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KDM4A Gene

protein-coding   GIFtS: 60
GCID: GC01P044115

Lysine (K)-Specific Demethylase 4A

(Previous names: jumonji domain containing 2, jumonji domain containing 2A)
(Previous symbols: JMJD2, JMJD2A)
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(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
Lysine (K)-Specific Demethylase 4A1 2     JmjC Domain-Containing Histone Demethylation Protein 3A2 3
JMJD2A1 2 3 5     Jumonji Domain-Containing Protein 2A2 3
JMJD21 2 3     KIAA06773 5
JHDM3A2 3 5     TDRD14A2
Jumonji Domain Containing 21 2     Lysine-Specific Demethylase 4A2
Jumonji Domain Containing 2A1 2     EC 1.14.11.-3
Jumonji C Domain-Containing Histone Demethylase 3A1 2     EC 1.14.118
Tudor Domain Containing 14A1 2     

External Ids:    HGNC: 229781   Entrez Gene: 96822   Ensembl: ENSG000000661357   OMIM: 6097645   UniProtKB: O751643   

Export aliases for KDM4A gene to outside databases

Previous GC identifers: GC01P043889 GC01P042237


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Entrez Gene summary for KDM4A Gene:
This gene is a member of the Jumonji domain 2 (JMJD2) family and encodes a protein containing a JmjN domain, a
JmjC domain, a JD2H domain, two TUDOR domains, and two PHD-type zinc fingers. This nuclear protein functions as a
trimethylation-specific demethylase, converting specific trimethylated histone residues to the dimethylated form,
and as a transcriptional repressor. (provided by RefSeq, Apr 2009)

GeneCards Summary for KDM4A Gene:
KDM4A (lysine (K)-specific demethylase 4A) is a protein-coding gene. GO annotations related to this gene include histone demethylase activity (H3-K36 specific) and ubiquitin protein ligase binding. An important paralog of this gene is KDM4D.

UniProtKB/Swiss-Prot: KDM4A_HUMAN, O75164
Function: Histone demethylase that specifically demethylates 'Lys-9' and 'Lys-36' residues of histone H3, thereby
playing a central role in histone code. Does not demethylate histone H3 'Lys-4', H3 'Lys-27' nor H4 'Lys-20'.
Demethylates trimethylated H3 'Lys-9' and H3 'Lys-36' residue, while it has no activity on mono- and dimethylated
residues. Demethylation of Lys residue generates formaldehyde and succinate. Participates in transcriptional
repression of ASCL2 and E2F-responsive promoters via the recruitment of histone deacetylases and NCOR1,
respectively
Function: Isoform 2: Crucial for muscle differentiation, promotes transcriptional activation of the Myog gene by
directing the removal of repressive chromatin marks at its promoter. Lacks the N-terminal demethylase domain

Gene Wiki entry for KDM4A (JMJD2A) Gene


(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 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence at NCBI GenBank:
NC_000001.10  NT_032977.10  NC_018912.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the KDM4A gene promoter:
         STAT1   Spz1   MAZR   STAT1beta   AP-4   LCR-F1   STAT1alpha   C/EBPalpha   IRF-7A   Hlf   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidKDM4A promoter sequence
   Search Chromatin IP Primers for KDM4A

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat KDM4A


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

Entrez Gene cytogenetic band: 1p34.1   Ensembl cytogenetic band:  1p34.1   HGNC cytogenetic band: 1p34.1

KDM4A Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
KDM4A gene location

GeneLoc information about chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01P044115:  view genomic region     (about GC identifiers)

Start:
44,115,797 bp from pter      End:
44,171,189 bp from pter
Size:
55,393 bases      Orientation:
plus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, 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, Cloud-Clone Corp., eBioscience, and/or antibodies-online,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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UniProtKB/Swiss-Prot: KDM4A_HUMAN, O75164 (See protein sequence)
Recommended Name: Lysine-specific demethylase 4A  
Size: 1064 amino acids; 120662 Da
Cofactor: Binds 1 Fe(2+) ion per subunit
Subunit: Interacts with histone deacetylase proteins HDAC1, HDAC2 and HDAC3. Interacts with RB and NCOR1.
Interacts with HTLV-1 Tax protein
Sequence caution: Sequence=BAA31652.2; Type=Erroneous initiation; Note=Translation N-terminally shortened;
Selected PDB 3D structures from and Proteopedia for KDM4A (see all 27):
2GF7 (3D)        2GFA (3D)        2GP3 (3D)        2GP5 (3D)        2OQ6 (3D)        2OQ7 (3D)    
Secondary accessions: Q5VVB1
Alternative splicing: 2 isoforms:  O75164-1   O75164-2   

Explore the universe of human proteins at neXtProt for KDM4A: NX_O75164

Explore proteomics data for KDM4A at MOPED

Post-translational modifications: 

  • Ubiquitinated by RNF8 and RNF168 following DNA damage, leading to its degradation. Degradation promotes
    accessibility of H4K20me2 mark for DNA repair protein TP53BP1, which is then recruited1
  • Ubiquitination2 at Lys224
  • Modification sites at PhosphoSitePlus
  • Selected DME Specific Peptides for KDM4A (O75164) (see all 13)
     YSINYLH  VHASCYG  RWIEYGK  AESTNFA 


    See KDM4A Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_055478.2  
    ENSEMBL proteins: 
     ENSP00000361473  

    KDM4A Human Recombinant Protein Products:

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    Browse Sino Biological Cell Lysates
    Browse ProSpec Recombinant Proteins
    Cloud-Clone Corp. Proteins for KDM4A

     
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    antibodies-online proteins for KDM4A (2 products) 

     
    antibodies-online peptides for KDM4A

    KDM4A Antibody Products:

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    Search for Antibodies for KDM4A at Abcam
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    ThermoFisher Antibody for KDM4A
    antibodies-online antibodies for KDM4A (60 products) 

    KDM4A Assay Products:

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    Cloud-Clone Corp. ELISAs for KDM4A
    Cloud-Clone Corp. CLIAs for KDM4A
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    antibodies-online kits for KDM4A (6 products) 


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    HGNC Gene Families:
    TDRD: Tudor domain containing
    KDM: Chromatin-modifying enzymes / K-demethylases

    Selected InterPro protein domains (see all 6):
     IPR001965 Znf_PHD
     IPR013083 Znf_RING/FYVE/PHD
     IPR003347 JmjC_dom
     IPR003349 TF_JmjN
     IPR011011 Znf_FYVE_PHD

    Graphical View of Domain Structure for InterPro Entry O75164

    ProtoNet protein and cluster: O75164

    2 Blocks protein domains:
    IPB003347 Transcription factor jumonji
    IPB003349 Transcription factor jumonji


    UniProtKB/Swiss-Prot: KDM4A_HUMAN, O75164
    Domain: The 2 Tudor domains recognize and bind methylated histone H3 'Lys-4' residue (H3K4me). Double Tudor domain
    has an interdigitated structure and the unusual fold is required for its ability to bind methylated histone
    tails. Trimethylated H3 'Lys-4' (H3K4me3) is bound in a cage of 3 aromatic residues, 2 of which are from the
    Tudor domain 2, while the binding specificity is determined by side-chain interactions involving residues from
    the Tudor domain 1. The Tudor domains are also able to bind trimethylated histone H3 'Lys-9' (H3K9me3), di- and
    trimethylated H4 'Lys-20' (H4K20me2 and H4K20me3). Has high affinity for H4K20me2, blocking recruitment of
    proteins such as TP53BP1
    Similarity: Belongs to the JHDM3 histone demethylase family
    Similarity: Contains 1 JmjC domain
    Similarity: Contains 1 JmjN domain
    Similarity: Contains 2 PHD-type zinc fingers
    Similarity: Contains 2 Tudor domains


    Find genes that share domains with KDM4A           About GenesLikeMe


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, genOway,
    transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: KDM4A_HUMAN, O75164
    Function: Histone demethylase that specifically demethylates 'Lys-9' and 'Lys-36' residues of histone H3, thereby
    playing a central role in histone code. Does not demethylate histone H3 'Lys-4', H3 'Lys-27' nor H4 'Lys-20'.
    Demethylates trimethylated H3 'Lys-9' and H3 'Lys-36' residue, while it has no activity on mono- and dimethylated
    residues. Demethylation of Lys residue generates formaldehyde and succinate. Participates in transcriptional
    repression of ASCL2 and E2F-responsive promoters via the recruitment of histone deacetylases and NCOR1,
    respectively
    Function: Isoform 2: Crucial for muscle differentiation, promotes transcriptional activation of the Myog gene by
    directing the removal of repressive chromatin marks at its promoter. Lacks the N-terminal demethylase domain

         Enzyme Numbers (IUBMB): EC 1.14.11.-1 EC 1.14.112

         Gene Ontology (GO): 5 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005515protein binding IPI16415788
    GO:0008270zinc ion binding IEA--
    GO:0031625ubiquitin protein ligase binding IPI--
    GO:0035064methylated histone residue binding IDA--
    GO:0051864histone demethylase activity (H3-K36 specific) IDA16024779
         
    Find genes that share ontologies with KDM4A           About GenesLikeMe


    Phenotypes:
         1 GenomeRNAi human phenotype for KDM4A:
     Decreased Hepatitis C virus re 

         3 MGI mutant phenotypes (inferred from 1 allele(MGI details for Kdm4a):
     cardiovascular system  homeostasis/metabolism  muscle 

    Find genes that share phenotypes with KDM4A           About GenesLikeMe

    Animal Models:
       genOway: Develop your customized and physiologically relevant rodent model for KDM4A

    miRNA
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    miRTarBase miRNAs that target KDM4A:
    hsa-let-7b-5p (MIRT052257), hsa-mir-17-5p (MIRT050862), hsa-mir-505-3p (MIRT041060), hsa-mir-26b-5p (MIRT029498)

    Block miRNA regulation of human, mouse, rat KDM4A using miScript Target Protectors
    Selected qRT-PCR Assays for microRNAs that regulate KDM4A (see all 48):
    hsa-miR-607 hsa-miR-4328 hsa-miR-429 hsa-miR-1260b hsa-miR-624 hsa-miR-578 hsa-miR-346 hsa-miR-632
    SwitchGear 3'UTR luciferase reporter plasmidKDM4A 3' UTR sequence
    Inhib. RNA
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    Predesigned siRNA for gene silencing in human, mouse, rat KDM4A

    Gene Editing
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    GenScript: all cDNA clones in your preferred vector: KDM4A (NM_014663)
    Browse Sino Biological Human cDNA Clones
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    Addgene plasmids for KDM4A 

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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for KDM4A


    (According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Subcellular locations from UniProtKB/Swiss-Prot
    KDM4A_HUMAN, O75164: Nucleus
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    nucleus5
    cytoskeleton4
    cytosol3

    Gene Ontology (GO): 4 cellular component terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus IDA16024779
    GO:0005730nucleolus IDA--
    GO:0005737cytoplasm IDA--
    GO:0005813centrosome ----

    Find genes that share ontologies with KDM4A           About GenesLikeMe


    (SuperPaths according to PathCards, Pathways according to 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 QIAGEN, 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 Apr 2014 via Entrez Gene).
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    SuperPaths for KDM4A About    
    See pathways by source

    SuperPathContained pathways About
    1Chromatin Regulation / Acetylation
    Chromatin Regulation / Acetylation


    Find genes that share SuperPaths with KDM4A           About GenesLikeMe

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways


    1 Cell Signaling Technology (CST) Pathway for KDM4A
        Chromatin Regulation / Acetylation


        Pathway & Disease-focused RT2 Profiler PCR Array including KDM4A: 
              Epigenetic Chromatin Modification Enzymes in human mouse rat

    Interactions:

        GeneGlobe Interaction Network for KDM4A

    STRING Interaction Network Preview (showing 5 interactants - click image to see 25)

    Selected Interacting proteins for KDM4A (O751641, 2, 3 ENSP000003614734) via UniProtKB, MINT, STRING, and/or I2D (see all 65)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    HIST1H4HP628051, 2, 3, ENSP000002893524EBI-936709,EBI-302023 MINT-8387660 MINT-8387734 MINT-2830405 MINT-8387643 MINT-2829542 MINT-2829504 MINT-2829876 I2D: score=2 STRING: ENSP00000289352
    HIST1H4BP628051, 2, 3EBI-936709,EBI-302023 MINT-8387660 MINT-8387734 MINT-2830405 MINT-8387643 MINT-2829542 MINT-2829504 MINT-2829876 I2D: score=2 
    HIST1H4CP628051, 2, 3EBI-936709,EBI-302023 MINT-8387660 MINT-8387734 MINT-2830405 MINT-8387643 MINT-2829542 MINT-2829504 MINT-2829876 I2D: score=2 
    HIST1H4DP628051, 2, 3EBI-936709,EBI-302023 MINT-8387660 MINT-8387734 MINT-2830405 MINT-8387643 MINT-2829542 MINT-2829504 MINT-2829876 I2D: score=2 
    HIST1H4EP628051, 2, 3EBI-936709,EBI-302023 MINT-8387660 MINT-8387734 MINT-2830405 MINT-8387643 MINT-2829542 MINT-2829504 MINT-2829876 I2D: score=2 
    About this table

    Gene Ontology (GO): Selected biological process terms (see all 7):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006351transcription, DNA-templated IEA--
    GO:0014898cardiac muscle hypertrophy in response to stress IEA--
    GO:0016032viral process IEA--
    GO:0016577histone demethylation IDA16024779
    GO:0019048modulation by virus of host morphology or physiology ----

    Find genes that share ontologies with KDM4A           About GenesLikeMe



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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    Browse Small Molecules at EMD Millipore
       Enzo Life Sciences drugs & compounds for KDM4A
      Browse compounds at ApexBio 

    Browse Tocris compounds for KDM4A

    1 Novoseek inferred chemical compound relationship for KDM4A gene    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    lysine 35.7 1 16603238 (1)



    Find genes that share compounds with KDM4A           About GenesLikeMe



    (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,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
    Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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    REFSEQ mRNAs for KDM4A gene: 
    NM_014663.2  

    Unigene Cluster for KDM4A:

    Lysine (K)-specific demethylase 4A
    Hs.155983  [show with all ESTs]
    Unigene Representative Sequence: NM_014663
    5 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000372396(uc001cjx.3 uc010oki.2) ENST00000463151 ENST00000485249
    ENST00000472265 ENST00000481296
    miRNA
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    Selected qRT-PCR Assays for microRNAs that regulate KDM4A (see all 48):
    hsa-miR-607 hsa-miR-4328 hsa-miR-429 hsa-miR-1260b hsa-miR-624 hsa-miR-578 hsa-miR-346 hsa-miR-632
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      QuantiTect SYBR Green Assays in human, mouse, rat KDM4A
      QuantiFast Probe-based Assays in human, mouse, rat KDM4A

    Additional mRNA sequence: 

    AB014577.1 AK294596.1 AK300039.1 AK310295.1 BC002558.2 Z70219.1 

    10 DOTS entries:

    DT.415303  DT.91975395  DT.86854217  DT.97811185  DT.100000158  DT.92024385  DT.95329546  DT.95338656 
    DT.97815843  DT.97843731 

    Selected AceView cDNA sequences (see all 147):

    BQ229739 BE252880 AA505063 CD244838 AW183051 BQ053693 AI417107 BQ669502 
    CA488018 AI473334 AI185891 BM826345 AI554888 Z70219 BU507829 BP357225 
    BX471167 AI623088 AI384099 BM904299 AI263358 T60254 AB014577 CB216077 

    GeneLoc Exon Structure

    Selected Alternative Splicing Database (ASD) splice patterns (SP) for KDM4A (see all 8)    About this scheme

    ExUns: 1 ^ 2a · 2b · 2c · 2d ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13 ^ 14 ^ 15 ^ 16a · 16b ^ 17 ^ 18a · 18b ^ 19 ^ 20 ^ 21 ^
    SP1:        -     -     -     -           -                                                                       -                                             
    SP2:                                      -                                                                                                                     
    SP3:                                                                                                                                                            
    SP4:                          -           -                                                                                                                     
    SP5:                          -                                                                                                                                 

    ExUns: 22a · 22b ^ 23a · 23b · 23c ^ 24a · 24b
    SP1:  -           -           -               
    SP2:                                          
    SP3:                                          
    SP4:                                          
    SP5:                                          


    ECgene alternative splicing isoforms for KDM4A

    (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™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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    KDM4A expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: CAGGGGCTGG
    KDM4A Expression
    About this image

    KDM4A Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    KDM4A Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.155983

    UniProtKB/Swiss-Prot: KDM4A_HUMAN, O75164
    Tissue specificity: Ubiquitous

        Pathway & Disease-focused RT2 Profiler PCR Array including KDM4A: 
              Epigenetic Chromatin Modification Enzymes in human mouse rat

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

    Orthologs for KDM4A gene from Selected species (see all 15)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Kdm4a1 , 5 lysine (K)-specific demethylase 4A1, 5 86.89(n)1
    93.23(a)1
      4 (54.31 cM)5
    2306741  NM_001161823.11  NP_001155295.11 
     1181369575 
    chicken
    (Gallus gallus)
    Aves KDM4A1 lysine (K)-specific demethylase 4A 74.13(n)
    79.31(a)
      424571  XM_422410.4  XP_422410.3 
    lizard
    (Anolis carolinensis)
    Reptilia KDM4A6
    lysine (K)-specific demethylase 4A
    79(a)
    1 ↔ 1
    4(108380057-108418786)
    African clawed frog
    (Xenopus laevis)
    Amphibia BJ071720.12   -- 77.82(n)    BJ071720.1 
    zebrafish
    (Danio rerio)
    Actinopterygii BC047193.12   -- 77.06(n)    BC047193.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta Kdm4A6
    Kdm4B6
    Histone demethylase 4B
    48(a)
    39(a)
    many ↔ many
    many ↔ many
    2R(3810280-3812488)
    2R(9063599-9085869)
    worm
    (Caenorhabditis elegans)
    Secernentea jmjd-21 jmjd-2 50.25(n)
    42.42(a)
      175080  NM_064568.3  NP_496969.2 
    baker's yeast
    (Saccharomyces cerevisiae)
    Saccharomycetes RPH16
    GIS16
    JmjC domain-containing histone demethylase; specif...
    JmjC domain-containing histone demethylase and tra...
    24(a)
    17(a)
    many ↔ many
    many ↔ many
    V(523369-525759) YER169W
    IV(637139-639823) YDR096W


    ENSEMBL Gene Tree for KDM4A (if available)
    TreeFam Gene Tree for KDM4A (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for KDM4A gene
    KDM4D2  KDM4C2  KDM4E2  KDM4B2  
    5 SIMAP similar genes for KDM4A using alignment to 2 protein entries:     KDM4A_HUMAN (see all proteins):
    KDM4D    KDM4E    KDM4C    KDM4B    JMJD2B

    Find genes that share paralogs with KDM4A           About GenesLikeMe



    (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), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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    Selected SNPs for KDM4A (see all 1051)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 1 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs676388131,2
    C--42240949(+) TGTGA-/GTGTGT
    GTGTGTGT
    GTGTG
    1 -- int10--------
    rs353317721,2
    C--42256820(+) TTTTT-/T/TT  
            
    GAGAC
    1 -- int11NA 2
    rs1436953221,2
    --44113817(+) ATCGTA/GCCTGG 1 -- us2k10--------
    rs1837283601,2
    --44113832(+) CAAGAA/GCGAAA 1 -- us2k10--------
    rs1467963331,2
    --44113898(+) AAGGGA/TAAGGT 1 -- us2k10--------
    rs1894131421,2
    --44113977(+) TCCACC/TTATCA 1 -- us2k10--------
    rs1123951861,2
    F--44114042(+) ATCTGA/GCAGCA 1 -- us2k11Minor allele frequency- G:0.00CSA 1
    rs1140398411,2
    F--44114075(+) GTTTAT/CGGAAC 1 -- us2k11Minor allele frequency- C:0.08WA 118
    rs1164099701,2
    C,F--44114106(+) CTGTAT/GCCATG 1 -- us2k11Minor allele frequency- G:0.02WA 118
    rs6175211,2
    C,F,A,H--44114199(+) ccgcaT/Ggattt 1 -- us2k140Minor allele frequency- G:0.21NS MN EA NA WA CSA 3526

    HapMap Linkage Disequilibrium report for KDM4A (44115797 - 44171189 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 1 variation for KDM4A:    About this table    
    Variant IDTypeSubtypePubMed ID
    nsv871794CNV Loss21882294

    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing KDM4A
    DNA2.0 Custom Variant and Variant Library Synthesis for KDM4A

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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    OMIM gene information: 609764    OMIM disorders: --


    Find genes that share disorders with KDM4A           About GenesLikeMe

    Genetic Association Database (GAD): KDM4A

    Export disorders for KDM4A 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)
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    PubMed articles for KDM4A gene, integrated from 10 sources (see all 55):
    (articles sorted by number of sources associating them with KDM4A)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Prediction of the coding sequences of unidentified human genes. X. The complete sequences of 100 new cDNA clones from brain which can code for large proteins in vitro. (PubMed id 9734811)1, 2, 3 Ishikawa K.... Ohara O. (DNA Res. 1998)
    2. JMJD2A is a novel N-CoR-interacting protein and is involved in repression of the human transcription factor achaete scute-like homologue 2 (ASCL2/Hash2). (PubMed id 16024779)1, 2, 9 Zhang D.... Wong J. (Mol. Cell. Biol. 2005)
    3. Functional characterization of JMJD2A, a histone deacetylase- and retinoblastoma-binding protein. (PubMed id 15927959)1, 2, 9 Gray S.G.... Dangond F. (J. Biol. Chem. 2005)
    4. Identification and characterization of JMJD2 family genes in silico. (PubMed id 15138608)1, 3, 9 Katoh M. and Katoh M. (Int. J. Oncol. 2004)
    5. Structural insights into histone demethylation by JMJD2 family members. (PubMed id 16677698)1, 2, 9 Chen Z.... Zhang G. (Cell 2006)
    6. Recognition of histone H3 lysine-4 methylation by the double Tudor domain of JMJD2A. (PubMed id 16601153)1, 2, 9 Huang Y.... Xu R.-M. (Science 2006)
    7. Reversal of histone lysine trimethylation by the JMJD2 family of histone demethylases. (PubMed id 16603238)1, 2, 9 Whetstine J.R.... Shi Y. (Cell 2006)
    8. Genetic association of short sleep duration with hypertension incidence--a 6-year follow-up in the Korean genome and epidemiology study. (PubMed id 22322875)1, 4 Kim S.J....Shin C. (Circ. J. 2012)
    9. RNF8- and RNF168-dependent degradation of KDM4A/JMJD2A triggers 53BP1 recruitment to DNA damage sites. (PubMed id 22373579)1, 2 Mallette F.A.... Richard S. (EMBO J. 2012)
    10. The DNA sequence and biological annotation of human chromosome 1. (PubMed id 16710414)1, 2 Gregory S.G.... Bentley D.R. (Nature 2006)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     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)
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    Entrez Gene: 9682 HGNC: 22978 AceView: JMJD2A Ensembl:ENSG00000066135 euGenes: HUgn9682
    ECgene: KDM4A H-InvDB: KDM4A

    (According to HUGE)
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    HUGE: KIAA0677

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
    About This Section

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    NameDescription
    PharmGKB entry for KDM4A Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
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    Patent Information for KDM4A gene:
    Search GeneIP for patents involving KDM4A

    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, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, eBioscience, antibodies-online, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
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