Hdac5 histone deacetylase 5 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Hdac5provided by MGI
Official Full Name: histone deacetylase 5provided by MGI
Primary source: MGI:MGI:1333784
See related: Ensembl:ENSMUSG00000008855 AllianceGenome:MGI:1333784
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: HD5; Hdac4; mHDA1; mKIAA0600
Summary: Enables several functions, including DNA-binding transcription repressor activity, RNA polymerase II-specific; transcription corepressor activity; and transcription corepressor binding activity. Involved in several processes, including cellular response to fluid shear stress; positive regulation of cell population proliferation; and regulation of myotube differentiation. Acts upstream of or within several processes, including negative regulation of macromolecule biosynthetic process; negative regulation of osteoblast differentiation; and regulation of myotube differentiation. Located in several cellular components, including axonal growth cone; chromatin; and nuclear body. Part of RNA polymerase II transcription repressor complex. Is active in nucleus. Is expressed in several structures, including central nervous system; early embryo; head bone; sensory organ; and upper arm. Orthologous to human HDAC5 (histone deacetylase 5). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Ubiquitous expression in lung adult (RPKM 20.5), adrenal adult (RPKM 19.0) and 28 other tissues See more
Orthologs: human all
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Genomic context

Location:: 11 D; 11 65.82 cM

Exon count:: 30

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	11	NC_000077.7 (102085244..102120968, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	11	NC_000077.6 (102195747..102230172, complement)

Chromosome 11 - NC_000077.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

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?

Hippocampal HDAC5-mediated histone acetylation underlies stress susceptibility in mice exposed to chronic social defeat stress.
Title: Hippocampal HDAC5-mediated histone acetylation underlies stress susceptibility in mice exposed to chronic social defeat stress.
SNHG16/miR-205/HDAC5 is involved in the progression of renal fibrosis.
Title: SNHG16/miR-205/HDAC5 is involved in the progression of renal fibrosis.
HDAC5 inhibition attenuates ventricular remodeling and cardiac dysfunction.
Title: HDAC5 inhibition attenuates ventricular remodeling and cardiac dysfunction.
HDAC5-Mediated Acetylation of p100 Suppresses Its Processing.
Title: HDAC5-Mediated Acetylation of p100 Suppresses Its Processing.
Exercise improves high-fat diet-induced metabolic disorder by promoting HDAC5 degradation through the ubiquitin-proteasome system in skeletal muscle.
Title: Exercise improves high-fat diet-induced metabolic disorder by promoting HDAC5 degradation through the ubiquitin-proteasome system in skeletal muscle.
HDAC5 RNA interference ameliorates acute renal injury by upregulating KLF2 and inhibiting NALP3 expression in a mouse model of oxalate nephropathy.
Title: HDAC5 RNA interference ameliorates acute renal injury by upregulating KLF2 and inhibiting NALP3 expression in a mouse model of oxalate nephropathy.
Histone deacetylase 5 deacetylates the phosphatase PP2A for positively regulating NF-kappaB signaling.
Title: Histone deacetylase 5 deacetylates the phosphatase PP2A for positively regulating NF-κB signaling.
Cyclic AMP represses pathological MEF2 activation by myocyte-specific hypo-phosphorylation of HDAC5.
Title: Cyclic AMP represses pathological MEF2 activation by myocyte-specific hypo-phosphorylation of HDAC5.
HDAC5 promotes intestinal sepsis via the Ghrelin/E2F1/NF-kappaB axis.
Title: HDAC5 promotes intestinal sepsis via the Ghrelin/E2F1/NF-κB axis.
miR-485 inhibits histone deacetylase HDAC5, HIF1alpha and PFKFB3 expression to alleviate epilepsy in cellular and rodent models.
Title: miR-485 inhibits histone deacetylase HDAC5, HIF1α and PFKFB3 expression to alleviate epilepsy in cellular and rodent models.

Submit: New GeneRIF Correction See all GeneRIFs (57)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (5) 1 citation
Targeted (2) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH130527 (e-PCR)
- UniSTS:213811

AI426555 (e-PCR)
- UniSTS:180329

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables DNA-binding transcription factor binding	IPI Inferred from Physical Interaction more info	PubMed
enables DNA-binding transcription factor binding	ISO Inferred from Sequence Orthology more info
enables DNA-binding transcription factor binding	TAS Traceable Author Statement more info	PubMed
enables DNA-binding transcription repressor activity, RNA polymerase II-specific	IMP Inferred from Mutant Phenotype more info	PubMed
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables RNA polymerase II-specific DNA-binding transcription factor binding	IPI Inferred from Physical Interaction more info	PubMed
enables RNA polymerase II-specific DNA-binding transcription factor binding	ISO Inferred from Sequence Orthology more info
enables chromatin binding	ISO Inferred from Sequence Orthology more info
enables histone H3K14 deacetylase activity, hydrolytic mechanism	IEA Inferred from Electronic Annotation more info
enables histone H3K4 deacetylase activity, hydrolytic mechanism	IEA Inferred from Electronic Annotation more info
enables histone H3K9 deacetylase activity, hydrolytic mechanism	IEA Inferred from Electronic Annotation more info
enables histone H4K12 deacetylase activity, hydrolytic mechanism	IEA Inferred from Electronic Annotation more info
enables histone H4K16 deacetylase activity, hydrolytic mechanism	IEA Inferred from Electronic Annotation more info
enables histone H4K5 deacetylase activity, hydrolytic mechanism	IEA Inferred from Electronic Annotation more info
enables histone H4K8 deacetylase activity, hydrolytic mechanism	IEA Inferred from Electronic Annotation more info
enables histone deacetylase activity	IBA Inferred from Biological aspect of Ancestor more info
enables histone deacetylase activity	IDA Inferred from Direct Assay more info	PubMed
enables histone deacetylase activity	ISO Inferred from Sequence Orthology more info
enables histone deacetylase activity	TAS Traceable Author Statement more info	PubMed
enables histone deacetylase binding	ISO Inferred from Sequence Orthology more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein kinase C binding	ISO Inferred from Sequence Orthology more info
enables protein kinase binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein lysine deacetylase activity	ISO Inferred from Sequence Orthology more info
contributes_to transcription cis-regulatory region binding	ISO Inferred from Sequence Orthology more info
enables transcription corepressor activity	IDA Inferred from Direct Assay more info	PubMed
enables transcription corepressor activity	IGI Inferred from Genetic Interaction more info	PubMed
enables transcription corepressor binding	IPI Inferred from Physical Interaction more info	PubMed
enables transcription corepressor binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in B cell activation	TAS Traceable Author Statement more info	PubMed
involved_in B cell differentiation	TAS Traceable Author Statement more info	PubMed
involved_in cellular response to fluid shear stress	IDA Inferred from Direct Assay more info	PubMed
involved_in chromatin organization	TAS Traceable Author Statement more info	PubMed
involved_in epigenetic regulation of gene expression	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within heart development	IGI Inferred from Genetic Interaction more info	PubMed
involved_in inflammatory response	TAS Traceable Author Statement more info	PubMed
acts_upstream_of_or_within multicellular organismal response to stress	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within negative regulation of DNA-templated transcription	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of DNA-templated transcription	TAS Traceable Author Statement more info	PubMed
involved_in negative regulation of cell migration involved in sprouting angiogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of gene expression	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of myotube differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of osteoblast differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of striated muscle tissue development	TAS Traceable Author Statement more info	PubMed
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II	IGI Inferred from Genetic Interaction more info	PubMed
involved_in negative regulation of transcription by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in nervous system development	TAS Traceable Author Statement more info	PubMed
acts_upstream_of_or_within osteoblast development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of osteoblast differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of DNA-binding transcription factor activity	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of neural precursor cell proliferation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of stem cell proliferation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in regulation of myotube differentiation	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of protein binding	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of skeletal muscle fiber development	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within regulation of skeletal muscle fiber differentiation	IGI Inferred from Genetic Interaction more info	PubMed
involved_in renal tubule morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within response to cocaine	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within response to cocaine	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in response to xenobiotic stimulus	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in Golgi apparatus	ISO Inferred from Sequence Orthology more info
part_of RNA polymerase II transcription repressor complex	IDA Inferred from Direct Assay more info	PubMed
located_in axonal growth cone	IDA Inferred from Direct Assay more info	PubMed
located_in chromatin	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	TAS Traceable Author Statement more info	PubMed
located_in cytosol	IDA Inferred from Direct Assay more info	PubMed
located_in cytosol	ISO Inferred from Sequence Orthology more info
part_of histone deacetylase complex	IBA Inferred from Biological aspect of Ancestor more info
part_of histone deacetylase complex	TAS Traceable Author Statement more info	PubMed
located_in nuclear body	IDA Inferred from Direct Assay more info	PubMed
located_in nuclear speck	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in nucleus	TAS Traceable Author Statement more info	PubMed
part_of protein-containing complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: histone deacetylase 5

Names: histone deacetylase 4; histone deacetylase mHDA1

NP_001071164.1

EC 3.5.1.98

NP_001271177.1

EC 3.5.1.98

NP_001271178.1

EC 3.5.1.98

NP_001271179.1

EC 3.5.1.98

NP_001348525.1

EC 3.5.1.98

NP_001392161.1

EC 3.5.1.98

NP_001392162.1

EC 3.5.1.98

NP_001392163.1

EC 3.5.1.98

NP_001392164.1

EC 3.5.1.98

NP_001392165.1

EC 3.5.1.98

NP_001392166.1

EC 3.5.1.98

NP_001392167.1

EC 3.5.1.98

NP_001392168.1

EC 3.5.1.98

NP_001392169.1

EC 3.5.1.98

NP_001392170.1

EC 3.5.1.98

NP_001392171.1

EC 3.5.1.98

NP_001392173.1

EC 3.5.1.98

NP_034542.3

EC 3.5.1.98

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_001077696.2 → NP_001071164.1 histone deacetylase 5 isoform 1

See identical proteins and their annotated locations for NP_001071164.1

Status: VALIDATED

Source sequence(s)

AL954730

Consensus CDS

CCDS36341.1

UniProtKB/TrEMBL

Q3U2E0, Q3UJF1

Related

ENSMUSP00000102770.3, ENSMUST00000107152.9

Conserved Domains (2) summary

cd10007
Location:672 → 1091

HDAC5; Histone deacetylase 5

cl25407
Location:69 → 156

ClassIIa_HDAC_Gln-rich-N; Glutamine-rich N-terminal helical domain of various Class IIa histone deacetylases (HDAC4, HDAC5 and HDCA9)
NM_001284248.2 → NP_001271177.1 histone deacetylase 5 isoform 3

See identical proteins and their annotated locations for NP_001271177.1

Status: VALIDATED

Source sequence(s)

AL954730

Consensus CDS

CCDS70320.1

UniProtKB/TrEMBL

B7ZDF5, Q3U2E0

Related

ENSMUSP00000008999.6, ENSMUST00000008999.12

Conserved Domains (2) summary

cd10007
Location:690 → 1109

HDAC5; Histone deacetylase 5

cl25407
Location:87 → 174

ClassIIa_HDAC_Gln-rich-N; Glutamine-rich N-terminal helical domain of various Class IIa histone deacetylases (HDAC4, HDAC5 and HDCA9)
NM_001284249.2 → NP_001271178.1 histone deacetylase 5 isoform 4

Status: VALIDATED

Source sequence(s)

AL954730

UniProtKB/TrEMBL

Q3U2E0

Conserved Domains (2) summary

cd10007
Location:630 → 1049

HDAC5; Histone deacetylase 5

cl25407
Location:27 → 114

ClassIIa_HDAC_Gln-rich-N; Glutamine-rich N-terminal helical domain of various Class IIa histone deacetylases (HDAC4, HDAC5 and HDCA9)
NM_001284250.2 → NP_001271179.1 histone deacetylase 5 isoform 5

Status: VALIDATED

Source sequence(s)

AL954730

Consensus CDS

CCDS70321.1

UniProtKB/TrEMBL

B7ZDF7, Q3U2E0

Related

ENSMUSP00000102768.2, ENSMUST00000107150.8

Conserved Domains (2) summary

cd10007
Location:671 → 1090

HDAC5; Histone deacetylase 5

cl23765
Location:68 → 155

iSH2_PI3K_IA_R; Inter-Src homology 2 (iSH2) helical domain of Class IA Phosphoinositide 3-kinase Regulatory subunits
NM_001361596.2 → NP_001348525.1 histone deacetylase 5 isoform 4

Status: VALIDATED

Source sequence(s)

AL954730

UniProtKB/TrEMBL

Q3U2E0

Conserved Domains (2) summary

cd10007
Location:630 → 1049

HDAC5; Histone deacetylase 5

cl25407
Location:27 → 114

ClassIIa_HDAC_Gln-rich-N; Glutamine-rich N-terminal helical domain of various Class IIa histone deacetylases (HDAC4, HDAC5 and HDCA9)
NM_001405232.1 → NP_001392161.1 histone deacetylase 5 isoform 6

Status: VALIDATED

Source sequence(s)

AL954730
NM_001405233.1 → NP_001392162.1 histone deacetylase 5 isoform 7

Status: VALIDATED

Source sequence(s)

AL954730
NM_001405234.1 → NP_001392163.1 histone deacetylase 5 isoform 8

Status: VALIDATED

Source sequence(s)

AL954730
NM_001405235.1 → NP_001392164.1 histone deacetylase 5 isoform 9

Status: VALIDATED

Source sequence(s)

AL954730
NM_001405236.1 → NP_001392165.1 histone deacetylase 5 isoform 9

Status: VALIDATED

Source sequence(s)

AL954730
NM_001405237.1 → NP_001392166.1 histone deacetylase 5 isoform 10

Status: VALIDATED

Source sequence(s)

AL954730
NM_001405238.1 → NP_001392167.1 histone deacetylase 5 isoform 11

Status: VALIDATED

Source sequence(s)

AL954730
NM_001405239.1 → NP_001392168.1 histone deacetylase 5 isoform 11

Status: VALIDATED

Source sequence(s)

AL954730
NM_001405240.1 → NP_001392169.1 histone deacetylase 5 isoform 12

Status: VALIDATED

Source sequence(s)

AL954730
NM_001405241.1 → NP_001392170.1 histone deacetylase 5 isoform 13

Status: VALIDATED

Source sequence(s)

AL954730
NM_001405242.1 → NP_001392171.1 histone deacetylase 5 isoform 13

Status: VALIDATED

Source sequence(s)

AL954730
NM_001405244.1 → NP_001392173.1 histone deacetylase 5 isoform 14

Status: VALIDATED

Source sequence(s)

AL954730
NM_010412.4 → NP_034542.3 histone deacetylase 5 isoform 2

See identical proteins and their annotated locations for NP_034542.3

Status: VALIDATED

Source sequence(s)

AL954730

UniProtKB/TrEMBL

Q3U2E0, Q6P9T4

Conserved Domains (2) summary

cd10007
Location:671 → 1090

HDAC5; Histone deacetylase 5

cl23765
Location:68 → 155

iSH2_PI3K_IA_R; Inter-Src homology 2 (iSH2) helical domain of Class IA Phosphoinositide 3-kinase Regulatory subunits