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    Kdm2b lysine demethylase 2B [ Rattus norvegicus (Norway rat) ]

    Gene ID: 304495, updated on 22-Apr-2017
    Official Symbol
    Kdm2bprovided by RGD
    Official Full Name
    lysine demethylase 2Bprovided by RGD
    Primary source
    RGD:1310217
    See related
    Ensembl:ENSRNOG00000025702
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Fbxl10
    Annotation information
    Annotation category: partial on reference assembly
    Orthologs
    Location:
    12q16
    Exon count:
    23
    Annotation release Status Assembly Chr Location
    106 current Rnor_6.0 (GCF_000001895.5) 12 NC_005111.4 (39021924..39161954)
    104 previous assembly Rnor_5.0 (GCF_000001895.4) 12 NC_005111.3 (40918049..41054953)

    Chromosome 12 - NC_005111.4Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102546488 Neighboring gene locus regulating alcohol preference Neighboring gene ring finger protein 34 Neighboring gene anaphase-promoting complex subunit 5

    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    RNA polymerase II core promoter sequence-specific DNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    RNA polymerase II core promoter sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    molecular_function ND
    No biological Data available
    more info
     
    zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    biological_process ND
    No biological Data available
    more info
     
    embryonic camera-type eye morphogenesis IEA
    Inferred from Electronic Annotation
    more info
     
    embryonic camera-type eye morphogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    forebrain development ISO
    Inferred from Sequence Orthology
    more info
     
    fourth ventricle development IEA
    Inferred from Electronic Annotation
    more info
     
    fourth ventricle development ISO
    Inferred from Sequence Orthology
    more info
     
    hindbrain development ISO
    Inferred from Sequence Orthology
    more info
     
    histone H2A monoubiquitination IEA
    Inferred from Electronic Annotation
    more info
     
    histone H2A monoubiquitination ISO
    Inferred from Sequence Orthology
    more info
     
    histone H3-K36 demethylation IEA
    Inferred from Electronic Annotation
    more info
     
    histone H3-K36 demethylation ISO
    Inferred from Sequence Orthology
    more info
     
    initiation of neural tube closure IEA
    Inferred from Electronic Annotation
    more info
     
    initiation of neural tube closure ISO
    Inferred from Sequence Orthology
    more info
     
    lateral ventricle development IEA
    Inferred from Electronic Annotation
    more info
     
    lateral ventricle development ISO
    Inferred from Sequence Orthology
    more info
     
    midbrain development IEA
    Inferred from Electronic Annotation
    more info
     
    midbrain development ISO
    Inferred from Sequence Orthology
    more info
     
    midbrain-hindbrain boundary morphogenesis IEA
    Inferred from Electronic Annotation
    more info
     
    midbrain-hindbrain boundary morphogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of neural precursor cell proliferation IEA
    Inferred from Electronic Annotation
    more info
     
    negative regulation of neural precursor cell proliferation ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of neuron apoptotic process IEA
    Inferred from Electronic Annotation
    more info
     
    negative regulation of neuron apoptotic process ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of transcription from RNA polymerase II promoter IEA
    Inferred from Electronic Annotation
    more info
     
    negative regulation of transcription from RNA polymerase II promoter ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of cell growth IEA
    Inferred from Electronic Annotation
    more info
     
    positive regulation of cell growth ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of stem cell population maintenance IEA
    Inferred from Electronic Annotation
    more info
     
    positive regulation of stem cell population maintenance ISO
    Inferred from Sequence Orthology
    more info
     
    spermatogenesis IEA
    Inferred from Electronic Annotation
    more info
     
    spermatogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    third ventricle development IEA
    Inferred from Electronic Annotation
    more info
     
    third ventricle development ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    PcG protein complex IEA
    Inferred from Electronic Annotation
    more info
     
    colocalizes_with PcG protein complex ISO
    Inferred from Sequence Orthology
    more info
     
    cellular_component ND
    No biological Data available
    more info
     
    Preferred Names
    lysine-specific demethylase 2B
    Names
    F-box and leucine-rich repeat protein 10
    lysine (K)-specific demethylase 2B
    NP_001094149.1

    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_001100679.1NP_001094149.1  lysine-specific demethylase 2B

      See identical proteins and their annotated locations for NP_001094149.1

      Status: VALIDATED

      Source sequence(s)
      CH473973
      Related
      ENSRNOP00000050408.5, ENSRNOT00000044071.5
      Conserved Domains (7) summary
      cd09293
      Location:10871276
      AMN1; Antagonist of mitotic exit network protein 1
      smart00558
      Location:151226
      JmjC; A domain family that is part of the cupin metalloenzyme superfamily
      pfam02008
      Location:584620
      zf-CXXC; CXXC zinc finger domain
      sd00034
      Location:10711095
      LRR_AMN1; leucine-rich repeat [structural motif]
      cd15644
      Location:630691
      PHD_KDM2B; PHD finger found in Lysine-specific demethylase 2B (KDM2B)
      pfam12937
      Location:10371077
      F-box-like; F-box-like
      cl21464
      Location:198304
      cupin_like; Conserved domain found in cupin and related proteins

    RefSeqs of Annotated Genomes: Rattus norvegicus 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 Rnor_6.0 Primary Assembly

    Genomic

    1. NC_005111.4 Reference Rnor_6.0 Primary Assembly

      Range
      39021924..39161954
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017598337.1XP_017453826.1  lysine-specific demethylase 2B isoform X1

      Conserved Domains (7) summary
      cd09293
      Location:10871276
      AMN1; Antagonist of mitotic exit network protein 1
      smart00558
      Location:151226
      JmjC; A domain family that is part of the cupin metalloenzyme superfamily
      pfam02008
      Location:584620
      zf-CXXC; CXXC zinc finger domain
      sd00034
      Location:10711095
      LRR_AMN1; leucine-rich repeat [structural motif]
      cd15644
      Location:630691
      PHD_KDM2B; PHD finger found in Lysine-specific demethylase 2B (KDM2B)
      pfam12937
      Location:10371077
      F-box-like; F-box-like
      cl21464
      Location:198304
      cupin_like; Conserved domain found in cupin and related proteins

    Alternate Rn_Celera

    Genomic

    1. AC_000080.1 Alternate Rn_Celera

      Range
      35254131..35380144
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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