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

    Gene ID: 338523, updated on 2-Nov-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 H3K27me2/H3K27me3 demethylase activity and histone H3K9 demethylase activity. Involved in positive regulation of DNA-templated transcription. 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, Nov 2024]
    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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    See Kdm7a in Genome Data Viewer
    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 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. Histone demethylase KDM7A regulates bone homeostasis through balancing osteoblast and osteoclast differentiation. Shan L, et al. Cell Death Dis, 2024 Feb 12. PMID 38346941, Free PMC Article
    2. The Lysine Demethylase KDM7A Regulates Immediate Early Genes in Neurons. Wang Y, et al. Adv Sci (Weinh), 2023 Oct. PMID 37565374, Free PMC Article
    3. KIAA1718 is a histone demethylase that erases repressive histone methyl marks. Yokoyama A, et al. Genes Cells, 2010 Aug. PMID 20629981
    4. The dual histone demethylase KDM7A promotes neural induction in early chick embryos. Huang C, et al. Dev Dyn, 2010 Dec. PMID 20981832
    5. 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

    See all (30) 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)
    • Endonuclease-mediated (8)  1 citation
    • Gene trapped (1) 
    • Targeted (2) 

    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 2-oxoglutarate-dependent dioxygenase activity ISS
    Inferred from Sequence or Structural Similarity
    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 H3K36 demethylase activity ISS
    Inferred from Sequence or Structural Similarity
    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 H4K20 demethylase activity ISS
    Inferred from Sequence or Structural Similarity
    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 iron ion binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables methylated histone binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables methylated histone binding ISS
    Inferred from Sequence or Structural Similarity
    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
    		  
    enables zinc ion binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Process Evidence Code Pubs
    involved_in chromatin remodeling IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in chromatin remodeling IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in midbrain development ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in positive regulation of DNA-templated transcription IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    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 IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleolus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    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

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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