Hdac3 (histone deacetylase 3) - Rat Genome Database

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Gene: Hdac3 (histone deacetylase 3) Heterocephalus glaber
Analyze
Symbol: Hdac3
Name: histone deacetylase 3
RGD ID: 18913534
Description: ENCODES a protein that exhibits chromatin binding (ortholog); chromatin DNA binding (ortholog); cyclin binding (ortholog); INVOLVED IN cellular response to fluid shear stress (ortholog); cellular response to mechanical stimulus (ortholog); cellular response to parathyroid hormone stimulus (ortholog); PARTICIPATES IN histone modification pathway; ASSOCIATED WITH acute kidney failure (ortholog); adenocarcinoma (ortholog); Anaphylaxis (ortholog); FOUND IN chromatin (ortholog); cytoplasm (ortholog); cytosol (ortholog)
Type: protein-coding
RefSeq Status: MODEL
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: HetGla 1.0 - Naked Mole-Rat female 1.0 Assembly
Position:
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624774845,358 - 863,809 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624774845,970 - 864,080 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
cellular response to fluid shear stress  (ISO)
cellular response to mechanical stimulus  (ISO)
cellular response to parathyroid hormone stimulus  (ISO)
chromatin organization  (IEA)
circadian regulation of gene expression  (ISO)
cornified envelope assembly  (ISO)
DNA repair-dependent chromatin remodeling  (ISO)
epidermis development  (ISO)
epigenetic regulation of gene expression  (IEA)
establishment of mitotic spindle orientation  (ISO)
establishment of skin barrier  (ISO)
gene expression  (ISO)
in utero embryonic development  (ISO)
negative regulation of cardiac muscle cell differentiation  (ISO)
negative regulation of DNA-binding transcription factor activity  (ISO)
negative regulation of DNA-templated transcription  (IEA)
negative regulation of interleukin-1 production  (ISO)
negative regulation of JNK cascade  (ISO)
negative regulation of myotube differentiation  (ISO)
negative regulation of protein export from nucleus  (ISO)
negative regulation of transcription by RNA polymerase II  (ISO)
negative regulation of tumor necrosis factor production  (ISO)
neural precursor cell proliferation  (ISO)
positive regulation of cold-induced thermogenesis  (ISO)
positive regulation of neuron apoptotic process  (ISO)
positive regulation of protein import into nucleus  (ISO)
positive regulation of protein phosphorylation  (ISO)
positive regulation of protein ubiquitination  (ISO)
positive regulation of TOR signaling  (ISO)
positive regulation of transcription by RNA polymerase II  (ISO)
positive regulation of type B pancreatic cell apoptotic process  (ISO)
protein deacetylation  (ISO)
protein modification process  (ISO)
random inactivation of X chromosome  (ISO)
regulation of circadian rhythm  (ISO)
regulation of mitotic cell cycle  (ISO)
regulation of multicellular organism growth  (ISO)
regulation of protein stability  (ISO)
response to dexamethasone  (ISO)
response to nutrient levels  (ISO)
response to xenobiotic stimulus  (ISO)
rhythmic process  (IEA)
spindle assembly  (ISO)
transcription by RNA polymerase II  (ISO)

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:21993625   PMID:22301074  


Genomics

Comparative Map Data
Hdac3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624774845,358 - 863,809 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624774845,970 - 864,080 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2
HDAC3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh385141,620,881 - 141,636,849 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl5141,620,876 - 141,636,849 (-)EnsemblGRCh38hg38GRCh38
GRCh375141,000,448 - 141,016,416 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 365140,980,627 - 140,996,607 (-)NCBINCBI36Build 36hg18NCBI36
Build 345140,980,626 - 140,996,596NCBI
Celera5137,077,171 - 137,093,151 (-)NCBICelera
Cytogenetic Map5q31.3NCBI
HuRef5136,145,083 - 136,160,930 (-)NCBIHuRef
CHM1_15140,433,725 - 140,449,704 (-)NCBICHM1_1
T2T-CHM13v2.05142,146,886 - 142,162,855 (-)NCBIT2T-CHM13v2.0
Hdac3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391838,070,024 - 38,088,073 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1838,068,897 - 38,088,069 (-)EnsemblGRCm39 Ensembl
GRCm381837,936,971 - 37,955,015 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1837,935,844 - 37,955,016 (-)EnsemblGRCm38mm10GRCm38
MGSCv371838,096,625 - 38,114,642 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361838,062,953 - 38,080,909 (-)NCBIMGSCv36mm8
Celera1839,280,295 - 39,298,302 (-)NCBICelera
Cytogenetic Map18B3NCBI
cM Map1819.81NCBI
Hdac3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81830,021,847 - 30,041,061 (-)NCBIGRCr8
mRatBN7.21829,770,637 - 29,789,850 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1829,770,636 - 29,793,856 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1829,874,943 - 29,894,123 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01830,636,921 - 30,656,319 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01829,972,266 - 29,991,665 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01831,073,057 - 31,094,347 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1831,073,058 - 31,094,303 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01830,764,344 - 30,782,387 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41830,857,209 - 30,875,986 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11830,883,855 - 30,902,632 (-)NCBI
Celera1829,414,681 - 29,434,382 (-)NCBICelera
Cytogenetic Map18p11NCBI
Hdac3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541512,138,870 - 12,154,234 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495541512,138,520 - 12,154,234 (+)NCBIChiLan1.0ChiLan1.0
HDAC3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v24136,869,766 - 136,885,755 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan15135,009,317 - 135,025,306 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v05136,981,790 - 136,997,786 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.15143,094,406 - 143,110,322 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl5143,094,406 - 143,110,322 (-)Ensemblpanpan1.1panPan2
HDAC3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1236,583,283 - 36,598,121 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl236,583,283 - 36,597,682 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha233,635,234 - 33,650,086 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0237,037,462 - 37,052,393 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl237,037,381 - 37,052,025 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1234,112,034 - 34,126,890 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0234,923,559 - 34,938,422 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0235,730,823 - 35,745,706 (-)NCBIUU_Cfam_GSD_1.0
Hdac3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213150,956,557 - 150,972,579 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493650412,530,528 - 12,546,556 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493650412,530,546 - 12,546,556 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HDAC3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl2143,273,192 - 143,287,399 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.12143,273,188 - 143,287,421 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.22149,475,764 - 149,490,030 (-)NCBISscrofa10.2Sscrofa10.2susScr3
HDAC3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12344,246,296 - 44,263,127 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366603433,589,487 - 33,606,357 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSHGLT00000010167   ⟹   ENSHGLP00000010056
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_004624774845,358 - 863,809 (-)Ensembl
RefSeq Acc Id: XM_004854289   ⟹   XP_004854346
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_004624774845,970 - 863,835 (-)NCBI
RefSeq Acc Id: XM_013075741   ⟹   XP_012931195
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_004624774845,970 - 864,080 (-)NCBI
Protein Sequences
Protein RefSeqs XP_004854346 (Get FASTA)   NCBI Sequence Viewer  
  XP_012931195 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EHA99369 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSHGLP00000010056
  ENSHGLP00100035391
GenBank Protein JAN99517 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: XP_012931195   ⟸   XM_013075741
- Peptide Label: isoform X2
RefSeq Acc Id: XP_004854346   ⟸   XM_004854289
- Peptide Label: isoform X1
- UniProtKB: G5AQQ9 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSHGLP00000010056   ⟸   ENSHGLT00000010167


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSHGLG00000007216 Ensembl, ENTREZGENE
  ENSHGLG00100010179 UniProtKB/TrEMBL
Ensembl Transcript ENSHGLT00000010167 ENTREZGENE
  ENSHGLT00100076645 UniProtKB/TrEMBL
Gene3D-CATH 3.40.800.20 UniProtKB/TrEMBL
InterPro HDAC_PDAC UniProtKB/TrEMBL
  His_deacetylse UniProtKB/TrEMBL
  His_deacetylse_1 UniProtKB/TrEMBL
  His_deacetylse_dom UniProtKB/TrEMBL
  His_deacetylse_dom_sf UniProtKB/TrEMBL
  Ureohydrolase_dom_sf UniProtKB/TrEMBL
KEGG Report hgl:101708680 UniProtKB/TrEMBL
NCBI Gene Hdac3 ENTREZGENE
PANTHER HISTONE DEACETYLASE 3 UniProtKB/TrEMBL
  HISTONE DEACETYLASE HDAC1-RELATED UniProtKB/TrEMBL
Pfam Hist_deacetyl UniProtKB/TrEMBL
PIRSF His_deacetylse_1 UniProtKB/TrEMBL
PRINTS HDASUPER UniProtKB/TrEMBL
  HISDACETLASE UniProtKB/TrEMBL
Superfamily-SCOP SSF52768 UniProtKB/TrEMBL
UniProt G5AQQ9 ENTREZGENE, UniProtKB/TrEMBL