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    Kdm3b KDM3B lysine (K)-specific demethylase 3B [ Mus musculus (house mouse) ]

    Gene ID: 277250, updated on 5-Sep-2021

    Summary

    Official Symbol
    Kdm3bprovided by MGI
    Official Full Name
    KDM3B lysine (K)-specific demethylase 3Bprovided by MGI
    Primary source
    MGI:MGI:1923356
    See related
    Ensembl:ENSMUSG00000038773
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    JHDM2B; Jmjd1b; mKIAA1082; 5830462I21Rik
    Expression
    Ubiquitous expression in CNS E11.5 (RPKM 12.5), thymus adult (RPKM 11.7) and 28 other tissues See more
    Orthologs
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    Genomic context

    See Kdm3b in Genome Data Viewer
    Location:
    18; 18 B1
    Exon count:
    24
    Annotation release Status Assembly Chr Location
    109 current GRCm39 (GCF_000001635.27) 18 NC_000084.7 (34910061..34972423)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 18 NC_000084.6 (34777008..34839370)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 18 NC_000084.5 (34936662..34999024)

    Chromosome 18 - NC_000084.7Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA 2010110K18 gene Neighboring gene microRNA 12191 Neighboring gene family with sequence similarity 53, member C Neighboring gene predicted gene 3561 Neighboring gene receptor accessory protein 2 Neighboring gene early growth response 1

    Genomic regions, transcripts, and products

    Expression

    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Targeted (1)  1 citation
    • Endonuclease-mediated (1) 

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables chromatin DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    enables dioxygenase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables histone H3-di/monomethyl-lysine-9 demethylase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables histone H3-methyl-lysine-9 demethylase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    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
    PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within chromatin organization IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in histone H3-K9 demethylation IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    Component Evidence Code Pubs
    is_active_in chromatin IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    part_of histone deacetylase complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    Preferred Names
    lysine-specific demethylase 3B
    Names
    [histone H3]-dimethyl-L-lysine(9) demethylase 3B
    jmjC domain-containing histone demethylation protein 2B
    jumonji domain containing 1B
    jumonji domain-containing protein 1B
    NP_001074725.1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001081256.1NP_001074725.1  lysine-specific demethylase 3B

      See identical proteins and their annotated locations for NP_001074725.1

      Status: VALIDATED

      Source sequence(s)
      AC114820
      Consensus CDS
      CCDS37761.1
      UniProtKB/TrEMBL
      B9EKS2
      Related
      ENSMUSP00000037628.8, ENSMUST00000043775.9
      Conserved Domains (2) summary
      smart00558
      Location:15031575
      JmjC; A domain family that is part of the cupin metalloenzyme superfamily
      cl21464
      Location:16001705
      cupin_like; Conserved domain found in cupin and related proteins

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000084.7 Reference GRCm39 C57BL/6J

      Range
      34910061..34972423
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_029518.1: Suppressed sequence

      Description
      NM_029518.1: This RefSeq was suppressed temporarily based on the calculation that the annotated protein was shorter than a protein or proteins from a putative ortholog.
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