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Hdac2 histone deacetylase 2 [ Mus musculus (house mouse) ]

Gene ID: 15182, updated on 24-Jan-2023

Summary

Official Symbol
Hdac2provided by MGI
Official Full Name
histone deacetylase 2provided by MGI
Primary source
MGI:MGI:1097691
See related
Ensembl:ENSMUSG00000019777 AllianceGenome:MGI:1097691
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
YAF1; Yy1bp; mRPD3; D10Wsu179e
Summary
Enables several functions, including DNA binding activity; Krueppel-associated box domain binding activity; and transcription corepressor binding activity. Involved in several processes, including animal organ development; histone deacetylation; and regulation of gene expression. Acts upstream of or within several processes, including histone modification; nervous system development; and regulation of signal transduction. Located in heterochromatin; nucleus; and replication fork. Part of RNA polymerase II transcription repressor complex. Is expressed in several structures, including alimentary system; brain; early conceptus; genitourinary system; and sensory organ. 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
Broad expression in CNS E11.5 (RPKM 72.6), CNS E14 (RPKM 53.5) and 19 other tissues See more
Orthologs
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Genomic context

See Hdac2 in Genome Data Viewer
Location:
10 19.44 cM; 10 B1
Exon count:
15
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 10 NC_000076.7 (36850293..36877885)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 10 NC_000076.6 (36974297..37001889)

Chromosome 10 - NC_000076.7Genomic Context describing neighboring genes Neighboring gene VISTA enhancer mm693 Neighboring gene heparan sulfate (glucosamine) 3-O-sulfotransferase 5 Neighboring gene predicted gene, 22554 Neighboring gene RIKEN cDNA 5930403N24 gene Neighboring gene myristoylated alanine rich protein kinase C substrate

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

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

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

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 TAS
Traceable Author Statement
more info
PubMed 
enables Krueppel-associated box domain binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables NF-kappaB binding ISO
Inferred from Sequence Orthology
more info
 
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables RNA polymerase II-specific DNA-binding transcription factor binding ISO
Inferred from Sequence Orthology
more info
 
enables chromatin DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables chromatin binding IDA
Inferred from Direct Assay
more info
PubMed 
enables deacetylase activity IDA
Inferred from Direct Assay
more info
PubMed 
enables deacetylase activity ISO
Inferred from Sequence Orthology
more info
 
enables enzyme binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables enzyme binding ISO
Inferred from Sequence Orthology
more info
 
enables heat shock protein binding ISO
Inferred from Sequence Orthology
more info
 
enables histone H4K16 deacetylase activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
enables histone deacetylase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
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 histone decrotonylase activity IDA
Inferred from Direct Assay
more info
PubMed 
enables histone decrotonylase activity ISO
Inferred from Sequence Orthology
more info
 
enables hydrolase activity IEA
Inferred from Electronic Annotation
more info
 
enables promoter-specific chromatin binding ISO
Inferred from Sequence Orthology
more info
 
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 IDA
Inferred from Direct Assay
more info
PubMed 
enables protein lysine deacetylase activity ISO
Inferred from Sequence Orthology
more info
 
enables sequence-specific DNA binding ISO
Inferred from Sequence Orthology
more info
 
enables transcription corepressor binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
acts_upstream_of_or_within cardiac muscle cell development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of cardiac muscle cell proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in cellular response to hydrogen peroxide ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within cellular response to trichostatin A IDA
Inferred from Direct Assay
more info
PubMed 
involved_in chromatin organization TAS
Traceable Author Statement
more info
PubMed 
involved_in chromatin remodeling ISO
Inferred from Sequence Orthology
more info
 
involved_in circadian regulation of gene expression IDA
Inferred from Direct Assay
more info
PubMed 
involved_in dendrite development IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in embryonic digit morphogenesis IGI
Inferred from Genetic Interaction
more info
PubMed 
involved_in epidermal cell differentiation IGI
Inferred from Genetic Interaction
more info
PubMed 
involved_in eyelid development in camera-type eye IGI
Inferred from Genetic Interaction
more info
PubMed 
involved_in fungiform papilla formation IGI
Inferred from Genetic Interaction
more info
PubMed 
involved_in hair follicle placode formation IGI
Inferred from Genetic Interaction
more info
PubMed 
involved_in heterochromatin organization ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within hippocampus development IGI
Inferred from Genetic Interaction
more info
PubMed 
involved_in histone H3 deacetylation IDA
Inferred from Direct Assay
more info
PubMed 
involved_in histone H3 deacetylation ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within histone H3-K27 methylation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in histone H4 deacetylation IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within histone deacetylation IGI
Inferred from Genetic Interaction
more info
PubMed 
involved_in histone deacetylation ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of DNA binding ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of DNA-binding transcription factor activity ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of DNA-templated transcription IDA
Inferred from Direct Assay
more info
PubMed 
involved_in negative regulation of DNA-templated transcription ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of DNA-templated transcription NAS
Non-traceable Author Statement
more info
PubMed 
involved_in negative regulation of apoptotic process IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within negative regulation of canonical Wnt signaling pathway IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within negative regulation of cardiac muscle cell proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of cell migration NAS
Non-traceable Author Statement
more info
PubMed 
involved_in negative regulation of dendritic spine development ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within negative regulation of intrinsic apoptotic signaling pathway IGI
Inferred from Genetic Interaction
more info
PubMed 
involved_in negative regulation of miRNA transcription IGI
Inferred from Genetic Interaction
more info
PubMed 
involved_in negative regulation of miRNA transcription IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of neuron projection development IDA
Inferred from Direct Assay
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 ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of stem cell population maintenance NAS
Non-traceable Author Statement
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 IGI
Inferred from Genetic Interaction
more info
PubMed 
involved_in 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 NAS
Non-traceable Author Statement
more info
PubMed 
involved_in negative regulation of transforming growth factor beta receptor signaling pathway NAS
Non-traceable Author Statement
more info
PubMed 
acts_upstream_of_or_within neuron differentiation IGI
Inferred from Genetic Interaction
more info
PubMed 
involved_in odontogenesis of dentin-containing tooth IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of oligodendrocyte differentiation IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within positive regulation of DNA-binding transcription factor activity IDA
Inferred from Direct Assay
more info
PubMed 
involved_in positive regulation of DNA-templated transcription NAS
Non-traceable Author Statement
more info
PubMed 
involved_in positive regulation of cell population proliferation IGI
Inferred from Genetic Interaction
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 ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of interleukin-1 production ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of male mating behavior ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within positive regulation of oligodendrocyte differentiation IGI
Inferred from Genetic Interaction
more info
PubMed 
involved_in 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
 
acts_upstream_of positive regulation of signaling receptor activity ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of stem cell population maintenance NAS
Non-traceable Author Statement
more info
PubMed 
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 ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of tyrosine phosphorylation of STAT protein ISO
Inferred from Sequence Orthology
more info
 
involved_in protein deacetylation IDA
Inferred from Direct Assay
more info
PubMed 
involved_in regulation of cell fate specification NAS
Non-traceable Author Statement
more info
PubMed 
acts_upstream_of_or_within regulation of protein deacetylation IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within regulation of protein kinase B signaling IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within regulation of sarcomere organization IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of stem cell differentiation NAS
Non-traceable Author Statement
more info
PubMed 
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
acts_upstream_of_or_within rhythmic process IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
part_of ESC/E(Z) complex ISO
Inferred from Sequence Orthology
more info
 
part_of NuRD complex ISO
Inferred from Sequence Orthology
more info
 
part_of NuRD complex NAS
Non-traceable Author Statement
more info
PubMed 
part_of RNA polymerase II transcription repressor complex IDA
Inferred from Direct Assay
more info
PubMed 
part_of Sin3 complex ISO
Inferred from Sequence Orthology
more info
 
part_of Sin3 complex NAS
Non-traceable Author Statement
more info
PubMed 
located_in chromatin IDA
Inferred from Direct Assay
more info
PubMed 
located_in 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
 
located_in cytoplasm TAS
Traceable Author Statement
more info
PubMed 
located_in heterochromatin IDA
Inferred from Direct Assay
more info
PubMed 
part_of histone deacetylase complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of histone deacetylase complex ISO
Inferred from Sequence Orthology
more info
 
part_of histone deacetylase complex TAS
Traceable Author Statement
more info
PubMed 
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in nucleoplasm TAS
Traceable Author Statement
more info
 
located_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
 
located_in nucleus NAS
Non-traceable Author Statement
more info
PubMed 
part_of protein-containing complex ISO
Inferred from Sequence Orthology
more info
 
located_in replication fork IDA
Inferred from Direct Assay
more info
PubMed 
part_of transcription regulator complex IPI
Inferred from Physical Interaction
more info
PubMed 
part_of transcription repressor complex IPI
Inferred from Physical Interaction
more info
PubMed 

General protein information

Preferred Names
histone deacetylase 2
Names
HD2
YY1 transcription factor-binding protein
protein deacylase HDAC2
NP_032255.2
XP_006512618.1
XP_017169295.1
XP_030100750.1

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

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_008229.2NP_032255.2  histone deacetylase 2

    See identical proteins and their annotated locations for NP_032255.2

    Status: VALIDATED

    Source sequence(s)
    AB221663, AK165734, U31758
    Consensus CDS
    CCDS23783.1
    UniProtKB/Swiss-Prot
    P70288
    UniProtKB/TrEMBL
    A0A0R4J008, Q3TMT1
    Related
    ENSMUSP00000019911.8, ENSMUST00000019911.14
    Conserved Domains (3) summary
    cd10011
    Location:9374
    HDAC2; Histone deacetylase 2 (HDAC2)
    PTZ00063
    Location:9398
    PTZ00063; histone deacetylase; Provisional
    pfam15377
    Location:391486
    DUF4604; Domain of unknown function (DUF4604)

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000076.7 Reference GRCm39 C57BL/6J

    Range
    36850293..36877885
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_030244890.1XP_030100750.1  histone deacetylase 2 isoform X2

    Conserved Domains (2) summary
    pfam05793
    Location:256346
    TFIIF_alpha; Transcription initiation factor IIF, alpha subunit (TFIIF-alpha)
    cl17011
    Location:1243
    Arginase_HDAC; Arginase-like and histone-like hydrolases
  2. XM_006512555.4XP_006512618.1  histone deacetylase 2 isoform X1

    Conserved Domains (2) summary
    pfam05793
    Location:357458
    TFIIF_alpha; Transcription initiation factor IIF, alpha subunit (TFIIF-alpha)
    cl17011
    Location:1344
    Arginase_HDAC; Arginase-like and histone-like hydrolases
  3. XM_017313806.2XP_017169295.1  histone deacetylase 2 isoform X2

    Conserved Domains (2) summary
    pfam05793
    Location:256346
    TFIIF_alpha; Transcription initiation factor IIF, alpha subunit (TFIIF-alpha)
    cl17011
    Location:1243
    Arginase_HDAC; Arginase-like and histone-like hydrolases