081461.1  NM_015167.2  

    Additional cDNA sequence: 

    AB011157.1 AB073711.1 AK021780.1 AK294816.1 AK314541.1 BC016837.1 BC047003.1 BC066654.1 
    CR594304.1 CR597139.1 CR598927.1 CR600929.1 CR601337.1 CR602714.1 CR609667.1 CR613854.1 
    EF527406.1 EF527407.1 

    15 DOTS entries:

    DT.100701748  DT.95298523  DT.100812905  DT.316217  DT.100812903  DT.120924927  DT.91824600  DT.203158 
    DT.95298519  DT.100812912  DT.100812901  DT.100812900  DT.100812909  DT.120925009  DT.95298521 

    24/263 AceView cDNA sequences (see all 263):

    BX417653 AA351360 BE466065 AI827036 CD673337 AI419157 AI565339 CR602714 
    BU732500 CR609667 AB073711 CR600929 CA420455 CK904897 BQ671919 CA436956 
    BM792988 BQ716899 BE275732 BM827225 BQ028416 BU727487 BM788992 AA262167 

    Unigene Cluster for JMJD6:

    Jumonji domain containing 6
    Hs.514505  [show with all ESTs]
    Unigene Representative Sequence: NM_001081461


    GeneLoc Exon Structure

    2 Alternative Splicing Database (ASD) splice patterns (SP) for JMJD6

    ExUns: 1 ^ 2a · 2b ^ 3 ^ 4 ^ 5 ^ 6a · 6b ^ 7
    SP1:                                -                     
    SP2:                                                      

    About this scheme

    ECgene alternative splicing isoforms for JMJD6
    4 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000344991 ENST00000445478(uc002jsn.1) ENST00000397625 ENST00000303996(uc002jso.2 uc010dgz.2)


    (Experimental results according to 1GeneNote and GNF BioGPS,
    probe sets-to-genes annotations according to 2GeneAnnot , 3GeneTide , Sets of similar genes according to GeneDecks, Electronic Northern calculations according to data from UniGene (Build 228 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
    Primers from OriGene and/or SABiosciences )
    About This Section

    JMJD6 expression in normal and diseased human tissues

    1  / 2

    10 probe-sets matching JMJD6 gene

    Affymetrix
    probe-set
    Array  GeneAnnot data GeneNote data GeneTide data
    # genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank
    35851_g_at2 U95-A 1 0.94 1.00 0.76 0.89 -- -- -- -- --
    35850_at2 U95-A 1 0.81 1.00 0.83 1.17 -- -- -- -- --
    35849_at2 U95-A 1 0.62 1.00 0.14 0.96 -- -- -- -- --
    212723_at2 U133-A 1 1.00 1.00 -- -- -- -- -- -- --
    212722_s_at2 U133-A 1 1.00 1.00 -- -- -- -- -- -- --
    215233_at2 U133-A 1 0.46 1.00 -- -- -- -- -- -- --
    212723_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --
    212722_s_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --
    1552629_a_at2 U133Plus2 1 0.55 1.00 -- -- -- -- -- -- --
    215233_at2 U133Plus2 1 0.46 1.00 -- -- -- -- -- -- --
    About this table

    JMJD6 for expression           About GeneDecksing

    Data from Genenote  (Publications) and GNF BioGPS
        About these images
    JMJD6 gene expression
    JMJD6 gene electronic northern expression
    JMJD6 gene sage expression
    About these images

    CGAP SAGE TAG: GTGGGAAACG

    SOURCE GeneReport for Unigene cluster: Hs.514505

    UniProtKB/Swiss-Prot: JMJD6_HUMAN, Q6NYC1
    Tissue specificity: Highly expressed in the heart, skeletal muscle and kidney. Expressed at moderate or low level in
    brain, placenta, lung, liver, pancreas, spleen, thymus, prostate, testis and ovary. Up-regulated in many patients with
    chronic pancreatitis. Expressed in nursing thymic epithelial cells

    Primers: OriGene genome-wide validated SYBR primer pairs: JMJD6
    Browse OriGene validated miRNA SYBR primer pairs 
    SABiosciences RT2 qPCR Primer Assay for JMJD6: PPH09860A
        SABiosciences Custom PCR Arrays for JMJD6 


    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD and/or 5MGI Dec 24 2010, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
    About This Section

    Orthologs for JMJD6 gene from 5/15 species (see all 15)
    Organism Gene Locus Description Human
    Similarity
    NCBI accessions
    dog
    (Canis familiaris)
    JMJD61   -- jumonji domain containing 6 92.56(n)
    98.26(a)
    483335  XM_843987.1  XP_849080.1 
    chimpanzee
    (Pan troglodytes)
    JMJD61   -- jumonji domain containing 6 99.76(n)
    100(a)
    468338  XM_001153530.1  XP_001153530.1 
    cow
    (Bos taurus)
    JMJD61   -- jumonji domain containing 6 92.36(n)
    98.34(a)
    508343  NM_001034320.1  NP_001029492.1 
    rat
    (Rattus norvegicus)
    Jmjd61   -- jumonji domain containing 6 90.81(n)
    98.01(a)
    360665  NM_001012143.1  NP_001012143.1 
    mouse
    (Mus musculus)
    Jmjd61 , 5 11 (81.49 cM)5
    jumonji domain containing 61, 5 89.99(n)1
    97.77(a)1
    1078171  NM_033398.21  NP_203971.21 
     AA7941345  AF3041185  (see all 21)
    About this table        Species with no ortholog for JMJD6

    ENSEMBL Gene Tree for JMJD6 (if available)

    (Paralogs according to 1HomoloGene
    and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
    About This Section
    Paralogs for JMJD6 gene
    JMJD42  

    JMJD6 for paralogs           About GeneDecksing



    (SNPs according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Resequencing Primers from Qiagen)
    About This Section

    10/107 NCBI SNPs in JMJD6 are shown (see all 107)
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidChr 17 posSequenceRecsAA
    Chg
    TypeMoreRecsAllele
    freq
    PopTotal
    sample
    More
    ----------
    rs10143901,2
    C,F,O,A,H,74712886(-) GGGTCC/TTGCTT 1 -- int113Minor allele frequency- T:0.16NS EA MN NA WA 3364
    rs20058271,2
    C,A,74720877(-) ctgtcT/Gtccaa 2 -- int13Minor allele frequency- G:0.17NA 6
    rs22407691,2
    C,F,O,74718155(-) TCCCTG/AGATCA 2 -- int121Minor allele frequency- A:0.25NS EA NA WA 2882
    rs22407701,2
    C,74717604(-) TTTGTG/ATTTTG 2 -- int15Minor allele frequency- A:0.32EA NA WA 1704
    rs22407711,2
    C74714991(-) AAGAAA/GTGGGT 2 -- int10--------
    rs22407721,2
    C,F,A,H,74711723(-) GAGGCA/GTTGGC 1 -- ut3114Minor allele frequency- G:0.24EA NS NA WA 1898
    rs22407731,2
    C,F,O,74710783(-) AGTCAG/TCTCTG 1 -- ut3110Minor allele frequency- T:0.12EA NS NA WA 2126
    rs22407741,2
    C,F,A,74710572(-) GGCCAA/GGGTAG 1 -- ut3121Minor allele frequency- G:0.30EA NS NA WA 2980
    rs22407751,2
    C,F,A,H,74710128(-) TCTTAA/GTAATT 1 -- ut3117Minor allele frequency- G:0.31NS EA NA WA 988
    rs22865841,2
    C,A,74713005(-) TTTAAA/TTTGTT 1 -- int17Minor allele frequency- T:0.28MN EA NA WA 1466
    About this table

    HapMap Linkage Disequilibrium images for JMJD6 (up to first 250kb)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
    Database of Genomic Variants (DGV): 1 variation for JMJD6
         1 CNV: 73037

    QIAGEN SeqTarget long-range PCR primers for resequencing JMJD6 

    (in which this Gene is Involved, According to OMIM, UniProtKB, Novoseek, PharmGKB, Genatlas, GeneTests, Blood group antigen gene mutations by BGMUT, LSDB, HGMD, GAD, HuGE Navigator, and/or TGDB.)
    About This Section

    JMJD6 for disorders           About GeneDecksing

    OMIM: 604914

    1 Novoseek disease relationship for JMJD6 gene

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    inflammation 37 2 11877474 (2)
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    Export disorders and mutations for JMJD6 gene to outside databases

    (Possibly Related Articles in Doctor's Guide)
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      --

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6UniProtKB/TrEMBL, and/or 7Novoseek)
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    10/63 PubMed articles for JMJD6 gene, integrated from 7 sources (see all 63):
    (articles sorted by number of sources associating them with JMJD6)
    1. Phosphatidylserine receptor in chronic pancreatitis: evidence for a macrophage independent role. (PubMed id 15622002)1, 2, 7 Koeninger J.... Friess H. (2005)
    2. Phosphatidylserine receptor cooperates with high-density lipoprotein receptor in recognition of apoptotic cells by thymic nurse cells. (PubMed id 15072554)1, 2, 7 Cao W.M.... Ishida T. (2004)
    3. Elastase-mediated phosphatidylserine receptor cleavage impairs apoptotic cell clearance in cystic fibrosis and bronchiectasis. (PubMed id 11877474)1, 3, 7 Vandivier R.W....Henson P.M. (2002)
    4. Jmjd6 catalyses lysyl-hydroxylation of U2AF65, a protein associated with RNA splicing. (PubMed id 19574390)1, 2 Webby C.J....Boettger A. (2009)
    5. JMJD6 is a histone arginine demethylase. (PubMed id 17947579)1, 2 Chang B.... Bruick R.K. (2007)
    6. Nuclear localization of the phosphatidylserine receptor protein via multiple nuclear localization signals. (PubMed id 14729065)1, 2 Cui P.... Pei D. (2004)
    7. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
    8. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
    9. Prediction of the coding sequences of unidentified human genes. IX. The complete sequences of 100 new cDNA clones from brain which can code for large proteins in vitro. (PubMed id 9628581)1, 2 Nagase T....Ohara O. (1998)
    10. Phosphatidylserine receptor is required for the engulfment of dead apoptotic cells and for normal embryonic development in zebrafish. (PubMed id 15469976)1, 7 Hong J.R....Wu J.L. (2004)

    (in PubMed, OMIM, and NCBI Bookshelf)
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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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    Entrez Gene: 23210 HGNC: 19355 AceView: PTDSR Ensembl:ENSG00000070495 euGenes: HUgn23210
    ECgene: JMJD6 H-InvDB: JMJD6

    (According to HUGE)
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    HUGE: KIAA0585

    (According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
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    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from XenneX, Inc.)
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    Patent Information for JMJD6 gene:
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