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

Summary

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

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_000072.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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.
The Lysine Demethylase KDM7A Regulates Immediate Early Genes in Neurons.
Title: The Lysine Demethylase KDM7A Regulates Immediate Early Genes in Neurons.
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.
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.
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.
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.
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.
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.

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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

px-16e4 (e-PCR)
- UniSTS:257328

BB041802 (e-PCR)
- UniSTS:185661

D10Mit157.2 (e-PCR), detects polymorphism
- UniSTS:126061

NoName (e-PCR)
- UniSTS:235426

px-5c8 (e-PCR)
- UniSTS:258000

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

EC 1.14.11.65

XP_036022151.1

EC 1.14.11.65

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)

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

NC_000072.7 Reference GRCm39 C57BL/6J

Range

39113554..39183707 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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

Conserved Domains (1) summary

pfam17811
Location:11 → 114

JHD; Jumonji helical domain