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    Kdm5a lysine (K)-specific demethylase 5A [ Mus musculus (house mouse) ]

    Gene ID: 214899, updated on 8-Aug-2016
    Official Symbol
    Kdm5aprovided by MGI
    Official Full Name
    lysine (K)-specific demethylase 5Aprovided by MGI
    Primary source
    MGI:MGI:2136980
    See related
    Ensembl:ENSMUSG00000030180 Vega:OTTMUSG00000023926
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Sciurognathi; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    RBP2; Rbbp2; C76986; Jarid1a; AA409370
    Orthologs
    Location:
    6 F1; 6 56.95 cM
    Exon count:
    29
    Annotation release Status Assembly Chr Location
    106 current GRCm38.p4 (GCF_000001635.24) 6 NC_000072.6 (120364099..120444574)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 6 NC_000072.5 (120314117..120394592)

    Chromosome 6 - NC_000072.6Genomic Context describing neighboring genes Neighboring gene ninjurin 2 Neighboring gene beta-1,4-N-acetyl-galactosaminyl transferase 3 Neighboring gene coiled-coil domain containing 77 Neighboring gene interleukin 17 receptor A Neighboring gene cat eye syndrome chromosome region, candidate 6

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    Products Interactant Other Gene Complex Source Pubs Description

    Markers

    Homology

    Clone Names

    • MGC11659

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    2,4-dichlorophenoxyacetate alpha-ketoglutarate dioxygenase activity IEA
    Inferred from Electronic Annotation
    more info
     
    C-19 gibberellin 2-beta-dioxygenase activity IEA
    Inferred from Electronic Annotation
    more info
     
    C-20 gibberellin 2-beta-dioxygenase activity IEA
    Inferred from Electronic Annotation
    more info
     
    DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    DNA-N1-methyladenine dioxygenase activity IEA
    Inferred from Electronic Annotation
    more info
     
    chromatin DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    chromatin binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    dioxygenase activity IEA
    Inferred from Electronic Annotation
    more info
     
    hypophosphite dioxygenase activity IEA
    Inferred from Electronic Annotation
    more info
     
    metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    oxidoreductase activity IEA
    Inferred from Electronic Annotation
    more info
     
    oxidoreductase 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 IEA
    Inferred from Electronic Annotation
    more info
     
    procollagen-proline dioxygenase activity IEA
    Inferred from Electronic Annotation
    more info
     
    protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    sulfonate dioxygenase activity IEA
    Inferred from Electronic Annotation
    more info
     
    transcription coactivator activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    circadian regulation of gene expression IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    covalent chromatin modification IEA
    Inferred from Electronic Annotation
    more info
     
    histone H3-K4 demethylation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    multicellular organism development IEA
    Inferred from Electronic Annotation
    more info
     
    negative regulation of histone deacetylase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    negative regulation of transcription from RNA polymerase II promoter IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    oxidation-reduction process IEA
    Inferred from Electronic Annotation
    more info
     
    positive regulation of transcription, DNA-templated ISO
    Inferred from Sequence Orthology
    more info
     
    regulation of transcription, DNA-templated IEA
    Inferred from Electronic Annotation
    more info
     
    rhythmic process IEA
    Inferred from Electronic Annotation
    more info
     
    transcription, DNA-templated IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    colocalizes_with cyclin-dependent protein kinase activating kinase holoenzyme complex ISO
    Inferred from Sequence Orthology
    more info
     
    cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    protein-DNA complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Preferred Names
    lysine-specific demethylase 5A
    Names
    RBBP-2
    histone demethylase JARID1A
    jumonji, AT rich interactive domain 1A (Rbp2 like)
    jumonji/ARID domain-containing protein 1A
    retinoblastoma binding protein 2
    retinoblastoma-binding protein 2

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_145997.2NP_666109.2  lysine-specific demethylase 5A

      See identical proteins and their annotated locations for NP_666109.2

      Status: VALIDATED

      Source sequence(s)
      AC078896, AC155720
      Consensus CDS
      CCDS51889.1
      UniProtKB/Swiss-Prot
      Q3UXZ9
      Related
      ENSMUSP00000005108, OTTMUSP00000028321, ENSMUST00000005108, OTTMUST00000058459
      Conserved Domains (8) summary
      smart00545
      Location:1859
      JmjN; Small domain found in the jumonji family of transcription factors
      pfam02373
      Location:470586
      JmjC; JmjC domain, hydroxylase
      pfam01388
      Location:81170
      ARID; ARID/BRIGHT DNA binding domain
      pfam02928
      Location:676729
      zf-C5HC2; C5HC2 zinc finger
      pfam08429
      Location:7401072
      PLU-1; PLU-1-like protein
      cd15602
      Location:295343
      PHD1_KDM5A; PHD finger 1 found in Lysine-specific demethylase 5A (KDM5A)
      cd15606
      Location:11631215
      PHD2_KDM5A; PHD finger 2 found in Lysine-specific demethylase 5A (KDM5A)
      cd15686
      Location:16081659
      PHD3_KDM5A; PHD finger 3 found in Lysine-specific demethylase 5A (KDM5A)

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 106 details...

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCm38.p4 C57BL/6J

    Genomic

    1. NC_000072.6 Reference GRCm38.p4 C57BL/6J

      Range
      120364099..120444574
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011241281.2XP_011239583.1  

      Conserved Domains (5) summary
      smart00545
      Location:1859
      JmjN; Small domain found in the jumonji family of transcription factors
      pfam02373
      Location:470586
      JmjC; JmjC domain, hydroxylase
      pfam01388
      Location:81170
      ARID; ARID/BRIGHT DNA binding domain
      pfam02928
      Location:676729
      zf-C5HC2; C5HC2 zinc finger
      cl22851
      Location:295343
      PHD_SF; PHD finger superfamily

    RNA

    1. XR_001785118.1 RNA Sequence

      Related
      ENSMUST00000135802, OTTMUST00000058625
    2. XR_377436.2 RNA Sequence

    Reference GRCm38.p4 129S1/SvImJ

    Genomic

    1. NT_039382.4 Reference GRCm38.p4 129S1/SvImJ

      Range
      4309..67385
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)