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    Kdm1b lysine (K)-specific demethylase 1B [ Mus musculus (house mouse) ]

    Gene ID: 218214, updated on 22-Aug-2021

    Summary

    Official Symbol
    Kdm1bprovided by MGI
    Official Full Name
    lysine (K)-specific demethylase 1Bprovided by MGI
    Primary source
    MGI:MGI:2145261
    See related
    Ensembl:ENSMUSG00000038080
    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
    Ao; Aof1; AI482520; 4632428N09Rik
    Expression
    Ubiquitous expression in bladder adult (RPKM 25.1), liver E14 (RPKM 13.2) and 27 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See Kdm1b in Genome Data Viewer
    Location:
    13; 13 A5
    Exon count:
    23
    Annotation release Status Assembly Chr Location
    109 current GRCm39 (GCF_000001635.27) 13 NC_000079.7 (47196849..47238755)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 13 NC_000079.6 (47043373..47085279)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 13 NC_000079.5 (47138908..47179982)

    Chromosome 13 - NC_000079.7Genomic Context describing neighboring genes Neighboring gene NHL repeat containing 1 Neighboring gene NLR family, pyrin domain containing 4B pseudogene Neighboring gene thiopurine methyltransferase Neighboring gene DEK proto-oncogene (DNA binding) Neighboring gene predicted gene, 40935 Neighboring gene ring finger protein 144B Neighboring gene RIKEN cDNA A930002C04 gene

    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)

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Clone Names

    • MGC38211

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables FAD binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables chromatin binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    enables flavin adenine dinucleotide binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    enables flavin adenine dinucleotide binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables histone H3-di/monomethyl-lysine-4 FAD-dependent demethylase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    NOT enables histone H3-tri/di/monomethyl-lysine-4 demethylase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables histone binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables oxidoreductase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    enables transcription factor binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    enables zinc ion binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables zinc ion binding ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    part_of nucleosome ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    lysine-specific histone demethylase 1B
    Names
    amine oxidase, flavin containing 1
    flavin-containing amine oxidase domain-containing protein 1
    lysine-specific histone demethylase 2
    NP_758466.1
    XP_006516976.1
    XP_006516977.1
    XP_006516978.1
    XP_006516979.1
    XP_006516980.1
    XP_006516982.1
    XP_006516983.1

    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_172262.3NP_758466.1  lysine-specific histone demethylase 1B

      See identical proteins and their annotated locations for NP_758466.1

      Status: VALIDATED

      Source sequence(s)
      AC096628, AC154171, AK028553, AK043782, AK078920, BY714054, CF531857, CF733387
      Consensus CDS
      CCDS26489.1
      UniProtKB/Swiss-Prot
      Q8CIG3
      Related
      ENSMUSP00000038373.9, ENSMUST00000037025.16
      Conserved Domains (3) summary
      pfam01593
      Location:405823
      Amino_oxidase; Flavin containing amine oxidoreductase
      pfam04433
      Location:287369
      SWIRM; SWIRM domain
      pfam07496
      Location:138191
      zf-CW; CW-type Zinc Finger

    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_000079.7 Reference GRCm39 C57BL/6J

      Range
      47196849..47238755
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006516915.3XP_006516978.1  lysine-specific histone demethylase 1B isoform X3

      Conserved Domains (2) summary
      PLN02328
      Location:308824
      PLN02328; lysine-specific histone demethylase 1 homolog
      pfam07496
      Location:138191
      zf-CW; CW-type Zinc Finger
    2. XM_006516920.3XP_006516983.1  lysine-specific histone demethylase 1B isoform X7

      Conserved Domains (2) summary
      PLN02328
      Location:308724
      PLN02328; lysine-specific histone demethylase 1 homolog
      pfam07496
      Location:138191
      zf-CW; CW-type Zinc Finger
    3. XM_006516913.5XP_006516976.1  lysine-specific histone demethylase 1B isoform X1

      Conserved Domains (2) summary
      PLN02328
      Location:315831
      PLN02328; lysine-specific histone demethylase 1 homolog
      pfam07496
      Location:138198
      zf-CW; CW-type Zinc Finger
    4. XM_006516914.4XP_006516977.1  lysine-specific histone demethylase 1B isoform X2

      Conserved Domains (2) summary
      PLN02328
      Location:315830
      PLN02328; lysine-specific histone demethylase 1 homolog
      pfam07496
      Location:138198
      zf-CW; CW-type Zinc Finger
    5. XM_006516916.5XP_006516979.1  lysine-specific histone demethylase 1B isoform X4

      Conserved Domains (2) summary
      PLN02328
      Location:315731
      PLN02328; lysine-specific histone demethylase 1 homolog
      pfam07496
      Location:138198
      zf-CW; CW-type Zinc Finger
    6. XM_006516917.4XP_006516980.1  lysine-specific histone demethylase 1B isoform X5

      Conserved Domains (2) summary
      PLN02328
      Location:315730
      PLN02328; lysine-specific histone demethylase 1 homolog
      pfam07496
      Location:138198
      zf-CW; CW-type Zinc Finger
    7. XM_006516919.5XP_006516982.1  lysine-specific histone demethylase 1B isoform X6

      Related
      ENSMUST00000128977.3
      Conserved Domains (1) summary
      PLN02328
      Location:5415
      PLN02328; lysine-specific histone demethylase 1 homolog

    RNA

    1. XR_003950446.1 RNA Sequence

    2. XR_001780773.3 RNA Sequence

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