Set Analyses:
Advanced Search

Advanced Search

 
Search By
Section (entire)
for


 
or upload a file of gene symbols


Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

JHDM1D Gene

protein-coding   GIFtS: 46
GCID: GC07M139784

Jumonji C Domain Containing Histone Demethylase 1 Homolog...

  See related disease
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
About This Section

Aliases
Jumonji C Domain Containing Histone Demethylase 1 Homolog D (S.
Cerevisiae)1 2
     Lysine-Specific Demethylase 72
JmjC Domain-Containing Histone Demethylation Protein 1D2 3     EC 1.14.11.-3
KDM7A2     KDM73
Histone Lysine Demethylase JHDM1D2     KIAA17183
Jumonji C Domain-Containing Histone Demethylase 1 Homolog D2     

External Ids:    HGNC: 222241   Entrez Gene: 808532   Ensembl: ENSG000000064597   UniProtKB: Q6ZMT43   

Export aliases for JHDM1D gene to outside databases

Previous GC identifers: GC07M139432 GC07M134078


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

GeneCards Summary for JHDM1D Gene: 
JHDM1D (jumonji C domain containing histone demethylase 1 homolog D (S. cerevisiae)) is a protein-coding gene. Diseases associated with JHDM1D include cleft lip. GO annotations related to this gene include methylated histone residue binding and iron ion binding. An important paralog of this gene is PHF2.

UniProtKB/Swiss-Prot: KDM7_HUMAN, Q6ZMT4
Function: Histone demethylase required for brain development. Specifically demethylates dimethylated 'Lys-9' and
'Lys-27' (H3K9me2 and H3K27me2, respectively) of histone H3 and monomethylated histone H4 'Lys-20' residue
(H4K20Me1), thereby playing a central role in histone code. Specifically binds trimethylated 'Lys-4' of histone
H3 (H3K4me3), affecting histone demethylase specificity: in presence of H3K4me3, it has no demethylase activity
toward H3K9me2, while it has high activity toward H3K27me2. Demethylates H3K9me2 in absence of H3K4me3. Has
activity toward H4K20Me1 only when nucleosome is used as a substrate and when not histone octamer is used as
substrate




(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 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000007.13  NC_018918.2  NT_007914.15  NT_079596.2  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the JHDM1D gene promoter:
         Pax-6   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search SABiosciences Chromatin IP Primers for JHDM1D

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat JHDM1D


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

Entrez Gene cytogenetic band: 7q34   Ensembl cytogenetic band:  7q34   HGNC cytogenetic band: 7q34

JHDM1D Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
JHDM1D gene location

GeneLoc information about chromosome 7         GeneLoc Exon Structure

GeneLoc location for GC07M139784:  view genomic region     (about GC identifiers)

Start:
139,784,546 bp from pter      End:
139,876,835 bp from pter
Size:
92,290 bases      Orientation:
minus strand

1 alternative location:
Chr7-,CRA_TCAG 139,113,396-139,205,589     

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

UniProtKB/Swiss-Prot: KDM7_HUMAN, Q6ZMT4 (See protein sequence)
Recommended Name: Lysine-specific demethylase 7  
Size: 941 amino acids; 106557 Da
Cofactor: Binds 1 Fe(2+) ion per subunit
Subcellular location: Nucleus
Sequence caution: Sequence=BAD18641.1; Type=Frameshift; Positions=902; Sequence=EAL24032.1; Type=Erroneous gene
model prediction;
6 PDB 3D structures from and Proteopedia for JHDM1D:
3KV5 (3D)        3KV6 (3D)        3KV9 (3D)        3KVA (3D)        3KVB (3D)        3U78 (3D)    
Secondary accessions: A4D1S9 C9JJH9 C9JQU2 Q6MZL8 Q9C0E5
Alternative splicing: 2 isoforms:  Q6ZMT4-1   Q6ZMT4-2   (May be produced at very low levels due to a premature stop codon in the mRNA, leading to nonsense-mediated mRNA decay. No experimental confirmation available)

Explore the universe of human proteins at neXtProt for JHDM1D: NX_Q6ZMT4

Explore proteomics data for JHDM1D at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q6ZMT4

  • JHDM1D Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    JHDM1D Protein Expression
    REFSEQ proteins: NP_085150.1  
    ENSEMBL proteins: 
     ENSP00000380692   ENSP00000420143   ENSP00000006967  

    Human Recombinant Protein Products for JHDM1D: 
    Browse Purified and Recombinant Proteins at EMD Millipore
    Browse R&D Systems for human recombinant proteins
    Browse recombinant and purified proteins available from Enzo Life Sciences
    Browse OriGene full length recombinant human proteins expressed in human HEK293 cells
    OriGene Protein Over-expression Lysate for JHDM1D
    OriGene Custom MassSpec 
    OriGene Custom Protein Services for JHDM1D
    GenScript Custom Purified and Recombinant Proteins Services for JHDM1D
    Novus Biologicals JHDM1D Lysate
    Browse Sino Biological Recombinant Proteins
    Browse Sino Biological Cell Lysates 
    Browse ProSpec Recombinant Proteins
    Cloud-Clone Corp. Proteins for JHDM1D 

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus IDA--
    GO:0005730NOT nucleolus IDA--

    JHDM1D for ontologies           About GeneDecksing



    JHDM1D Antibody Products: 
    Browse EMD Millipore's Extensive Line of Mono- and Polyclonal Antibodies
    Browse R&D Systems for Antibodies
    Browse OriGene Antibodies
    OriGene Custom Antibody Services for JHDM1D
    GenScript Custom Superior Antibodies Services for JHDM1D
    Novus Biologicals JHDM1D Antibodies
    Abcam antibodies for JHDM1D
    Cloud-Clone Corp. Antibodies for JHDM1D 
    ThermoFisher Antibody for JHDM1D
    LSBio Antibodies in human, mouse, rat for JHDM1D 

    Assay Products for JHDM1D: 
    Browse Kits and Assays available from EMD Millipore
    OriGene Custom Assay Services for JHDM1D
    Browse R&D Systems for biochemical assays
    GenScript Custom Assay Services for JHDM1D
    Browse Enzo Life Sciences for kits & assays
    Cloud-Clone Corp. ELISAs for JHDM1D 
    Cloud-Clone Corp. CLIAs for JHDM1D


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    HGNC Gene Families: 
    KDM: Chromatin-modifying enzymes / K-demethylases
    PHF: Zinc fingers, PHD-type

    5/6 InterPro protein domains (see all 6):
     IPR001965 Znf_PHD
     IPR013083 Znf_RING/FYVE/PHD
     IPR003347 JmjC_dom
     IPR019786 Zinc_finger_PHD-type_CS
     IPR011011 Znf_FYVE_PHD

    Graphical View of Domain Structure for InterPro Entry Q6ZMT4

    ProtoNet protein and cluster: Q6ZMT4

    1 Blocks protein domain: IPB003347 Transcription factor jumonji

    UniProtKB/Swiss-Prot: KDM7_HUMAN, Q6ZMT4
    Domain: The PHD-type zinc finger mediates the binding to H3K4me3. Binding to H3K4me3 prevents its access to
    H3K9me2
    Domain: The linker region is a critical determinant of demethylase specificity. It prevents the active site of
    JmjC to reach the target H3K9me2 when the PHD-type zinc finger binds to H3K4me3, while it favors selectivity
    toward H3K27me2
    Similarity: Belongs to the JHDM1 histone demethylase family. JHDM1D subfamily
    Similarity: Contains 1 JmjC domain
    Similarity: Contains 1 PHD-type zinc finger


    JHDM1D for domains           About GeneDecksing


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
    About This Section

    Molecular Function:

         UniProtKB/Swiss-Prot Summary: KDM7_HUMAN, Q6ZMT4
    Function: Histone demethylase required for brain development. Specifically demethylates dimethylated 'Lys-9' and
    'Lys-27' (H3K9me2 and H3K27me2, respectively) of histone H3 and monomethylated histone H4 'Lys-20' residue
    (H4K20Me1), thereby playing a central role in histone code. Specifically binds trimethylated 'Lys-4' of histone
    H3 (H3K4me3), affecting histone demethylase specificity: in presence of H3K4me3, it has no demethylase activity
    toward H3K9me2, while it has high activity toward H3K27me2. Demethylates H3K9me2 in absence of H3K4me3. Has
    activity toward H4K20Me1 only when nucleosome is used as a substrate and when not histone octamer is used as
    substrate
    Biophysicochemical properties: Kinetic parameters: KM=1.2 uM for histone H3 H3K9Me2;

         Enzyme Number (IUBMB): EC 1.14.11.-1

         Gene Ontology (GO): 5/10 molecular function terms (GO ID links to tree view) (see all 10):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005506iron ion binding TAS--
    GO:0005515protein binding ----
    GO:0008270zinc ion binding IDA--
    GO:0016702oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen ----
    GO:0016706oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors IDA--
         
    JHDM1D for ontologies           About GeneDecksing


    Phenotypes:
         2 GenomeRNAi human phenotypes for JHDM1D:
     Decreased Tat-dependent transc  Increased S DNA content 

         1 MGI mutant phenotype (inferred from 1 allele(MGI details for Jhdm1d):
     skeleton 

    JHDM1D for phenotypes           About GeneDecksing

    Animal Models:
       inGenious Targeting Laboratory - Custom generated mouse model solutions for JHDM1D 
       inGenious Targeting Laboratory - Custom generated inducible mouse model solutions for JHDM1D

       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for JHDM1D 
       genOway customized Knockin model: humanization, point mutation, expression monitoring, etc. for JHDM1D 

    miRNA
    Products:
        
    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat JHDM1D
    8/194 QIAGEN miScript miRNA Assays for microRNAs that regulate JHDM1D (see all 194):
    hsa-miR-411* hsa-miR-938 hsa-miR-605 hsa-miR-128 hsa-miR-138-2* hsa-miR-502-3p hsa-miR-208b hsa-miR-508-5p
    Browse SwitchGear 3'UTR luciferase reporter plasmids
    Inhib. RNA
    Products:
        
    Browse for Gene Knock-down Tools from EMD Millipore
    OriGene RNAi products in human, mouse, rat for JHDM1D
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat JHDM1D

    Gene Editing
    Products:
    DNA2.0 Custom Protein Engineering Service for JHDM1D
    Sirion Biotech Customized adenovirus for overexpression of JHDM1D

    Clone
    Products:
         
    Browse Clones for the Expression of Recombinant Proteins Available from EMD Millipore
    OriGene clones in human, mouse for JHDM1D (see all 7)
    OriGene ORF clones in mouse, rat for JHDM1D
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector: JHDM1D (NM_030647)
    Browse Sino Biological Human cDNA Clones
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for JHDM1D
    Search Vector BioLabs for ready-to-use adenovirus/AAV for human, mouse, rat JHDM1D
    Sirion Biotech Customized lentivirus for stable overexpression of JHDM1D 
                         Customized lentivirus expression plasmids for stable overexpression of JHDM1D 

    Cell Line
    Products:
         
    GenScript Custom overexpressing Cell Line Services for JHDM1D
    Search LifeMap BioReagents cell lines for JHDM1D
    In Situ Assay
    Products:
       

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for JHDM1D


    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene).
    About This Section



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for JHDM1D

    Gene Ontology (GO): 5/7 biological process terms (GO ID links to tree view) (see all 7):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006351transcription, DNA-dependent IEA--
    GO:0030901midbrain development ISS--
    GO:0033169histone H3-K9 demethylation IDA--
    GO:0035574histone H4-K20 demethylation IDA--
    GO:0045893positive regulation of transcription, DNA-dependent IEA--

    JHDM1D for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section
    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for JHDM1D (KDM7)

    Search CenterWatch for drugs/clinical trials and news about JHDM1D / KDM7

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from EMD Millipore,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for JHDM1D gene: 
    NM_030647.1  

    Unigene Cluster for JHDM1D:

    Jumonji C domain containing histone demethylase 1 homolog D (S. cerevisiae)
    Hs.308710  [show with all ESTs]
    Unigene Representative Sequence: NM_030647
    4 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000397560(uc010lng.3 uc003vvm.3) ENST00000472616 ENST00000478996
    ENST00000006967
    miRNA
    Products:
         
    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat JHDM1D
    8/194 QIAGEN miScript miRNA Assays for microRNAs that regulate JHDM1D (see all 194):
    hsa-miR-411* hsa-miR-938 hsa-miR-605 hsa-miR-128 hsa-miR-138-2* hsa-miR-502-3p hsa-miR-208b hsa-miR-508-5p
    Browse SwitchGear 3'UTR luciferase reporter plasmids
    Inhib. RNA
    Products:
         
    Browse for Gene Knock-down Tools from EMD Millipore
    OriGene RNAi products in human, mouse, rat for JHDM1D
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat JHDM1D
    Clone
    Products:
         
    OriGene clones in human, mouse for JHDM1D (see all 7)
    OriGene ORF clones in mouse, rat for JHDM1D
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector: JHDM1D (NM_030647)
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for JHDM1D
    Search Vector BioLabs for ready-to-use adenovirus/AAV for human, mouse, rat JHDM1D
    Sirion Biotech Customized lentivirus for stable overexpression of JHDM1D 
                         Customized lentivirus expression plasmids for stable overexpression of JHDM1D 
    Primer
    Products:
        
    OriGene qSTAR qPCR primer pairs in human, mouse for JHDM1D
    SABiosciences RT2 qPCR Primer Assay in human, mouse, rat JHDM1D
      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat JHDM1D
      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat JHDM1D

    Additional mRNA sequence: 

    AB051505.1 AK057208.1 AK131497.1 BC127006.1 BC127007.1 BX641017.1 BX649115.1 

    6 DOTS entries:

    DT.213389  DT.95168311  DT.99965433  DT.40221597  DT.91983211  DT.95168309 

    10 AceView cDNA sequences:

    AI671992 AI813397 AI672783 AI002118 BX106614 BF806223 AI143364 AW972132 
    BQ317991 BF825492 

    GeneLoc Exon Structure

    2 Alternative Splicing Database (ASD) splice patterns (SP) for JHDM1D    About this scheme

    ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13 ^ 14 ^ 15
    SP1:                                                                          -               
    SP2:                                                                                          


    ECgene alternative splicing isoforms for JHDM1D

    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    JHDM1D expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: TGTGTCCTTT
    JHDM1D Expression
    About this image


    See JHDM1D Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for JHDM1D

    SOURCE GeneReport for Unigene cluster: Hs.308710
        SABiosciences Custom PCR Arrays for JHDM1D
    Primer
    Products:
    OriGene qSTAR qPCR primer pairs in human, mouse for JHDM1D
    SABiosciences RT2 qPCR Primer Assay in human, mouse, rat JHDM1D
    QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat JHDM1D
    QIAGEN QuantiFast Probe-based Assays in human, mouse, rat JHDM1D
    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for JHDM1D

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
    About This Section

    This gene was present in the common ancestor of animals and fungi.

    Orthologs for JHDM1D gene from 6/11 species (see all 11)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Jhdm1d1 , 5 jumonji C domain-containing histone demethylase 1 homolog more1, 5 90.88(n)1
    90.42(a)1
      6 (17.87 cM)5
    3385231  NM_001033430.41  NP_001028602.21 
     391366235 
    chicken
    (Gallus gallus)
    Aves JHDM1D1 jumonji C domain containing histone demethylase 1 homolog more 79.21(n)
    80.73(a)
      418110  XM_416344.3  XP_416344.3 
    lizard
    (Anolis carolinensis)
    Reptilia JHDM1D6
    Uncharacterized protein
    70(a)
    1 ↔ 1
    5(15251925-15309297)
    zebrafish
    (Danio rerio)
    Actinopterygii jhdm1db1 jumonji C domain containing histone demethylase 1 homolog more 63.07(n)
    62.95(a)
      503902  NM_001202419.1  NP_001189348.1 
    worm
    (Caenorhabditis elegans)
    Secernentea jmjd-1.16
    jmjd-1.26
    (see all 3)
    Lysine-specific demethylase 7 homolog
    (see all 3)
    23(a)
    17(a)
    (see all 3)
    possible ortholog
    possible ortholog
    (see all 3)
    II(11806567-11808829)
    IV(4660991-4665208)
    baker's yeast
    (Saccharomyces cerevisiae)
    Saccharomycetes JHD16
    JmjC domain family histone demethylase specific fo...
    23(a)
    1 → many
    V(254656-256134)


    ENSEMBL Gene Tree for JHDM1D (if available)
    TreeFam Gene Tree for JHDM1D (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for JHDM1D gene
    PHF22  PHF82  KDM2A2  KDM2B2  FBXL192  
    3 SIMAP similar genes for JHDM1D using alignment to 4 protein entries:     KDM7_HUMAN (see all proteins):
    PHF8    FBXL10    PHF2

    JHDM1D for paralogs           About GeneDecksing



    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section

    10/1821 SNPs in JHDM1D are shown (see all 1821)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 7 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1139451421,2
    C,F--139784086(+) CCTCAC/TGGAGT 1 -- ds50013Minor allele frequency- T:0.04CSA WA 121
    rs1823078521,2
    --139784162(+) TTTGTC/GTCTCA 1 -- ds50010--------
    rs1433624471,2
    --139784230(+) AAACAC/GTGCCT 1 -- ds50010--------
    rs596185221,2
    C,F--139784261(+) AAATAT/CTTGTG 1 -- ds500112Minor allele frequency- C:0.34NA WA CSA EA 374
    rs772157861,2
    F--139784305(+) ATGTTC/TATTAG 1 -- ds50011Minor allele frequency- T:0.01WA 118
    rs1505069691,2
    --139784326(+) ACATCC/TGTTTC 1 -- ds50010--------
    rs1394792841,2
    --139784327(+) CATCCA/GTTTCT 1 -- ds50010--------
    rs1855411751,2
    --139784384(+) TCTTTA/GAGCAA 1 -- ds50010--------
    rs1912429391,2
    --139784423(+) AAATAA/GGACAA 1 -- ds50010--------
    rs1835519941,2
    --139784440(+) TTCACA/GTTGAA 1 -- ds50010--------

    HapMap Linkage Disequilibrium report for JHDM1D (139784546 - 139876835 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 4 variations for JHDM1D:    About this table     
    Variant IDTypeSubtypePubMed ID
    esv2735212CNV Deletion23290073
    esv2622729CNV Deletion19546169
    esv29440CNV Loss19812545
    nsv889247CNV Gain21882294

    SABiosciences Cancer Mutation PCR Assays
    Search QIAGEN SeqTarget long-range PCR primers for resequencing JHDM1D
    DNA2.0 Custom Variant and Variant Library Synthesis for JHDM1D

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
    2 diseases for JHDM1D:    About MalaCards
    cleft lip    


    JHDM1D for disorders           About GeneDecksing

    Genetic Association Database (GAD): JHDM1D
    Human Genome Epidemiology (HuGE) Navigator: JHDM1D (1 document)

    Export disorders for JHDM1D gene to outside databases

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
    About This Section

    PubMed articles for JHDM1D gene, integrated from 9 sources (see all 13):
    (articles sorted by number of sources associating them with JHDM1D)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Enzymatic and structural insights for substrate specificity of a family of jumonji histone lysine demethylases. (PubMed id 20023638)1, 2, 3 Horton J.R.... Cheng X. (2010)
    2. Dual-specificity histone demethylase KIAA1718 (KDM7A) regulates neural differentiation through FGF4. (PubMed id 20084082)1, 3 Huang C....Chen C.D. (2010)
    3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
    4. Prediction of the coding sequences of unidentified human genes. XIX. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro. (PubMed id 11214970)1, 2 Nagase T.... Ohara O. (2000)
    5. Increased expression of histone demethylase JHDM1D und er nutrient starvation suppresses tumor growth via down-regulating angiogenesis. (PubMed id 22143793)1 Osawa T....Shibuya M. (2011)
    6. Genetic associations of variants in genes encoding HI V-dependency factors required for HIV-1 infection. (PubMed id 21083371)4 Chinn L.W....O'Brien S.J. (2010)
    7. Histone H4K20/H3K9 demethylase PHF8 regulates zebrafish brain and craniofacial development. (PubMed id 20622853)2 Qi H.H....Shi Y. (2010)
    8. KDM7 is a dual demethylase for histone H3 Lys 9 and L ys 27 and functions in brain development. (PubMed id 20194436)2 Tsukada Y....Nakayama K.I. (2010)
    9. Toward a confocal subcellular atlas of the human proteome. (PubMed id 18029348)1 Barbe L....Andersson-Svahn H. (2008)
    10. The full-ORF clone resource of the German cDNA consortium. (PubMed id 17974005)2 Bechtel S.... Schupp I. (2007)

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     ANDOR
    Aliases
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 80853 HGNC: 22224 AceView: KIAA1718.1 Ensembl:ENSG00000006459 euGenes: HUgn80853
    ECgene: JHDM1D H-InvDB: JHDM1D

    (According to HUGE)
    About This Section
    HUGE: KIAA1718

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for JHDM1D Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for JHDM1D gene:
    Search GeneIP for patents involving JHDM1D

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



    (Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Sirion Biotech, Cell lines from GenScript, and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or Enzo Life Sciences, In Situ Hybridization Assays from
    Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
    About This Section

     
     EMD Millipore Custom Antibody & Bulk Services
     EMD Millipore Preclinical / Clinical Development Services
     EMD Millipore Immunoassay Services
     EMD Millipore Target Screening & Profiling Services

      
     Browse Antibodies   Browse Cell Culture Products  
     Browse ELISAs   Browse Flow Cytometry Kits  
     Browse Primer Pairs   Browse Kinase Activity Assays/Reagents  
     Browse ELISpot Kits/Development Modules   Browse TFB/Immunoprecipitation Assays  
     Browse Apoptosis Detection Kits/Reagents   Browse Ubiquitin Proteasome Pathway (UPP) Assay Kits/Reagents  
     Browse DNA Damage/Repair Kits/Reagents   Browse Multiplex/Array Assay Kits/Reagents  
     Browse Cell Selection/Detection Kits/Reagents   Browse Secondary Antibodies/Controls/Staining Reagents  
     Browse Protease Activity Assays and Reagents   Browse Recombinant/Natural Proteins  
     Browse Stem Cell Products   Browse Tocris Biochemicals & Compounds  
     Browse cDNA Clones   Browse Proteome Profiler Antibody Arrays  
     Browse OriGene Antibodies   OriGene RNAi products in human, mouse, rat for JHDM1D  
     Browse OriGene qPCR primer pairs and template standards   OriGene Protein Over-expression Lysate for JHDM1D  
     OriGene Custom Mass Spec   OriGene clones in human, mouse for JHDM1D  
     OriGene qSTAR qPCR primer pairs in human, mouse for JHDM1D   Browse OriGene full length recombinant human proteins expressed in human HEK293 cells  
     OriGene ORF clones in mouse, rat for JHDM1D   OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling  
     OriGene Custom Antibody Services for JHDM1D   OriGene Custom Protein Services for JHDM1D  

     
     
     QIAGEN Custom miScript Target Protector blocks miRNA-binding site of in human, mouse, rat JHDM1D
     QIAGEN SeqTarget long-range PCR primers for resequencing JHDM1D
     QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat JHDM1D
     QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat JHDM1D
     QIAGEN QuantiFast Probe-based Assays in human, mouse, rat JHDM1D
     QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat JHDM1D
     GenScript Custom Purified and Recombinant Proteins Services for JHDM1D GenScript cDNA clones with any tag delivered in your preferred vector for JHDM1D
     GenScript Custom Assay Services for JHDM1D GenScript Custom Superior Antibodies Services for JHDM1D
     GenScript Custom overexpressing Cell Line Services for JHDM1D CloneReady with Over 120,000 Genes
     Gene Synthesis: Any Gene in Any Vector Vector-based siRNA and miRNA, Ready for Transfection
     Gene Mutant Library, Variants up to 10^11 Plasmid Preparation
     Custom Peptide Services
     Search for Antibodies & Assays

     Regulatory tfbs in JHDM1D promoter
     Search Chromatin IP Primers for JHDM1D
     RT2 qPCR Primer Assay in human, mouse, rat JHDM1D
     Search GNC Networks for JHDM1D
     SABiosciences Custom PCR Arrays for JHDM1D
     Search Tocris compounds for JHDM1D (KDM7)
     Browse Sino Biological Proteins and Antibodies
     Browse Sino Biological Cell Lysates
     Browse Sino Biological cDNA Clones
     4000+ Proteins
     Search Sino Biological for antibodies, proteins & pathways
     Protein Production Services
     Transfection Reagents
     Protein A/G/L resins
     Isotyping reagents
     Search www.enzolifesciences.com for proteins, assays, substrates, inhibitors & antibodies
     Novus Tissue Slides
     JHDM1D antibodies
     JHDM1D lysates
     Antibodies for JHDM1D
     See all of Abcam's Antibodies, Kits and Proteins for JHDM1D
     Custom Antibody / Protein Production Service
     Bulk Purchasing
     Advantages of Rabbit Monoclonal antibodies
     Abcam protocols and scientific support
     Browse ProSpec Recombinant Proteins




     Proteins for JHDM1D
     Antibodies for JHDM1D
     ELISAs for JHDM1D
     CLIAs for JHDM1D
     Search LifeMap BioReagents cell lines for JHDM1D
     Gene Synthesis
     Protein Engineering
     Variant Library Synthesis
     Codon Optimization
     Protein Production and Purification
     Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for JHDM1D
     Browse SwitchGear 3'UTR luciferase reporter plasmids for JHDM1D
     Browse SwitchGear Promoter luciferase reporter plasmids for JHDM1D
     ThermoFisher Antibody for JHDM1D
     Search Vector BioLabs for ready-to-use adenovirus/AAV for human, mouse, rat JHDM1D
     inGenious Targeting Laboratory - Custom generated mouse model solutions for JHDM1D
     inGenious Targeting Laboratory - Custom generated inducible mouse model solutions for JHDM1D
    Customized:
     lentivirus for stable overexpression of JHDM1D
     lentivirus expression plasmids for stable overexpression of JHDM1D
     adenovirus for overexpression of JHDM1D
     LSBio Antibodies in human, mouse, rat for JHDM1D
    Customized transgenic rodents for:
     Humanization
     Biomarker expression
     Off-target effect monitoring
     Translational medicine
     Tissue-specific gene expresssion
     Time-controlled gene expresssion
           
    GeneCards Homepage - Last full update: 23 Oct 2013 - Incrementals: 4 Nov 2013 , 7 Nov 2013 , 23 Jan 2014

    View Random Gene

    Category
    (GIFtS: 73)
    transforming growth factor, beta 1
    GIFtS Group
    The GeneCards human gene database gene index: 1 3 5 6 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z 


    Developed at the Crown Human Genome Center, Department of Molecular Genetics, the Weizmann Institute of Science

    Hot genes      Disease genes      JHDM1D gene at Home site.
    hostname: 356977-web1.xennexinc.com index build: 106 solr: 1.4