Hdac4 (histone deacetylase 4) - Rat Genome Database

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Gene: Hdac4 (histone deacetylase 4) Ictidomys tridecemlineatus
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Symbol: Hdac4
Name: histone deacetylase 4
RGD ID: 12647806
Description: ENCODES a protein that exhibits chromatin binding (ortholog); DNA binding (ortholog); DNA-binding transcription factor binding (ortholog); INVOLVED IN cellular response to mechanical stimulus (ortholog); cellular response to parathyroid hormone stimulus (ortholog); cellular response to tumor necrosis factor (ortholog); PARTICIPATES IN calcium/calmodulin dependent kinase 2 signaling pathway; histone modification pathway; ASSOCIATED WITH acute lymphoblastic leukemia (ortholog); amyotrophic lateral sclerosis (ortholog); aortic aneurysm (ortholog); FOUND IN A band (ortholog); actomyosin (ortholog); cytoplasm (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Also known as: histone deacetylase 4, transcript variant X1; histone deacetylase 4, transcript variant X2; histone deacetylase 4, transcript variant X3; histone deacetylase 4, transcript variant X4
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405303191,277,349 - 191,488,700 (-)NCBI
SpeTri2.0NW_0049367451,730,743 - 1,942,071 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
cellular response to mechanical stimulus  (ISO)
cellular response to parathyroid hormone stimulus  (ISO)
cellular response to tumor necrosis factor  (ISO)
chromatin remodeling  (ISO)
histone deacetylation  (ISO)
histone H3 deacetylation  (ISO)
histone H4 deacetylation  (ISO)
negative regulation of cell population proliferation  (ISO)
negative regulation of DNA-binding transcription factor activity  (ISO)
negative regulation of glycolytic process  (ISO)
negative regulation of myotube differentiation  (ISO)
negative regulation of osteoblast differentiation  (ISO)
negative regulation of pri-miRNA transcription by RNA polymerase II  (ISO)
negative regulation of transcription by RNA polymerase II  (ISO)
negative regulation of transcription, DNA-templated  (ISO)
osteoblast development  (ISO)
peptidyl-lysine deacetylation  (ISO)
positive regulation of cell population proliferation  (ISO)
positive regulation of DNA-binding transcription factor activity  (ISO)
positive regulation of lamellipodium assembly  (ISO)
positive regulation of male mating behavior  (ISO)
positive regulation of neuron apoptotic process  (ISO)
positive regulation of protein sumoylation  (ISO)
positive regulation of reactive oxygen species biosynthetic process  (ISO)
positive regulation of smooth muscle cell migration  (ISO)
positive regulation of smooth muscle cell proliferation  (ISO)
positive regulation of transcription by RNA polymerase II  (ISO)
positive regulation of transcription, DNA-templated  (ISO)
protein deacetylation  (ISO)
regulation of cardiac muscle contraction by calcium ion signaling  (ISO)
regulation of gene expression, epigenetic  (ISO)
regulation of protein binding  (ISO)
regulation of skeletal muscle fiber development  (ISO)
regulation of striated muscle cell differentiation  (ISO)
response to denervation involved in regulation of muscle adaptation  (ISO)
response to interleukin-1  (ISO)
response to xenobiotic stimulus  (ISO)
skeletal system development  (ISO)

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Genomics

Comparative Map Data
Hdac4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405303191,277,349 - 191,488,700 (-)NCBI
SpeTri2.0NW_0049367451,730,743 - 1,942,071 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HDAC4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2239,048,168 - 239,401,654 (-)EnsemblGRCh38hg38GRCh38
GRCh382239,048,168 - 239,401,649 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh372239,969,864 - 240,323,343 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362239,634,801 - 239,987,580 (-)NCBINCBI36hg18NCBI36
Build 342239,706,635 - 240,058,897NCBI
Celera2233,665,663 - 234,017,808 (-)NCBI
Cytogenetic Map2q37.3NCBI
HuRef2231,741,321 - 232,092,211 (-)NCBIHuRef
CHM1_12239,975,706 - 240,328,679 (-)NCBICHM1_1
Hdac4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39191,856,501 - 92,123,424 (-)NCBIGRCm39mm39
GRCm39 Ensembl191,856,501 - 92,123,421 (-)Ensembl
GRCm38191,928,779 - 92,195,702 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl191,928,779 - 92,195,699 (-)EnsemblGRCm38mm10GRCm38
MGSCv37193,829,311 - 94,044,970 (-)NCBIGRCm37mm9NCBIm37
MGSCv36193,763,140 - 93,978,799 (-)NCBImm8
Celera194,870,648 - 95,086,759 (-)NCBICelera
Cytogenetic Map1DNCBI
Hdac4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2992,503,467 - 92,750,164 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl992,507,611 - 92,750,164 (-)Ensembl
Rnor_6.0999,052,945 - 99,299,715 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl999,057,089 - 99,299,715 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0998,727,262 - 98,973,829 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4991,147,435 - 91,389,810 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1991,421,635 - 91,447,796 (+)NCBI
Celera990,047,090 - 90,289,214 (-)NCBICelera
Cytogenetic Map9q36NCBI
Hdac4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555421,629,691 - 1,886,210 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555421,629,691 - 1,886,160 (+)NCBIChiLan1.0ChiLan1.0
HDAC4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12B245,123,061 - 245,428,441 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B245,123,061 - 245,427,054 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02B126,287,745 - 126,649,815 (-)NCBIMhudiblu_PPA_v0panPan3
HDAC4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12549,318,621 - 49,545,314 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2549,317,349 - 49,453,478 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2549,810,705 - 50,083,929 (-)NCBI
ROS_Cfam_1.02549,702,537 - 49,976,665 (-)NCBI
UMICH_Zoey_3.12549,576,470 - 49,848,695 (-)NCBI
UNSW_CanFamBas_1.02549,364,978 - 49,638,565 (-)NCBI
UU_Cfam_GSD_1.02549,597,454 - 49,869,914 (-)NCBI
HDAC4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl15138,381,627 - 138,614,301 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.115138,378,237 - 138,657,266 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.215152,920,983 - 153,035,106 (+)NCBISscrofa10.2Sscrofa10.2susScr3
HDAC4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.110125,098,375 - 125,450,524 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl10125,098,366 - 125,403,227 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604073,947,227 - 74,329,237 (+)NCBIVero_WHO_p1.0
Hdac4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248473,846,196 - 4,101,537 (-)NCBIHetGla_female_1.0hetGla2


Expression


Sequence


Reference Sequences
RefSeq Acc Id: XM_013364898   ⟹   XP_013220352
RefSeq Status:
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024405303191,277,349 - 191,488,700 (-)NCBI
SpeTri2.0NW_0049367451,730,743 - 1,942,071 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021719627   ⟹   XP_021575302
RefSeq Status:
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024405303191,277,349 - 191,488,700 (-)NCBI
SpeTri2.0NW_0049367451,730,743 - 1,942,071 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021719628   ⟹   XP_021575303
RefSeq Status:
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024405303191,277,349 - 191,488,700 (-)NCBI
SpeTri2.0NW_0049367451,730,743 - 1,942,071 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021719629   ⟹   XP_021575304
RefSeq Status:
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024405303191,277,349 - 191,488,700 (-)NCBI
SpeTri2.0NW_0049367451,730,743 - 1,942,071 (+)NCBI
Sequence:
RefSeq Acc Id: XM_040268140   ⟹   XP_040124074
RefSeq Status:
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024405303191,277,349 - 191,488,700 (-)NCBI
RefSeq Acc Id: XM_040268141   ⟹   XP_040124075
RefSeq Status:
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024405303191,277,349 - 191,488,700 (-)NCBI
RefSeq Acc Id: XM_040268142   ⟹   XP_040124076
RefSeq Status:
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024405303191,277,349 - 191,433,732 (-)NCBI
RefSeq Acc Id: XM_040268143   ⟹   XP_040124077
RefSeq Status:
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024405303191,277,349 - 191,382,771 (-)NCBI
Reference Sequences
RefSeq Acc Id: XP_013220352   ⟸   XM_013364898
- Peptide Label: isoform X3
- UniProtKB: A0A287CZK7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_021575302   ⟸   XM_021719627
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_021575303   ⟸   XM_021719628
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_021575304   ⟸   XM_021719629
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_040124075   ⟸   XM_040268141
- Peptide Label: isoform X5
RefSeq Acc Id: XP_040124074   ⟸   XM_040268140
- Peptide Label: isoform X2
RefSeq Acc Id: XP_040124076   ⟸   XM_040268142
- Peptide Label: isoform X7
RefSeq Acc Id: XP_040124077   ⟸   XM_040268143
- Peptide Label: isoform X8


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000011115 ENTREZGENE
Ensembl Protein ENSSTOP00000009983 ENTREZGENE
  ENSSTOP00000026706 ENTREZGENE
NCBI Gene Hdac4 ENTREZGENE
UniProt A0A287CZK7 ENTREZGENE