Format

Send to:

Choose Destination
    • Showing Current items.

    kdm4b lysine (K)-specific demethylase 4B [ Danio rerio (zebrafish) ]

    Gene ID: 556504, updated on 12-Aug-2018

    Summary

    Official Symbol
    kdm4bprovided by ZNC
    Official Full Name
    lysine (K)-specific demethylase 4Bprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-060503-664
    See related
    Ensembl:ENSDARG00000099675 Vega:OTTDARG00000014585
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Cyprinidae; Danio
    Also known as
    jmjd2b; si:ch211-124a3.4

    Genomic context

    See kdm4b in Genome Data Viewer
    Location:
    chromosome: 22
    Exon count:
    22
    Annotation release Status Assembly Chr Location
    106 current GRCz11 (GCF_000002035.6) 22 NC_007133.7 (4315256..4407885, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 22 NC_007133.6 (3862408..3955023, complement)

    Chromosome 22 - NC_007133.7Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC101883897 Neighboring gene uncharacterized LOC110438264 Neighboring gene uncharacterized LOC101883755 Neighboring gene ubiquitin-like with PHD and ring finger domains 1 Neighboring gene toll-like receptor adaptor molecule 1

    Genomic regions, transcripts, and products

    Pathways from BioSystems

    General gene information

    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    DNA-binding transcription repressor activity, RNA polymerase II-specific IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    chromatin binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    histone demethylase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    histone demethylase activity (H3-K9 specific) IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    methylated histone binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    proximal promoter DNA-binding transcription repressor activity, RNA polymerase II-specific IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    Component Evidence Code Pubs
    histone methyltransferase complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    nucleus IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    Preferred Names
    lysine-specific demethylase 4B
    Names
    jumonji domain containing 2B

    NCBI Reference Sequences (RefSeq)

    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_001082805.1NP_001076274.1  lysine-specific demethylase 4B

      See identical proteins and their annotated locations for NP_001076274.1

      Status: PROVISIONAL

      Source sequence(s)
      BX927276, CU074310
      UniProtKB/TrEMBL
      Q1LUQ0
      Related
      ENSDARP00000133766.1, OTTDARP00000014748, ENSDART00000162523.2, OTTDART00000017420
      Conserved Domains (7) summary
      smart00545
      Location:95136
      JmjN; Small domain found in the jumonji family of transcription factors
      PRK00404
      Location:9781099
      tatB; sec-independent translocase; Provisional
      smart00333
      Location:905953
      TUDOR; Tudor domain
      pfam02373
      Location:256372
      JmjC; JmjC domain, hydroxylase
      cd15576
      Location:676774
      PHD_JMJD2B; PHD finger found in Jumonji domain-containing protein 2B (JMJD2B)
      pfam07321
      Location:408512
      YscO; Type III secretion protein YscO
      cl22851
      Location:783892
      PHD_SF; PHD finger superfamily

    RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007133.7 Reference GRCz11 Primary Assembly

      Range
      4315256..4407885 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_021469327.1XP_021325002.1  lysine-specific demethylase 4B isoform X1

      Conserved Domains (7) summary
      smart00545
      Location:95136
      JmjN; Small domain found in the jumonji family of transcription factors
      smart00333
      Location:903951
      TUDOR; Tudor domain
      pfam02373
      Location:256372
      JmjC; JmjC domain, hydroxylase
      cd15576
      Location:674772
      PHD_JMJD2B; PHD finger found in Jumonji domain-containing protein 2B (JMJD2B)
      pfam07321
      Location:408512
      YscO; Type III secretion protein YscO
      cl22851
      Location:781890
      PHD_SF; PHD finger superfamily
      cl26677
      Location:9761097
      PRK00708; sec-independent translocase; Provisional
    Support Center