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Kdm2a lysine (K)-specific demethylase 2A [ Mus musculus (house mouse) ]

Gene ID: 225876, updated on 5-Sep-2021

Summary

Official Symbol
Kdm2aprovided by MGI
Official Full Name
lysine (K)-specific demethylase 2Aprovided by MGI
Primary source
MGI:MGI:1354736
See related
Ensembl:ENSMUSG00000054611
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
Fbl; Fbl7; Cxxc8; Fbl11; Fbxl1; Jhdm1; Fbxl11; Gm4560; Jhdm1a; lalina; AA589516; AW536790; 100043628; 5530401A10Rik
Expression
Ubiquitous expression in thymus adult (RPKM 17.5), limb E14.5 (RPKM 16.0) and 28 other tissues See more
Orthologs
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Genomic context

See Kdm2a in Genome Data Viewer
Location:
19; 19 A
Exon count:
23
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 19 NC_000085.7 (4366172..4448749, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 19 NC_000085.6 (4316144..4398721, complement)
Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 19 NC_000085.5 (4316144..4397077, complement)

Chromosome 19 - NC_000085.7Genomic Context describing neighboring genes Neighboring gene ankyrin repeat domain 13 family, member D Neighboring gene G protein-coupled receptor kinase 2 Neighboring gene RIKEN cDNA 9430078G10 gene Neighboring gene RIKEN cDNA A930001C03 gene Neighboring gene ras homolog family member D Neighboring gene synaptotagmin XII

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)

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables DNA binding IEA
Inferred from Electronic Annotation
more info
 
enables dioxygenase activity IEA
Inferred from Electronic Annotation
more info
 
enables histone H3-di/monomethyl-lysine-36 demethylase activity IEA
Inferred from Electronic Annotation
more info
 
enables histone H3-methyl-lysine-36 demethylase activity ISO
Inferred from Sequence Orthology
more info
 
enables histone 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 
enables unmethylated CpG binding IDA
Inferred from Direct Assay
more info
PubMed 
enables unmethylated CpG binding ISO
Inferred from Sequence Orthology
more info
 
enables zinc ion binding ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
acts_upstream_of_or_within chromatin organization IEA
Inferred from Electronic Annotation
more info
 
involved_in circadian regulation of gene expression ISO
Inferred from Sequence Orthology
more info
 
involved_in double-strand break repair via nonhomologous end joining ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within heart looping IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within histone H3-K36 demethylation ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within in utero embryonic development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within multicellular organism growth IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within negative regulation of apoptotic process IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within negative regulation of gene expression IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of transcription by competitive promoter binding ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within neural tube closure IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within neuroepithelial cell differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within neuron differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within positive regulation of gene expression IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within positive regulation of histone ubiquitination IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in protein demethylation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in regulation of circadian rhythm ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
acts_upstream_of_or_within rhythmic process IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
located_in chromatin IDA
Inferred from Direct Assay
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 2A
Names
F-box and leucine-rich repeat protein 11
F-box protein containing leucine repeats
F-box/LRR-repeat protein 11
[Histone-H3]-lysine-36 demethylase 1A
jmjC domain-containing histone demethylation protein 1A
NP_001001984.2
XP_006531785.1
XP_006531786.1

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_001001984.2NP_001001984.2  lysine-specific demethylase 2A

    See identical proteins and their annotated locations for NP_001001984.2

    Status: VALIDATED

    Source sequence(s)
    AC140073, AK173084, BC076576, CB246224
    Consensus CDS
    CCDS37886.1
    UniProtKB/Swiss-Prot
    P59997
    UniProtKB/TrEMBL
    F6YRW4
    Related
    ENSMUSP00000076698.5, ENSMUST00000075856.11
    Conserved Domains (7) summary
    cd09293
    Location:9311137
    AMN1; Antagonist of mitotic exit network protein 1
    sd00034
    Location:929953
    LRR_AMN1; leucine-rich repeat [structural motif]
    cd15643
    Location:619675
    PHD_KDM2A; PHD finger found in Lysine-specific demethylase 2A (KDM2A)
    pfam02008
    Location:576609
    zf-CXXC; CXXC zinc finger domain
    pfam12937
    Location:895933
    F-box-like
    pfam17811
    Location:304339
    JHD; Jumonji helical domain
    cl21464
    Location:199299
    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_000085.7 Reference GRCm39 C57BL/6J

    Range
    4366172..4448749 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006531722.4XP_006531785.1  lysine-specific demethylase 2A isoform X1

    See identical proteins and their annotated locations for XP_006531785.1

    UniProtKB/TrEMBL
    F6YRW4
    Related
    ENSMUSP00000047683.8, ENSMUST00000047898.14
    Conserved Domains (7) summary
    cd09293
    Location:9311137
    AMN1; Antagonist of mitotic exit network protein 1
    sd00034
    Location:929953
    LRR_AMN1; leucine-rich repeat [structural motif]
    cd15643
    Location:619675
    PHD_KDM2A; PHD finger found in Lysine-specific demethylase 2A (KDM2A)
    pfam02008
    Location:576609
    zf-CXXC; CXXC zinc finger domain
    pfam12937
    Location:895933
    F-box-like
    pfam17811
    Location:304339
    JHD; Jumonji helical domain
    cl21464
    Location:199299
    cupin_like; Conserved domain found in cupin and related proteins
  2. XM_006531723.4XP_006531786.1  lysine-specific demethylase 2A isoform X2

    Conserved Domains (5) summary
    cd09293
    Location:491697
    AMN1; Antagonist of mitotic exit network protein 1
    sd00034
    Location:489513
    LRR_AMN1; leucine-rich repeat [structural motif]
    cd15643
    Location:179235
    PHD_KDM2A; PHD finger found in Lysine-specific demethylase 2A (KDM2A)
    pfam02008
    Location:136169
    zf-CXXC; CXXC zinc finger domain
    pfam12937
    Location:455493
    F-box-like
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