Hdac2 histone deacetylase 2 [Rattus norvegicus (Norway rat)] - Gene

Summary

Symbol: Hdac2provided by RGD
Full Name: histone deacetylase 2provided by RGD
Primary source: RGD:619976
See related: Ensembl:ENSRNOG00000000604 AllianceGenome:RGD:619976
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Enables several functions, including deacetylase activity; heat shock protein binding activity; and promoter-specific chromatin binding activity. Involved in several processes, including positive regulation of cell differentiation; positive regulation of macromolecule metabolic process; and response to alkaloid. Located in chromatin; cytoplasm; and nucleus. Used to study Peyronie's disease; alcohol use disorder; and anxiety disorder. Biomarker of bronchitis; chronic obstructive pulmonary disease; endometriosis; pulmonary emphysema; and visual epilepsy. Human ortholog(s) of this gene implicated in stomach cancer. Orthologous to human HDAC2 (histone deacetylase 2). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Muscle (RPKM 329.9), Thymus (RPKM 308.1) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 20q12

Exon count:: 13

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	20	NC_086038.1 (42101815..42126486)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	20	NC_051355.1 (40548244..40571609)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	20	NC_005119.4 (43084870..43108198, complement)

Chromosome 20 - NC_086038.1 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: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

HDAC2 exacerbates rheumatoid arthritis progression via the IL-17-CCL7 signaling pathway.
Title: HDAC2 exacerbates rheumatoid arthritis progression via the IL-17-CCL7 signaling pathway.
Selenium-sensitive histone deacetylase 2 is required for forkhead box O3A and regulates extracellular matrix metabolism in cartilage.
Title: Selenium-sensitive histone deacetylase 2 is required for forkhead box O3A and regulates extracellular matrix metabolism in cartilage.
SCFAs Ameliorate Chronic Postsurgical Pain-Related Cognition Dysfunction via the ACSS2-HDAC2 Axis in Rats.
Title: SCFAs Ameliorate Chronic Postsurgical Pain-Related Cognition Dysfunction via the ACSS2-HDAC2 Axis in Rats.
mTOR and HDAC2 are simultaneously activated during electrically induced kindling of seizures.
Title: mTOR and HDAC2 are simultaneously activated during electrically induced kindling of seizures.
Gut microbiota shapes social dominance through modulating HDAC2 in the medial prefrontal cortex.
Title: Gut microbiota shapes social dominance through modulating HDAC2 in the medial prefrontal cortex.
Bilateral histone deacetylase 1 and 2 activity and enrichment at unique genes following induction of long-term potentiation in vivo.
Title: Bilateral histone deacetylase 1 and 2 activity and enrichment at unique genes following induction of long-term potentiation in vivo.
HDAC2 interacts with microRNA-503-5p to regulate SGK1 in osteoarthritis.
Title: HDAC2 interacts with microRNA-503-5p to regulate SGK1 in osteoarthritis.
Dysregulation of EAAT2 and VGLUT2 Spinal Glutamate Transports via Histone Deacetylase 2 (HDAC2) Contributes to Paclitaxel-induced Painful Neuropathy.
Title: Dysregulation of EAAT2 and VGLUT2 Spinal Glutamate Transports via Histone Deacetylase 2 (HDAC2) Contributes to Paclitaxel-induced Painful Neuropathy.
Expression of Histone Deacetylases HDAC1 and HDAC2 and Their Role in Apoptosis in the Penumbra Induced by Photothrombotic Stroke.
Title: Expression of Histone Deacetylases HDAC1 and HDAC2 and Their Role in Apoptosis in the Penumbra Induced by Photothrombotic Stroke.
In CeM, the main output of the fear circuitry, the level of HDAC1 was down-regulated following conditioning and up-regulated following extinction as opposed to which HDAC2 was down-regulated in CeM following conditioning but not following extinction.
Title: Regulation of HDAC1 and HDAC2 during consolidation and extinction of fear memory.

Submit: New GeneRIF Correction See all GeneRIFs (40)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

Hdac2 (e-PCR), detects polymorphism
- UniSTS:516622

RH127658 (e-PCR)
- UniSTS:210968

RH136178 (e-PCR)
- UniSTS:210173

Gene Ontology Provided by RGD

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 Krueppel-associated box domain binding	ISO Inferred from Sequence Orthology more info
enables NF-kappaB binding	ISO Inferred from Sequence Orthology more info
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	ISO Inferred from Sequence Orthology more info
enables chromatin DNA binding	ISO Inferred from Sequence Orthology more info
enables chromatin binding	ISO Inferred from Sequence Orthology more info
enables deacetylase activity	IDA Inferred from Direct Assay more info	PubMed
enables enzyme binding	IPI Inferred from Physical Interaction more info
enables enzyme binding	ISO Inferred from Sequence Orthology more info
enables heat shock protein binding	IDA Inferred from Direct Assay more info	PubMed
enables histone H4K16 deacetylase activity	ISO Inferred from Sequence Orthology more info
enables histone binding	ISO Inferred from Sequence Orthology more info
enables histone deacetylase activity	IBA Inferred from Biological aspect of Ancestor more info
enables histone deacetylase activity	ISO Inferred from Sequence Orthology more info
enables histone deacetylase binding	ISO Inferred from Sequence Orthology more info
enables histone decrotonylase activity	ISO Inferred from Sequence Orthology more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables promoter-specific chromatin binding	IDA Inferred from Direct Assay more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein de-2-hydroxyisobutyrylase activity	ISO Inferred from Sequence Orthology more info
enables protein lysine deacetylase activity	ISO Inferred from Sequence Orthology more info
enables transcription corepressor binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in behavioral response to ethanol	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within cardiac muscle cell development	ISO Inferred from Sequence Orthology more info
acts_upstream_of cardiac muscle cell proliferation	ISO Inferred from Sequence Orthology more info
involved_in cardiac muscle hypertrophy	IEP Inferred from Expression Pattern more info	PubMed
involved_in cellular response to dopamine	IEP Inferred from Expression Pattern more info	PubMed
involved_in cellular response to heat	IEP Inferred from Expression Pattern more info	PubMed
involved_in cellular response to hydrogen peroxide	IDA Inferred from Direct Assay more info	PubMed
involved_in cellular response to retinoic acid	IEP Inferred from Expression Pattern more info	PubMed
involved_in cellular response to transforming growth factor beta stimulus	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within cellular response to trichostatin A	ISO Inferred from Sequence Orthology more info
involved_in chromatin remodeling	ISO Inferred from Sequence Orthology more info
involved_in circadian regulation of gene expression	ISO Inferred from Sequence Orthology more info
involved_in dendrite development	ISO Inferred from Sequence Orthology more info
involved_in embryonic digit morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in epidermal cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in eyelid development in camera-type eye	ISO Inferred from Sequence Orthology more info
involved_in fungiform papilla formation	ISO Inferred from Sequence Orthology more info
involved_in hair follicle placode formation	ISO Inferred from Sequence Orthology more info
involved_in heterochromatin formation	IBA Inferred from Biological aspect of Ancestor more info
involved_in heterochromatin formation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within hippocampus development	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of DNA-templated transcription	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of apoptotic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of canonical Wnt signaling pathway	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of cardiac muscle cell proliferation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of dendritic spine development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within negative regulation of intrinsic apoptotic signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of miRNA transcription	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of neuron projection development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of neuron projection development	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of peptidyl-lysine acetylation	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 negative regulation of transcription by competitive promoter binding	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within neuron differentiation	ISO Inferred from Sequence Orthology more info
involved_in odontogenesis of dentin-containing tooth	ISO Inferred from Sequence Orthology more info
acts_upstream_of oligodendrocyte differentiation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cell population proliferation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of cell population proliferation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of epithelial to mesenchymal transition	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of interleukin-1 production	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of male mating behavior	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of oligodendrocyte differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within positive regulation of oligodendrocyte differentiation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of proteolysis	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of tumor necrosis factor production	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of tyrosine phosphorylation of STAT protein	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in protein modification process	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of protein deacetylation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of sarcomere organization	ISO Inferred from Sequence Orthology more info
involved_in response to alcohol	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to amphetamine	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to amyloid-beta	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to caffeine	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to cocaine	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to hyperoxia	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to lipopolysaccharide	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to nicotine	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to xenobiotic stimulus	IEP Inferred from Expression Pattern more info	PubMed

Component	Evidence Code	Pubs
part_of ESC/E(Z) complex	ISO Inferred from Sequence Orthology more info
part_of NuRD complex	IBA Inferred from Biological aspect of Ancestor more info
part_of NuRD complex	ISO Inferred from Sequence Orthology more info
part_of RNA polymerase II transcription repressor complex	ISO Inferred from Sequence Orthology more info
part_of Sin3-type complex	ISO Inferred from Sequence Orthology more info
part_of chromatin	IDA Inferred from Direct Assay more info	PubMed
part_of chromatin	ISO Inferred from Sequence Orthology more info
located_in chromosome, telomeric region	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
part_of heterochromatin	ISO Inferred from Sequence Orthology more info
part_of histone deacetylase complex	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
part_of protein-containing complex	ISO Inferred from Sequence Orthology more info
located_in replication fork	ISO Inferred from Sequence Orthology more info
part_of transcription regulator complex	ISO Inferred from Sequence Orthology more info
part_of transcription repressor complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: histone deacetylase 2

NP_445899.1

EC 3.5.1.98

XP_063135648.1

EC 3.5.1.98

XP_063135649.1

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_053447.2 → NP_445899.1 histone deacetylase 2

See identical proteins and their annotated locations for NP_445899.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000020

UniProtKB/TrEMBL

A0A8I6AP99, A6KID6, F7ENH8

Related

ENSRNOP00000000742.6, ENSRNOT00000000742.6

Conserved Domains (2) summary

cd10011
Location:9 → 374

HDAC2; Histone deacetylase 2 (HDAC2)

PTZ00063
Location:9 → 398

PTZ00063; histone deacetylase; Provisional

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

NC_086038.1 Reference GRCr8

Range

42101815..42126486

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063279578.1 → XP_063135648.1 histone deacetylase 2 isoform X1

UniProtKB/TrEMBL

A0A8I6AP99
XM_063279579.1 → XP_063135649.1 histone deacetylase 2 isoform X2

UniProtKB/TrEMBL

A0A8I6AP99