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KDM2A Gene

protein-coding   GIFtS: 56
GCID: GC11P066888

Lysine (K)-Specific Demethylase 2A

(Previous name: F-box and leucine-rich repeat protein 11)
(Previous symbol: FBXL11)
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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 2A1 2     F-Box/LRR-Repeat Protein 112 3
FBXL111 2 3 5     EC 1.14.11.273 8
F-Box And Leucine-Rich Repeat Protein 111 2 3     FBL112 5
Jumonji C Domain-Containing Histone Demethylase 1A1 2     F-Box Protein FBL111
JmjC Domain-Containing Histone Demethylation Protein 1A2 3     LILINA2
CXXC82 3     Lysine-Specific Demethylase 2A2
FBL72 3     KIAA10043
JHDM1A2 3     F-Box Protein FBL73
[Histone-H3]-Lysine-36 Demethylase 1A2 3     F-Box Protein Lilina3
CXXC-Type Zinc Finger Protein 82 3     

External Ids:    HGNC: 136061   Entrez Gene: 229922   Ensembl: ENSG000001731207   OMIM: 6056575   UniProtKB: Q9Y2K73   

Export aliases for KDM2A gene to outside databases

Previous GC identifers: GC11P066646 GC11P063214


(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 KDM2A Gene:
This gene encodes a member of the F-box protein family which is characterized by an approximately 40 amino acid
motif, the F-box. The F-box proteins constitute one of the four subunits of ubiquitin protein ligase complex
called SCFs (SKP1-cullin-F-box), which function in phosphorylation-dependent ubiquitination. The F-box proteins
are divided into 3 classes: Fbws containing WD-40 domains, Fbls containing leucine-rich repeats, and Fbxs
containing either different protein-protein interaction modules or no recognizable motifs. The protein encoded by
this gene belongs to the Fbls class and, in addition to an F-box, contains at least six highly degenerated
leucine-rich repeats. This family member plays a role in epigenetic silencing. It nucleates at CpG islands and
specifically demethylates both mono- and di-methylated lysine-36 of histone H3. Alternative splicing results in
multiple transcript variants. (provided by RefSeq, Jan 2012)

GeneCards Summary for KDM2A Gene:
KDM2A (lysine (K)-specific demethylase 2A) is a protein-coding gene. GO annotations related to this gene include unmethylated CpG binding and histone demethylase activity (H3-K36 specific). An important paralog of this gene is PHF2.

UniProtKB/Swiss-Prot: KDM2A_HUMAN, Q9Y2K7
Function: Histone demethylase that specifically demethylates 'Lys-36' of histone H3, thereby playing a central
role in histone code. Preferentially demethylates dimethylated H3 'Lys-36' residue while it has weak or no
activity for mono- and tri-methylated H3 'Lys-36'. May also recognize and bind to some phosphorylated proteins
and promote their ubiquitination and degradation. Required to maintain the heterochromatic state. Associates with
centromeres and represses transcription of small non-coding RNAs that are encoded by the clusters of satellite
repeats at the centromere. Required to sustain centromeric integrity and genomic stability, particularly during
mitosis

Gene Wiki entry for KDM2A 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_000011.9  NT_167190.2  NC_018922.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the KDM2A gene promoter:
         AhR   AP-2gamma   C/EBPalpha   CREB   MZF-1   deltaCREB   FOXO4   AP-2beta   AP-2alpha   AP-2alphaA   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search Chromatin IP Primers for KDM2A

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat KDM2A


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

Entrez Gene cytogenetic band: 11q13.2   Ensembl cytogenetic band:  11q13.2   HGNC cytogenetic band: 11q13.1

KDM2A Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
KDM2A gene location

GeneLoc information about chromosome 11         GeneLoc Exon Structure

GeneLoc location for GC11P066888:  view genomic region     (about GC identifiers)

Start:
66,886,740 bp from pter      End:
67,025,558 bp from pter
Size:
138,819 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: KDM2A_HUMAN, Q9Y2K7 (See protein sequence)
Recommended Name: Lysine-specific demethylase 2A  
Size: 1162 amino acids; 132793 Da
Cofactor: Binds 1 Fe(2+) ion per subunit
Subunit: Part of a SCF (SKP1-cullin-F-box) protein ligase complex (By similarity). Interacts with CBX5/HP1A; the
interaction promotes CBX5 localization to chromatin
Sequence caution: Sequence=AAD56012.1; Type=Erroneous initiation; Sequence=BAA76848.2; Type=Erroneous initiation;
Sequence=BAB15795.1; Type=Frameshift; Positions=410; Sequence=BAJ05817.1; Type=Erroneous initiation;
Note=Translation N-terminally extended;
3 PDB 3D structures from and Proteopedia for KDM2A:
2YU1 (3D)        2YU2 (3D)        4BBQ (3D)    
Secondary accessions: D4QA03 E9PIL6 Q49A21 Q4G0M3 Q69YY8 Q9BVH5 Q9H7H5 Q9UK66
Alternative splicing: 5 isoforms:  Q9Y2K7-1   Q9Y2K7-2   Q9Y2K7-4   Q9Y2K7-5   Q9Y2K7-3   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for KDM2A: NX_Q9Y2K7

Explore proteomics data for KDM2A at MOPED

Post-translational modifications: 

  • Ubiquitination2 at Lys518
  • Modification sites at PhosphoSitePlus
  • Selected DME Specific Peptides for KDM2A (Q9Y2K7) (see all 10)
     IHAVYTP  GLGIKMP  GTSVWYH  DNRSKLRN 


    See KDM2A Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins (2 alternative transcripts): 
    NP_001243334.1  NP_036440.1  

    ENSEMBL proteins: 
     ENSP00000381640   ENSP00000432786   ENSP00000435776   ENSP00000309302  

    KDM2A Human Recombinant Protein Products:

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    Cloud-Clone Corp. Proteins for KDM2A

     
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    antibodies-online proteins for KDM2A (3 products) 

     
    antibodies-online peptides for KDM2A

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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    HGNC Gene Families:
    FBXL: F-boxes / Leucine-rich repeats
    KDM: Chromatin-modifying enzymes / K-demethylases

    Selected InterPro protein domains (see all 8):
     IPR001965 Znf_PHD
     IPR013083 Znf_RING/FYVE/PHD
     IPR002857 Znf_CXXC
     IPR001810 F-box_dom
     IPR003347 JmjC_dom

    Graphical View of Domain Structure for InterPro Entry Q9Y2K7

    ProtoNet protein and cluster: Q9Y2K7

    1 Blocks protein domain: IPB001965 Zn-finger-like

    UniProtKB/Swiss-Prot: KDM2A_HUMAN, Q9Y2K7
    Domain: The JmjC domain mediates demethylation activity and is required for satellite silencing
    Domain: The CXXC zinc finger preferentially recognizes nonmethylated CpG DNA, and binding is blocked when the CpG
    DNA is methylated
    Similarity: Belongs to the JHDM1 histone demethylase family
    Similarity: Contains 1 CXXC-type zinc finger
    Similarity: Contains 1 F-box domain
    Similarity: Contains 1 JmjC domain
    Similarity: Contains 6 LRR (leucine-rich) repeats
    Similarity: Contains 1 PHD-type zinc finger


    Find genes that share domains with KDM2A           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: KDM2A_HUMAN, Q9Y2K7
    Function: Histone demethylase that specifically demethylates 'Lys-36' of histone H3, thereby playing a central
    role in histone code. Preferentially demethylates dimethylated H3 'Lys-36' residue while it has weak or no
    activity for mono- and tri-methylated H3 'Lys-36'. May also recognize and bind to some phosphorylated proteins
    and promote their ubiquitination and degradation. Required to maintain the heterochromatic state. Associates with
    centromeres and represses transcription of small non-coding RNAs that are encoded by the clusters of satellite
    repeats at the centromere. Required to sustain centromeric integrity and genomic stability, particularly during
    mitosis
    Catalytic activity: Protein N(6),N(6)-dimethyl-L-lysine + 2-oxoglutarate + O(2) = protein N(6)-methyl-L-lysine +
    succinate + formaldehyde + CO(2)
    Catalytic activity: Protein N(6)-methyl-L-lysine + 2-oxoglutarate + O(2) = protein L-lysine + succinate +
    formaldehyde + CO(2)

         Enzyme Number (IUBMB): EC 1.14.11.271 2

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003677DNA binding ----
    GO:0005515protein binding ----
    GO:0008270zinc ion binding IEA--
    GO:0045322unmethylated CpG binding IEA--
    GO:0051864histone demethylase activity (H3-K36 specific) IEA--
         
    Find genes that share ontologies with KDM2A           About GenesLikeMe


    Phenotypes:
         1 GenomeRNAi human phenotype for KDM2A:
     Synthetic lethal with Ras 

    Animal Models:
       genOway: Develop your customized and physiologically relevant rodent model for KDM2A

    miRNA
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    miRTarBase miRNAs that target KDM2A:
    hsa-mir-92b-3p (MIRT040732), hsa-mir-296-3p (MIRT038392), hsa-mir-124-3p (MIRT022928), hsa-mir-769-5p (MIRT039165), hsa-mir-16-5p (MIRT031826), hsa-mir-1226-3p (MIRT036415)

    Block miRNA regulation of human, mouse, rat KDM2A using miScript Target Protectors
    Selected qRT-PCR Assays for microRNAs that regulate KDM2A (see all 99):
    hsa-miR-3130-5p hsa-miR-520e hsa-miR-106a hsa-miR-759 hsa-miR-519a hsa-miR-3916 hsa-miR-4267 hsa-miR-629*
    SwitchGear 3'UTR luciferase reporter plasmidKDM2A 3' UTR sequence
    Inhib. RNA
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    (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
    KDM2A_HUMAN, Q9Y2K7: Nucleus, nucleoplasm. Note=Punctate expression throughout the nucleoplasm and enriched in
    the perinucleolar region. Specifically nucleates at CpG islands where it's presence results in chromatin depleted
    in H3K36me2
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    nucleus5
    cytosol2

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000790nuclear chromatin IEA--
    GO:0005634nucleus IDA--
    GO:0005654nucleoplasm IEA--
    GO:0005730nucleolus IDA--

    Find genes that share ontologies with KDM2A           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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        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for KDM2A
    Interactions:

        Search GeneGlobe Interaction Network for KDM2A

    Selected Interacting proteins for KDM2A (Q9Y2K72, 3) via UniProtKB, MINT, STRING, and/or I2D (see all 18)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    SMAD3P840222, 3MINT-61697 I2D: score=3 
    SMAD7O151052, 3MINT-61809 I2D: score=3 
    ZNF512BQ96KM62, 3MINT-60816 I2D: score=2 
    HIST2H3AQ71DI33I2D: score=1 
    HIST2H3CQ71DI33I2D: score=1 
    About this table

    Gene Ontology (GO): 3 biological process terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006351transcription, DNA-templated IEA--
    GO:0006355regulation of transcription, DNA-templated IEA--
    GO:0070544histone H3-K36 demethylation IMP--

    Find genes that share ontologies with KDM2A           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
       Browse drugs & compounds from Enzo Life Sciences
      Browse compounds at ApexBio 

    Browse Tocris compounds for KDM2A

    2 HMDB Compounds for KDM2A    About this table
    CompoundSynonyms CAS #PubMed Ids
    FormaldehydeAldeide formica (see all 16)50-00-0--
    L-Lysine(+)-S-Lysine (see all 25)56-87-1--



    (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 KDM2A gene (2 alternative transcripts): 
    NM_001256405.1  NM_012308.2  

    Unigene Cluster for KDM2A:

    Lysine (K)-specific demethylase 2A
    Hs.124147  [show with all ESTs]
    Unigene Representative Sequence: NM_012308
    15 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000398645(uc001ojx.3 uc001ojw.3) ENST00000529006 ENST00000532436
    ENST00000527157 ENST00000528380 ENST00000526258(uc001ojy.3 uc010rpn.2)
    ENST00000531696 ENST00000525379 ENST00000525041 ENST00000530342 ENST00000517637
    ENST00000529124 ENST00000534486 ENST00000524657(uc001oka.3) ENST00000308783(uc001ojz.1)

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    hsa-miR-3130-5p hsa-miR-520e hsa-miR-106a hsa-miR-759 hsa-miR-519a hsa-miR-3916 hsa-miR-4267 hsa-miR-629*
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      QuantiTect SYBR Green Assays in human, mouse, rat KDM2A
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    Additional mRNA sequence: 

    AB023221.2 AB490246.1 AF179221.1 AK022684.1 AK024505.1 AK096194.1 AK128293.1 AK299725.1 
    AL117517.1 BC001203.1 BC027467.1 BC047371.1 BC047486.1 BC056905.1 BC064360.1 NR_027473.1 

    24 DOTS entries:

    DT.97801199  DT.316275  DT.316277  DT.86845905  DT.70104715  DT.97759949  DT.120729368  DT.95099498 
    DT.95113871  DT.95332315  DT.92039627  DT.91752678  DT.92361530  DT.120729422  DT.75110445  DT.91964363 
    DT.92060027  DT.100729580  DT.75175471  DT.91697320  DT.91803466  DT.91856680  DT.95258767  DT.98083654 

    Selected AceView cDNA sequences (see all 423):

    AA236205 BC064360 AW664429 AA255440 AI672734 AI093127 AW501052 BG391443 
    AI247634 BQ008080 BM717847 BC047486 AA400365 BM720840 CA427689 AI497901 
    AI185920 BQ691937 BF813651 BM799099 BU166844 BM991580 AW590126 Z40711 

    GeneLoc Exon Structure

    Selected Alternative Splicing Database (ASD) splice patterns (SP) for KDM2A (see all 12)    About this scheme

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

    ExUns: 17b ^ 18 ^ 19 ^ 20a · 20b ^ 21 ^ 22a · 22b ^ 23 ^ 24 ^ 25
    SP1:              -           -     -     -                           
    SP2:                                                                  
    SP3:                                                                  
    SP4:                                                                  
    SP5:              -                                                   


    ECgene alternative splicing isoforms for KDM2A

    (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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    KDM2A expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: TCCTACAATC
    KDM2A Expression
    About this image


    KDM2A expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     selected tissues (see all 9) fully expand
     
     Brain (Nervous System)    fully expand to see all 4 entries
             Cerebral Cortex
     
     Ovary (Reproductive System)    fully expand to see all 2 entries
             Ovarian Mesenchymal Stroma Cells Ovary Interstitium
             Oviduct
     
     Thymus (Hematopoietic System)
             T-Cytotoxic Cells Thymus
     
     Bone (Muscoskeletal System)
             Bone Marrow
     
     Trophoblast (Extraembryonic Tissues)
             Trophoblast Cells Trophoblast
    KDM2A Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    KDM2A Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.124147

    UniProtKB/Swiss-Prot: KDM2A_HUMAN, Q9Y2K7
    Tissue specificity: Widely expressed, with highest levels in brain, testis and ovary, followed by lung

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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 KDM2A gene from Selected species (see all 17)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Kdm2a1 , 5 lysine (K)-specific demethylase 2A1, 5 92.08(n)1
    96.9(a)1
      19 (4.01 cM)5
    2258761  NM_001001984.21  NP_001001984.21 
     43161445 
    chicken
    (Gallus gallus)
    Aves KDM2A1 lysine (K)-specific demethylase 2A 79.37(n)
    87.33(a)
      425999  XM_423678.4  XP_423678.3 
    lizard
    (Anolis carolinensis)
    Reptilia KDM2A6
    lysine (K)-specific demethylase 2A
    85(a)
    1 ↔ 1
    1(92641293-92702276)
    African clawed frog
    (Xenopus laevis)
    Amphibia BJ618511.12   -- 76.21(n)    BJ618511.1 
    zebrafish
    (Danio rerio)
    Actinopterygii 570668532   -- 78.26(n)    57066853 
    fruit fly
    (Drosophila melanogaster)
    Insecta Kdm21 Lysine (K)-specific demethylase 2 52.46(n)
    50.44(a)
      41090  NM_001275471.1  NP_001262400.1 
    worm
    (Caenorhabditis elegans)
    Secernentea jhdm-16
    Protein JHDM-1, isoform a
    23(a)
    1 → many
    III(6454483-6460010) WBGene00020821
    baker's yeast
    (Saccharomyces cerevisiae)
    Saccharomycetes JHD1(YER051W)4 JmjC domain family histone demethylase specific for more   --   5(254656-256134) 856777  NP_010971.1 


    ENSEMBL Gene Tree for KDM2A (if available)
    TreeFam Gene Tree for KDM2A (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for KDM2A gene
    PHF22  PHF82  KDM7A2  KDM2B2  FBXL192  
    4 SIMAP similar genes for KDM2A using alignment to 5 protein entries:     KDM2A_HUMAN (see all proteins):
    KDM2B    FBXL10    PHF8    FBXL19

    Find genes that share paralogs with KDM2A           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 KDM2A (see all 2455)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 11 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs598017731,2
    C--63221512(+) AAAAA-/A/AA  
            
    GGCCA
    2 -- int12NA 4
    rs744857781,2
    C,F--66884782(+) TTCAGT/CTGTCT 2 -- us2k11Minor allele frequency- C:0.06NA 120
    rs750810471,2
    C--66885054(+) TGATTC/GACTCC 2 -- us2k15Minor allele frequency- G:0.08CSA WA NA EA 361
    rs1913312861,2
    --66885129(+) GGCAGG/TGAGAA 2 -- us2k10--------
    rs1172660311,2
    C--66885182(+) AATAGT/GGCCAA 2 -- us2k11Minor allele frequency- G:0.01EA 120
    rs1175382551,2
    C,F--66885213(+) GCCACC/TGTCCT 2 -- us2k11Minor allele frequency- T:0.03NA 120
    rs1507228761,2
    --66885730(+) GTCGCA/GGAGAC 2 -- us2k10--------
    rs1390775111,2
    --66886067(+) CCCGCA/GGGCCC 2 -- us2k10--------
    rs122845461,2
    C,F,H--66886145(+) CCGGCC/TCTCAG 2 -- us2k17Minor allele frequency- T:0.17NS WA 1222
    rs1409603821,2
    --66887488(+) CTTCTC/TACTTG 2 -- ut51 nc-transcript-variant0--------

    HapMap Linkage Disequilibrium report for KDM2A (66886740 - 67025558 bp)

    Structural Variations
         Database of Genomic Variants (DGV) Selected variations for KDM2A (see all 14):    About this table    
    Variant IDTypeSubtypePubMed ID
    esv2669621CNV Deletion23128226
    esv2744644CNV Deletion23290073
    esv2661599CNV Deletion23128226
    esv1081118CNV Insertion17803354
    nsv436787CNV Insertion17901297
    nsv509419CNV Insertion20534489
    nsv513322CNV Insertion21212237
    nsv897800CNV Loss21882294
    esv23935CNV Loss19812545
    nsv897796CNV Loss21882294

    Site Specific Mutation Identification with PCR Assays
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    (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: 605657    OMIM disorders: --


    Find genes that share disorders with KDM2A           About GenesLikeMe


    Export disorders for KDM2A 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 KDM2A gene, integrated from 10 sources (see all 49):
    (articles sorted by number of sources associating them with KDM2A)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Prediction of the coding sequences of unidentified human genes. XIII. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro. (PubMed id 10231032)1, 2, 3 Nagase T.... Ohara O. (DNA Res. 1999)
    2. CpG islands recruit a histone H3 lysine 36 demethylase. (PubMed id 20417597)1, 2 Blackledge N.P....Klose R.J. (Mol. Cell 2010)
    3. KDM2A represses transcription of centromeric satellite repeats and maintains the heterochromatic state. (PubMed id 19001877)1, 2 Frescas D.... Pagano M. (Cell Cycle 2008)
    4. Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PubMed id 17081983)1, 2 Olsen J.V....Mann M. (Cell 2006)
    5. Histone demethylation by a family of JmjC domain-containing proteins. (PubMed id 16362057)1, 2 Tsukada Y.... Zhang Y. (Nature 2006)
    6. 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. (Genome Res. 2004)
    7. Construction of expression-ready cDNA clones for KIAA genes: manual curation of 330 KIAA cDNA clones. (PubMed id 12168954)1, 2 Nakajima D.... Nagase T. (DNA Res. 2002)
    8. cDNA cloning and expression analysis of new members of the mammalian F-box protein family. (PubMed id 10945468)1, 2 Ilyin G.P.... Guguen-Guillouzo C. (Genomics 2000)
    9. Characterization of long cDNA clones from human adult spleen. (PubMed id 11214971)1, 2 Hattori A.... Ohara O. (DNA Res. 2000)
    10. A family of mammalian F-box proteins. (PubMed id 10531037)1, 3 Winston J.T.... Harper J.W. (Curr. Biol. 1999)

    (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: 22992 HGNC: 13606 AceView: FBXL11 Ensembl:ENSG00000173120 euGenes: HUgn22992
    ECgene: KDM2A H-InvDB: KDM2A

    (According to HUGE)
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    HUGE: KIAA1004

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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    NameDescription
    PharmGKB entry for KDM2A 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 KDM2A gene:
    Search GeneIP for patents involving KDM2A

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



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