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Kdm7a lysine (K)-specific demethylase 7A [ Mus musculus (house mouse) ]

Gene ID: 338523, updated on 2-Apr-2024

Summary

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Official Symbol
Kdm7aprovided by MGI
Official Full Name
lysine (K)-specific demethylase 7Aprovided by MGI
Primary source
MGI:MGI:2443388
See related
Ensembl:ENSMUSG00000042599 AllianceGenome:MGI:2443388
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
Jhdm1d; mKIAA1718; A630082K20Rik
Summary
Enables histone H3-methyl-lysine-9 demethylase activity and histone H3-tri/di-methyl-lysine-27 demethylase activity. Involved in histone H3-K27 demethylation; histone H3-K9 demethylation; and positive regulation of transcription, DNA-templated. Predicted to be located in nucleolus and nucleoplasm. Human ortholog(s) of this gene implicated in melanoma. Orthologous to human KDM7A (lysine demethylase 7A). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in liver E14 (RPKM 5.3), liver E14.5 (RPKM 4.4) and 28 other tissues See more
Orthologs
human all
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Genomic context

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Location:
6 B1; 6 17.87 cM
Exon count:
20
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 6 NC_000072.7 (39113554..39183707, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 6 NC_000072.6 (39136620..39206773, complement)

Chromosome 6 - NC_000072.7Genomic Context describing neighboring genes Neighboring gene thromboxane A synthase 1, platelet Neighboring gene RIKEN cDNA 1700025N23 gene Neighboring gene RIKEN cDNA 4930599N23 gene Neighboring gene poly (ADP-ribose) polymerase family, member 12 Neighboring gene STARR-seq mESC enhancer starr_15629 Neighboring gene STARR-positive B cell enhancer ABC_E3651 Neighboring gene STARR-seq mESC enhancer starr_15630 Neighboring gene STARR-positive B cell enhancer ABC_E6424 Neighboring gene predicted gene, 38794 Neighboring gene predicted gene, 34147

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

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Related articles in PubMed

  1. The dual histone demethylase KDM7A promotes neural induction in early chick embryos. Huang C, et al. Dev Dyn, 2010 Dec. PMID 20981832
  2. KIAA1718 is a histone demethylase that erases repressive histone methyl marks. Yokoyama A, et al. Genes Cells, 2010 Aug. PMID 20629981
  3. Histone Demethylase KDM7A Contributes to the Development of Hepatic Steatosis by Targeting Diacylglycerol Acyltransferase 2. Kim JH, et al. Int J Mol Sci, 2021 Oct 14. PMID 34681759, Free PMC Article
  4. Histone demethylase KDM7A reciprocally regulates adipogenic and osteogenic differentiation via regulation of C/EBPα and canonical Wnt signalling. Yang X, et al. J Cell Mol Med, 2019 Mar. PMID 30614617, Free PMC Article
  5. Increased expression of histone demethylase JHDM1D under nutrient starvation suppresses tumor growth via down-regulating angiogenesis. Osawa T, et al. Proc Natl Acad Sci U S A, 2011 Dec 20. PMID 22143793, Free PMC Article

See all (26) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Histone demethylase KDM7A regulates bone homeostasis through balancing osteoblast and osteoclast differentiation.
    Title: Histone demethylase KDM7A regulates bone homeostasis through balancing osteoblast and osteoclast differentiation.
  2. The Lysine Demethylase KDM7A Regulates Immediate Early Genes in Neurons.
    Title: The Lysine Demethylase KDM7A Regulates Immediate Early Genes in Neurons.
  3. Histone Demethylase KDM7A Contributes to the Development of Hepatic Steatosis by Targeting Diacylglycerol Acyltransferase 2.
    Title: Histone Demethylase KDM7A Contributes to the Development of Hepatic Steatosis by Targeting Diacylglycerol Acyltransferase 2.
  4. Lysine demethylase 7a regulates murine anterior-posterior development by modulating the transcription of Hox gene cluster.
    Title: Lysine demethylase 7a regulates murine anterior-posterior development by modulating the transcription of Hox gene cluster.
  5. Findings suggest that histone lysine demethylase 7A (KDM7A) balances adipogenic and osteogenic differentiation from progenitor cells through epigenetic control of CCAAT/enhancer binding protein (C/EBP) alpha (C/EBPalpha) and canonical Wnt signaling.
    Title: Histone demethylase KDM7A reciprocally regulates adipogenic and osteogenic differentiation via regulation of C/EBPα and canonical Wnt signalling.
  6. increased JHDM1D expression suppresses tumor growth by down-regulating angiogenesis under nutrient starvation
    Title: Increased expression of histone demethylase JHDM1D under nutrient starvation suppresses tumor growth via down-regulating angiogenesis.
  7. The KIAA1718, a PHF2/PHF8 subfamily member, possesses histone demethylase activity specific for H3K9 and H3K27, transcriptionally repressive histone marks.
    Title: KIAA1718 is a histone demethylase that erases repressive histone methyl marks.
  8. a JmjC domain-containing protein that catalyzes demethylation of both mono- or dimethylated H3K9 and H3K27 [KDM7]
    Title: KDM7 is a dual demethylase for histone H3 Lys 9 and Lys 27 and functions in brain development.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Gene trapped (1) 
  • Targeted (2) 
  • Endonuclease-mediated (8)  1 citation

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables 2-oxoglutarate-dependent dioxygenase activity ISO
Inferred from Sequence Orthology
more info
  
enables dioxygenase activity IEA
Inferred from Electronic Annotation
more info
  
enables histone H3K27me2/H3K27me3 demethylase activity IMP
Inferred from Mutant Phenotype
more info
 PubMed 
enables histone H3K27me2/H3K27me3 demethylase activity ISO
Inferred from Sequence Orthology
more info
  
enables histone H3K36 demethylase activity ISO
Inferred from Sequence Orthology
more info
  
enables histone H3K9 demethylase activity IMP
Inferred from Mutant Phenotype
more info
 PubMed 
enables histone H3K9 demethylase activity ISO
Inferred from Sequence Orthology
more info
  
enables histone H3K9me/H3K9me2 demethylase activity IEA
Inferred from Electronic Annotation
more info
  
enables histone H4K20 demethylase activity ISO
Inferred from Sequence Orthology
more info
  
enables histone demethylase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables iron ion binding ISO
Inferred from Sequence Orthology
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables methylated histone binding ISO
Inferred from Sequence Orthology
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
  
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
  
acts_upstream_of_or_within nervous system development IEA
Inferred from Electronic Annotation
more info
  
involved_in positive regulation of DNA-templated transcription IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in protein demethylation IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in nucleolus ISO
Inferred from Sequence Orthology
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
lysine-specific demethylase 7A
Names
[histone H3]-dimethyl-L-lysine9 demethylase 7A
jmjC domain-containing histone demethylation protein 1D
jumonji C domain-containing histone demethylase 1 homolog D
lysine-specific demethylase 7
NP_001028602.2
XP_036022151.1

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_001033430.5 → NP_001028602.2  lysine-specific demethylase 7A

    See identical proteins and their annotated locations for NP_001028602.2

    Status: VALIDATED

    Source sequence(s)
    AC153818, AC155729
    Consensus CDS
    CCDS51753.1
    UniProtKB/Swiss-Prot
    A6H6E5, Q3UWM4, Q3UWN8, Q6ZPJ5, Q8C969, Q8C9E0, Q91VX8
    Related
    ENSMUSP00000002305.9, ENSMUST00000002305.9
    Conserved Domains (3) summary
    smart00558
    Location:234 → 297
    JmjC; A domain family that is part of the cupin metalloenzyme superfamily
    cd15640
    Location:39 → 88
    PHD_KDM7; PHD finger found in lysine-specific demethylase 7 (KDM7)
    cl21464
    Location:269 → 369
    cupin_like; Conserved domain found in cupin and related proteins

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000072.7 Reference GRCm39 C57BL/6J

    Range
    39113554..39183707 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_036166258.1 → XP_036022151.1  lysine-specific demethylase 7A isoform X1

    Conserved Domains (1) summary
    pfam17811
    Location:11 → 114
    JHD; Jumonji helical domain
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q3UWM4.2 GenPept UniProtKB/Swiss-Prot:Q3UWM4

Gene LinkOut

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