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    kdm7ab lysine (K)-specific demethylase 7Ab [ Danio rerio (zebrafish) ]

    Gene ID: 503902, updated on 9-Dec-2024

    Summary

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    Official Symbol
    kdm7abprovided by ZNC
    Official Full Name
    lysine (K)-specific demethylase 7Abprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-050309-32
    See related
    Ensembl:ENSDARG00000018559 AllianceGenome:ZFIN:ZDB-GENE-050309-32
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    jhdm1D; DrKDM7b; jhdm1db; im:7141664
    Summary
    Enables histone H3K27me2/H3K27me3 demethylase activity and histone H3K9 demethylase activity. Involved in midbrain development. Predicted to be located in nucleus. Is expressed in brain; fin; gill; and tail bud. Human ortholog(s) of this gene implicated in melanoma. Orthologous to human KDM7A (lysine demethylase 7A). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    all
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    Genomic context

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    See kdm7ab in Genome Data Viewer
    Location:
    chromosome: 25
    Exon count:
    21
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 25 NC_007136.7 (17244573..17310306)
    105 previous assembly GRCz10 (GCF_000002035.5) 25 NC_007136.6 (17148147..17213906)

    Chromosome 25 - NC_007136.7Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC137489343 Neighboring gene cyclin D2, a Neighboring gene CCR4-NOT transcription complex, subunit 1 Neighboring gene SET domain containing 6, protein lysine methyltransferase

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. KDM7 is a dual demethylase for histone H3 Lys 9 and Lys 27 and functions in brain development. Tsukada Y, et al. Genes Dev, 2010 Mar 1. PMID 20194436, Free PMC Article
    2. Keratin5-cytoskeleton-BMP4 network regulates cell phenotype conversions during cardiac regeneration. Wang X, et al. Exp Cell Res, 2022 Sep 1. PMID 35798073
    3. The histone demethylase Jmjd3 regulates zebrafish myeloid development by promoting spi1 expression. Yu SH, et al. Biochim Biophys Acta Gene Regul Mech, 2018 Feb. PMID 29378332, Free PMC Article
    4. The Kdm/Kmt gene families in the self-fertilizing mangrove rivulus fish, Kryptolebias marmoratus, suggest involvement of histone methylation machinery in development and reproduction. Fellous A, et al. Gene, 2019 Mar 1. PMID 30458291
    5. A network of epigenetic regulators guides developmental haematopoiesis in vivo. Huang HT, et al. Nat Cell Biol, 2013 Dec. PMID 24240475, Free PMC Article

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables 2-oxoglutarate-dependent dioxygenase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables 2-oxoglutarate-dependent dioxygenase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables dioxygenase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone H3K27me2/H3K27me3 demethylase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables histone H3K27me2/H3K27me3 demethylase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables histone H3K36 demethylase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables histone H3K9 demethylase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables histone H3K9 demethylase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables histone H4K20 demethylase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables histone demethylase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables oxidoreductase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables transcription coregulator activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within chromatin organization IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in chromatin remodeling IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within midbrain development IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    involved_in midbrain development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within nervous system development IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    lysine-specific demethylase 7B
    Names
    JmjC domain-containing histone demethylation protein 1D-B
    jumonji C domain containing histone demethylase 1 homolog Db
    kdm7b
    NP_001189348.1
    XP_005174379.1
    XP_068073468.1

    NCBI Reference Sequences (RefSeq)

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    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_001202419.1 → NP_001189348.1  lysine-specific demethylase 7B

      Status: VALIDATED

      Source sequence(s)
      CU468035
      UniProtKB/TrEMBL
      A0A8M1P2J3
      Related
      ENSDARP00000138449.1, ENSDART00000171322.2
      Conserved Domains (3) summary
      smart00558
      Location:202 → 265
      JmjC; A domain family that is part of the cupin metalloenzyme superfamily
      cl21464
      Location:237 → 337
      cupin_like; Conserved domain found in cupin and related proteins
      cl22851
      Location:7 → 55
      PHD_SF; PHD finger superfamily

    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007136.7 Reference GRCz11 Primary Assembly

      Range
      17244573..17310306
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005174322.4 → XP_005174379.1  lysine-specific demethylase 7B isoform X1

      UniProtKB/TrEMBL
      A0A8M2BLJ8, F1QHF6
      Related
      ENSDARP00000050378.6, ENSDART00000050379.9
      Conserved Domains (3) summary
      smart00558
      Location:202 → 265
      JmjC; A domain family that is part of the cupin metalloenzyme superfamily
      cl21464
      Location:237 → 337
      cupin_like; Conserved domain found in cupin and related proteins
      cl22851
      Location:7 → 55
      PHD_SF; PHD finger superfamily

    2. XM_068217367.1 → XP_068073468.1  lysine-specific demethylase 7B isoform X2

    Reference GRCz11 ALT_DRER_TU_1

    Genomic

    1. NW_018395195.1 Reference GRCz11 ALT_DRER_TU_1

      Range
      72575..135918
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P0CF52.1 GenPept UniProtKB/Swiss-Prot:P0CF52

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.