HDAC4 (histone deacetylase 4) - Rat Genome Database

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Gene: HDAC4 (histone deacetylase 4) Sus scrofa
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Symbol: HDAC4
Name: histone deacetylase 4
RGD ID: 13966660
Description: ENCODES a protein that exhibits DNA binding (ortholog); DNA-binding transcription factor binding (ortholog); histone deacetylase activity (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); cytoplasm (ortholog); cytosol (ortholog)
Type: protein-coding
RefSeq Status: MODEL
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
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
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  (IEA)
histone deacetylation  (ISO)
histone H3 deacetylation  (IEA)
histone H4 deacetylation  (IEA)
negative regulation of cell population proliferation  (IEA,ISO)
negative regulation of DNA-binding transcription factor activity  (IEA)
negative regulation of glycolytic process  (IEA)
negative regulation of myotube differentiation  (IEA)
negative regulation of osteoblast differentiation  (IEA,ISO)
negative regulation of pri-miRNA transcription by RNA polymerase II  (IEA)
negative regulation of transcription by RNA polymerase II  (ISO)
negative regulation of transcription, DNA-templated  (ISO)
osteoblast development  (IEA,ISO)
peptidyl-lysine deacetylation  (IEA)
positive regulation of cell population proliferation  (IEA)
positive regulation of DNA-binding transcription factor activity  (IEA)
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  (IEA)
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  (IEA)
positive regulation of transcription, DNA-templated  (ISO)
protein deacetylation  (ISO)
regulation of cardiac muscle contraction by calcium ion signaling  (IEA,ISO)
regulation of gene expression, epigenetic  (IEA)
regulation of protein binding  (IEA)
regulation of skeletal muscle fiber development  (IEA,ISO)
regulation of striated muscle cell differentiation  (ISO)
response to denervation involved in regulation of muscle adaptation  (IEA)
response to interleukin-1  (IEA)
response to xenobiotic stimulus  (ISO)
skeletal system development  (IEA,ISO)

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Genomics

Comparative Map Data
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
(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
(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
(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


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system hemolymphoid system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium
Low 10 4 3 5 2 23 2 3 3
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000027033   ⟹   ENSSSCP00000025173
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl15138,381,627 - 138,483,663 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000063263   ⟹   ENSSSCP00000058348
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl15138,381,635 - 138,614,301 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000089804   ⟹   ENSSSCP00000062701
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl15138,411,997 - 138,581,865 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000090523   ⟹   ENSSSCP00000074232
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl15138,381,627 - 138,483,383 (-)Ensembl
RefSeq Acc Id: XM_021075895   ⟹   XP_020931554
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.115138,378,237 - 138,657,266 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021075896   ⟹   XP_020931555
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.115138,378,237 - 138,657,266 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021075897   ⟹   XP_020931556
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.115138,378,237 - 138,657,266 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021075898   ⟹   XP_020931557
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.115138,378,237 - 138,520,361 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021075899   ⟹   XP_020931558
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.115138,378,237 - 138,657,266 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021075900   ⟹   XP_020931559
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.115138,378,237 - 138,575,940 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: XP_020931558   ⟸   XM_021075899
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_020931555   ⟸   XM_021075896
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_020931556   ⟸   XM_021075897
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_020931554   ⟸   XM_021075895
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_020931559   ⟸   XM_021075900
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_020931557   ⟸   XM_021075898
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: ENSSSCP00000074232   ⟸   ENSSSCT00000090523
RefSeq Acc Id: ENSSSCP00000062701   ⟸   ENSSSCT00000089804
RefSeq Acc Id: ENSSSCP00000025173   ⟸   ENSSSCT00000027033
RefSeq Acc Id: ENSSSCP00000058348   ⟸   ENSSSCT00000063263
Protein Domains
HDAC4_Gln   Hist_deacetyl


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000024777 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSSSCP00000025173 UniProtKB/TrEMBL
  ENSSSCP00000058348 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCP00000062701 UniProtKB/TrEMBL
  ENSSSCP00000074232 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000027033 UniProtKB/TrEMBL
  ENSSSCT00000063263 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCT00000089804 UniProtKB/TrEMBL
  ENSSSCT00000090523 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 3.40.800.20 UniProtKB/TrEMBL
InterPro HDAC4 UniProtKB/TrEMBL
  His_deacetylse UniProtKB/TrEMBL
  His_deacetylse_dom UniProtKB/TrEMBL
  His_deacetylse_dom_sf UniProtKB/TrEMBL
  Hist_deacetylase_Gln_rich_N UniProtKB/TrEMBL
  Histone_deAcase_II_euk UniProtKB/TrEMBL
  Ureohydrolase_dom_sf UniProtKB/TrEMBL
NCBI Gene HDAC4 ENTREZGENE
PANTHER PTHR45364 UniProtKB/TrEMBL
  PTHR45364:SF3 UniProtKB/TrEMBL
Pfam HDAC4_Gln UniProtKB/TrEMBL
  Hist_deacetyl UniProtKB/TrEMBL
PIRSF HDAC_II_euk UniProtKB/TrEMBL
PRINTS HDASUPER UniProtKB/TrEMBL
Superfamily-SCOP SSF52768 UniProtKB/TrEMBL
UniProt A0A287BQF9_PIG UniProtKB/TrEMBL
  A0A5G2QFZ4_PIG UniProtKB/TrEMBL
  A0A5G2RB49_PIG UniProtKB/TrEMBL
  I3LM52_PIG UniProtKB/TrEMBL
VGNC ID VGNC:95602 ENTREZGENE