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HDAC7 histone deacetylase 7 [ Homo sapiens (human) ]

Gene ID: 51564, updated on 25-Jan-2024

Summary

Official Symbol
HDAC7provided by HGNC
Official Full Name
histone deacetylase 7provided by HGNC
Primary source
HGNC:HGNC:14067
See related
Ensembl:ENSG00000061273 MIM:606542; AllianceGenome:HGNC:14067
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
HD7; HD7A; HDAC7A
Summary
Histones play a critical role in transcriptional regulation, cell cycle progression, and developmental events. Histone acetylation/deacetylation alters chromosome structure and affects transcription factor access to DNA. The protein encoded by this gene has sequence homology to members of the histone deacetylase family. This gene is orthologous to mouse HDAC7 gene whose protein promotes repression mediated via the transcriptional corepressor SMRT. Alternatively spliced transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jul 2008]
Expression
Ubiquitous expression in lung (RPKM 18.9), spleen (RPKM 18.4) and 25 other tissues See more
Orthologs
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Genomic context

See HDAC7 in Genome Data Viewer
Location:
12q13.11
Exon count:
32
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 12 NC_000012.12 (47782722..47821344, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 12 NC_060936.1 (47744115..47782739, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (48176505..48213686, complement)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene RPAP3 divergent transcript Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6258 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6259 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4394 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4395 Neighboring gene endonuclease, poly(U) specific Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr12:48131928-48133127 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6260 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6261 Neighboring gene Rap guanine nucleotide exchange factor 3 Neighboring gene H3K27ac hESC enhancer GRCh37_chr12:48146243-48146784 Neighboring gene Sharpr-MPRA regulatory region 8178 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6262 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6263 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:48151874-48152542 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:48152543-48153211 Neighboring gene solute carrier family 48 member 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:48167242-48167748 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:48167749-48168253 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4398 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4399 Neighboring gene uncharacterized LOC124902926 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6264 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4400 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6266 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6265 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6267 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:48211237-48211897 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:48212615-48213188 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4402 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4403 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:48214527-48215448 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6268 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6269 Neighboring gene long intergenic non-protein coding RNA 2354 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:48236992-48237565 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:48237566-48238138 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:48239663-48240164 Neighboring gene vitamin D receptor Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:48262276-48262776 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6271 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6272 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:48276324-48276836 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6273 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6274 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6275 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6276 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4404

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

EBI GWAS Catalog

Description
Genome-wide association analyses identify 18 new loci associated with serum urate concentrations.
EBI GWAS Catalog
Host-microbe interactions have shaped the genetic architecture of inflammatory bowel disease.
EBI GWAS Catalog
Novel genetic loci identified for the pathophysiology of childhood obesity in the Hispanic population.
EBI GWAS Catalog

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
matrix gag HIV-1 MA downregulates HDAC7 gene expression in HepG2 cells PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Clone Names

  • FLJ99588, DKFZp586J0917

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables 14-3-3 protein binding IDA
Inferred from Direct Assay
more info
PubMed 
enables DNA-binding transcription factor binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables SUMO transferase activity TAS
Traceable Author Statement
more info
 
enables chromatin binding IEA
Inferred from Electronic Annotation
more info
 
enables histone deacetylase activity ISS
Inferred from Sequence or Structural Similarity
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 IPI
Inferred from Physical Interaction
more info
PubMed 
enables protein kinase binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables protein lysine deacetylase activity IDA
Inferred from Direct Assay
more info
PubMed 
enables transcription corepressor activity IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
located_in cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
located_in cytosol IDA
Inferred from Direct Assay
more info
 
located_in nucleoplasm TAS
Traceable Author Statement
more info
 
located_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
histone deacetylase 7
Names
histone deacetylase 7A
NP_001091886.1
NP_001295019.1
NP_001354975.1
NP_056216.2
XP_011536782.1
XP_011536783.2
XP_011536785.1
XP_024304786.1
XP_047284934.1
XP_047284935.1
XP_047284936.1
XP_047284937.1
XP_047284938.1
XP_047284939.1
XP_047284940.1
XP_054228219.1
XP_054228220.1
XP_054228221.1
XP_054228222.1
XP_054228223.1
XP_054228224.1
XP_054228225.1
XP_054228226.1
XP_054228227.1
XP_054228228.1
XP_054228229.1

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_001098416.4NP_001091886.1  histone deacetylase 7 isoform d

    See identical proteins and their annotated locations for NP_001091886.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) lacks an alternate in-frame exon in the mid-coding region, compared to variant 1. The resulting isoform (d) has the same N- and C-termini but is shorter than isoform a.
    Source sequence(s)
    BC020505, BC064840, DC376749
    Consensus CDS
    CCDS41776.1
    UniProtKB/TrEMBL
    J3KPH8
    Related
    ENSP00000351326.3, ENST00000354334.7
    Conserved Domains (1) summary
    cd10008
    Location:520897
    HDAC7; Histone deacetylase 7
  2. NM_001308090.2NP_001295019.1  histone deacetylase 7 isoform e

    See identical proteins and their annotated locations for NP_001295019.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) lacks an alternate in-frame exon in the 5' coding region, compared to variant 1. The resulting isoform (e) has the same N- and C-termini but is shorter than isoform a.
    Source sequence(s)
    AK122588, AK299292, AK303481, BM144303, DC376749
    Consensus CDS
    CCDS81685.1
    UniProtKB/TrEMBL
    J3KPH8
    Related
    ENSP00000448532.1, ENST00000552960.5
    Conserved Domains (1) summary
    cd10008
    Location:540917
    HDAC7; Histone deacetylase 7
  3. NM_001368046.1NP_001354975.1  histone deacetylase 7 isoform f

    Status: REVIEWED

    Description
    Transcript Variant: This variant (6) encodes the longest isoform (f).
    Source sequence(s)
    AC004466
    UniProtKB/TrEMBL
    J3KPH8
  4. NM_015401.5NP_056216.2  histone deacetylase 7 isoform a

    See identical proteins and their annotated locations for NP_056216.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1, also known as variant 3) encodes isoform a (also known as isoform c).
    Source sequence(s)
    AY302468, BC020505, DC376749
    Consensus CDS
    CCDS8756.2
    UniProtKB/TrEMBL
    J3KPH8
    Related
    ENSP00000080059.7, ENST00000080059.12
    Conserved Domains (1) summary
    cd10008
    Location:557934
    HDAC7; Histone deacetylase 7

RNA

  1. NR_160435.1 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AC004466
    Related
    ENST00000470668.5
  2. NR_160436.1 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AC004466

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000012.12 Reference GRCh38.p14 Primary Assembly

    Range
    47782722..47821344 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047428980.1XP_047284936.1  histone deacetylase 7 isoform X6

    UniProtKB/TrEMBL
    J3KPH8
  2. XM_047428979.1XP_047284935.1  histone deacetylase 7 isoform X5

    UniProtKB/TrEMBL
    J3KPH8
  3. XM_011538481.2XP_011536783.2  histone deacetylase 7 isoform X1

    UniProtKB/TrEMBL
    J3KPH8
  4. XM_047428983.1XP_047284939.1  histone deacetylase 7 isoform X9

    UniProtKB/TrEMBL
    J3KPH8
  5. XM_047428978.1XP_047284934.1  histone deacetylase 7 isoform X2

    UniProtKB/TrEMBL
    J3KPH8
  6. XM_024449018.2XP_024304786.1  histone deacetylase 7 isoform X3

    UniProtKB/TrEMBL
    J3KPH8
    Conserved Domains (1) summary
    cd10008
    Location:564941
    HDAC7; Histone deacetylase 7
  7. XM_047428981.1XP_047284937.1  histone deacetylase 7 isoform X7

    UniProtKB/TrEMBL
    J3KPH8
  8. XM_011538480.1XP_011536782.1  histone deacetylase 7 isoform X4

    UniProtKB/TrEMBL
    J3KPH8
    Conserved Domains (1) summary
    cd10008
    Location:564941
    HDAC7; Histone deacetylase 7
  9. XM_047428982.1XP_047284938.1  histone deacetylase 7 isoform X8

    UniProtKB/Swiss-Prot
    B3KY08, B4DWI0, B4E0Q5, Q6P1W9, Q6W9G7, Q7Z4K2, Q7Z5I1, Q8WUI4, Q96K01, Q9BR73, Q9H7L0, Q9NW41, Q9NWA9, Q9NYK9, Q9UFU7
    UniProtKB/TrEMBL
    J3KPH8
    Related
    ENSP00000404394.2, ENST00000427332.6
  10. XM_047428984.1XP_047284940.1  histone deacetylase 7 isoform X8

    UniProtKB/Swiss-Prot
    B3KY08, B4DWI0, B4E0Q5, Q6P1W9, Q6W9G7, Q7Z4K2, Q7Z5I1, Q8WUI4, Q96K01, Q9BR73, Q9H7L0, Q9NW41, Q9NWA9, Q9NYK9, Q9UFU7
    UniProtKB/TrEMBL
    J3KPH8
  11. XM_011538483.1XP_011536785.1  histone deacetylase 7 isoform X10

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060936.1 Alternate T2T-CHM13v2.0

    Range
    47744115..47782739 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054372249.1XP_054228224.1  histone deacetylase 7 isoform X6

    UniProtKB/TrEMBL
    J3KPH8
  2. XM_054372248.1XP_054228223.1  histone deacetylase 7 isoform X5

    UniProtKB/TrEMBL
    J3KPH8
  3. XM_054372244.1XP_054228219.1  histone deacetylase 7 isoform X1

    UniProtKB/TrEMBL
    J3KPH8
  4. XM_054372252.1XP_054228227.1  histone deacetylase 7 isoform X9

    UniProtKB/TrEMBL
    J3KPH8
  5. XM_054372245.1XP_054228220.1  histone deacetylase 7 isoform X2

    UniProtKB/TrEMBL
    J3KPH8
  6. XM_054372246.1XP_054228221.1  histone deacetylase 7 isoform X3

    UniProtKB/TrEMBL
    J3KPH8
  7. XM_054372250.1XP_054228225.1  histone deacetylase 7 isoform X7

    UniProtKB/TrEMBL
    J3KPH8
  8. XM_054372247.1XP_054228222.1  histone deacetylase 7 isoform X4

    UniProtKB/TrEMBL
    J3KPH8
  9. XM_054372251.1XP_054228226.1  histone deacetylase 7 isoform X8

    UniProtKB/Swiss-Prot
    B3KY08, B4DWI0, B4E0Q5, Q6P1W9, Q6W9G7, Q7Z4K2, Q7Z5I1, Q8WUI4, Q96K01, Q9BR73, Q9H7L0, Q9NW41, Q9NWA9, Q9NYK9, Q9UFU7
    UniProtKB/TrEMBL
    J3KPH8
  10. XM_054372253.1XP_054228228.1  histone deacetylase 7 isoform X8

    UniProtKB/Swiss-Prot
    B3KY08, B4DWI0, B4E0Q5, Q6P1W9, Q6W9G7, Q7Z4K2, Q7Z5I1, Q8WUI4, Q96K01, Q9BR73, Q9H7L0, Q9NW41, Q9NWA9, Q9NYK9, Q9UFU7
    UniProtKB/TrEMBL
    J3KPH8
  11. XM_054372254.1XP_054228229.1  histone deacetylase 7 isoform X10

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_016596.3: Suppressed sequence

    Description
    NM_016596.3: This RefSeq was temporarily suppressed because the CDS was partial.