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Hdac1 histone deacetylase 1 [ Mus musculus (house mouse) ]

Gene ID: 433759, updated on 4-Jan-2025

Summary

Official Symbol
Hdac1provided by MGI
Official Full Name
histone deacetylase 1provided by MGI
Primary source
MGI:MGI:108086
See related
Ensembl:ENSMUSG00000028800 AllianceGenome:MGI:108086
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
HD1; RPD3; MommeD5; Hdac1-ps
Summary
Enables several functions, including E-box binding activity; Krueppel-associated box domain binding activity; and promoter-specific chromatin binding activity. Involved in several processes, including eyelid development in camera-type eye; fungiform papilla formation; and regulation of gene expression. Acts upstream of or within several processes, including negative regulation of signal transduction; nervous system development; and positive regulation of oligodendrocyte differentiation. Located in heterochromatin; neuronal cell body; and nucleus. Part of NuRD complex and transcription repressor complex. Is expressed in several structures, including brain; early conceptus; embryo ectoderm; genitourinary system; and sensory organ. Orthologous to human HDAC1 (histone deacetylase 1). [provided by Alliance of Genome Resources, Jan 2025]
Expression
Ubiquitous expression in CNS E11.5 (RPKM 54.8), placenta adult (RPKM 51.1) and 28 other tissues See more
Orthologs
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Genomic context

See Hdac1 in Genome Data Viewer
Location:
4 D2.2; 4 63.26 cM
Exon count:
14
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (129409897..129436516, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (129516104..129542646, complement)

Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene family with sequence similarity 229, member A Neighboring gene testis-specific serine kinase 3 Neighboring gene STARR-positive B cell enhancer ABC_E6223 Neighboring gene STARR-seq mESC enhancer starr_11499 Neighboring gene MARCKS-like 1 Neighboring gene STARR-positive B cell enhancer ABC_E1039 Neighboring gene CapStarr-seq enhancer MGSCv37_chr4:129234226-129234335 Neighboring gene CapStarr-seq enhancers MGSCv37_chr4:129235614-129235787 and MGSCv37_chr4:129235855-129236058 Neighboring gene lymphocyte protein tyrosine kinase Neighboring gene microRNA 8119 Neighboring gene CapStarr-seq enhancer MGSCv37_chr4:129252379-129252729 Neighboring gene family with sequence similarity 167, member B

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

General gene information

Clone Names

  • MGC102534, MGC118085

Gene Ontology Provided by MGI

Items 1 - 25 of 47
Function Evidence Code Pubs
enables DNA binding PubMed 
enables DNA-binding transcription factor binding PubMed 
enables DNA-binding transcription factor binding  
enables DNA-binding transcription factor binding PubMed 
enables E-box binding PubMed 
enables Krueppel-associated box domain binding PubMed 
enables NF-kappaB binding  
enables NF-kappaB binding  
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding  
enables RNA polymerase II core promoter sequence-specific DNA binding  
enables RNA polymerase II core promoter sequence-specific DNA binding  
enables RNA polymerase II-specific DNA-binding transcription factor binding PubMed 
enables RNA polymerase II-specific DNA-binding transcription factor binding  
enables chromatin binding PubMed 
enables chromatin binding  
enables core promoter sequence-specific DNA binding  
enables deacetylase activity  
enables enzyme binding  
enables histone H3K14 deacetylase activity, hydrolytic mechanism  
enables histone H3K4 deacetylase activity, hydrolytic mechanism  
enables histone H3K9 deacetylase activity, hydrolytic mechanism  
enables histone H4K12 deacetylase activity, hydrolytic mechanism  
enables histone H4K16 deacetylase activity, hydrolytic mechanism  
enables histone H4K5 deacetylase activity, hydrolytic mechanism  
enables histone H4K8 deacetylase activity, hydrolytic mechanism  
enables histone deacetylase activity  
enables histone deacetylase activity PubMed 
enables histone deacetylase activity  
enables histone deacetylase activity  
enables histone deacetylase binding  
enables histone deacetylase binding  
enables histone decrotonylase activity PubMed 
enables histone decrotonylase activity  
enables metal ion binding  
enables p53 binding  
enables p53 binding  
enables promoter-specific chromatin binding PubMed 
enables protein binding PubMed 
enables protein lysine deacetylase activity  
enables protein lysine delactylase activity  
enables protein-containing complex binding  
enables transcription cis-regulatory region binding PubMed 
enables transcription corepressor activity PubMed 
enables transcription corepressor activity  
enables transcription corepressor binding  
enables transcription corepressor binding  
enables tubulin deacetylase activity  
Items 1 - 25 of 47
Items 1 - 25 of 53
Process Evidence Code Pubs
involved_in DNA methylation-dependent constitutive heterochromatin formation  
involved_in DNA methylation-dependent constitutive heterochromatin formation  
involved_in chromatin organization PubMed 
involved_in chromatin remodeling  
involved_in circadian regulation of gene expression PubMed 
involved_in circadian rhythm PubMed 
involved_in embryonic digit morphogenesis PubMed 
acts_upstream_of_or_within endoderm development PubMed 
acts_upstream_of_or_within endoderm development PubMed 
involved_in epidermal cell differentiation PubMed 
involved_in eyelid development in camera-type eye PubMed 
involved_in fungiform papilla formation PubMed 
involved_in hair follicle placode formation PubMed 
involved_in heterochromatin formation  
acts_upstream_of_or_within hippocampus development PubMed 
involved_in negative regulation by host of viral transcription  
involved_in negative regulation by host of viral transcription  
acts_upstream_of_or_within negative regulation of DNA-templated transcription PubMed 
involved_in negative regulation of DNA-templated transcription PubMed 
involved_in negative regulation of DNA-templated transcription  
involved_in negative regulation of DNA-templated transcription PubMed 
involved_in negative regulation of androgen receptor signaling pathway  
involved_in negative regulation of androgen receptor signaling pathway  
involved_in negative regulation of apoptotic process PubMed 
acts_upstream_of_or_within negative regulation of canonical NF-kappaB signal transduction PubMed 
acts_upstream_of_or_within negative regulation of canonical Wnt signaling pathway PubMed 
involved_in negative regulation of canonical Wnt signaling pathway  
involved_in negative regulation of cell migration PubMed 
involved_in negative regulation of gene expression  
involved_in negative regulation of gene expression, epigenetic  
acts_upstream_of_or_within negative regulation of intrinsic apoptotic signaling pathway PubMed 
involved_in negative regulation of stem cell population maintenance PubMed 
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II PubMed 
involved_in negative regulation of transcription by RNA polymerase II PubMed 
involved_in negative regulation of transcription by RNA polymerase II  
involved_in negative regulation of transcription by RNA polymerase II PubMed 
involved_in negative regulation of transforming growth factor beta receptor signaling pathway PubMed 
acts_upstream_of_or_within neuron differentiation PubMed 
involved_in odontogenesis of dentin-containing tooth PubMed 
acts_upstream_of oligodendrocyte differentiation PubMed 
involved_in positive regulation of DNA-templated transcription  
involved_in positive regulation of DNA-templated transcription PubMed 
involved_in positive regulation of cell population proliferation PubMed 
involved_in positive regulation of cell population proliferation  
acts_upstream_of_or_within positive regulation of oligodendrocyte differentiation PubMed 
acts_upstream_of positive regulation of signaling receptor activity  
involved_in positive regulation of stem cell population maintenance PubMed 
involved_in positive regulation of transcription by RNA polymerase II  
involved_in positive regulation of transcription by RNA polymerase II  
involved_in protein deacetylation  
involved_in regulation of cell fate specification PubMed 
involved_in regulation of stem cell differentiation PubMed 
involved_in regulation of transcription by RNA polymerase II  
Items 1 - 25 of 53
Items 1 - 20 of 28
Component Evidence Code Pubs
part_of NuRD complex  
part_of NuRD complex PubMed 
part_of NuRD complex PubMed 
part_of NuRD complex  
part_of NuRD complex PubMed 
part_of Sin3-type complex  
part_of Sin3-type complex PubMed 
located_in chromatin PubMed 
located_in chromatin  
located_in cytoplasm PubMed 
located_in cytosol  
located_in cytosol  
located_in heterochromatin PubMed 
part_of histone deacetylase complex PubMed 
part_of histone deacetylase complex  
part_of histone deacetylase complex PubMed 
located_in neuronal cell body PubMed 
located_in nucleoplasm  
located_in nucleoplasm  
located_in nucleus PubMed 
located_in nucleus  
located_in nucleus PubMed 
located_in perinuclear region of cytoplasm  
part_of protein-containing complex PubMed 
part_of protein-containing complex  
part_of transcription regulator complex PubMed 
part_of transcription regulator complex PubMed 
part_of transcription repressor complex PubMed 
Items 1 - 20 of 28

General protein information

Preferred Names
histone deacetylase 1
Names
protein deacetylase HDAC1
protein deacylase HDAC1
protein decrotonylase HDAC1
NP_032254.1

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_008228.3NP_032254.1  histone deacetylase 1

    See identical proteins and their annotated locations for NP_032254.1

    Status: VALIDATED

    Source sequence(s)
    AL606921
    Consensus CDS
    CCDS18696.1
    UniProtKB/Swiss-Prot
    O09106, P97476
    UniProtKB/TrEMBL
    Q58E49
    Related
    ENSMUSP00000099657.5, ENSMUST00000102597.5
    Conserved Domains (1) summary
    cd10010
    Location:4374
    HDAC1; Histone deacetylase 1 (HDAC1)

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_000070.7 Reference GRCm39 C57BL/6J

    Range
    129409897..129436516 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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