Hdac1 (histone deacetylase 1) - Rat Genome Database

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Gene: Hdac1 (histone deacetylase 1) Ictidomys tridecemlineatus
Analyze
Symbol: Hdac1
Name: histone deacetylase 1
RGD ID: 12680295
Description: ENCODES a protein that exhibits chromatin binding (ortholog); core promoter sequence-specific DNA binding (ortholog); deacetylase activity (ortholog); INVOLVED IN cellular response to oxidative stress (ortholog); cellular response to tumor necrosis factor (ortholog); circadian regulation of gene expression (ortholog); PARTICIPATES IN CHD family mediated chromatin remodeling pathway; Hedgehog signaling pathway; histone modification pathway; ASSOCIATED WITH acute lymphoblastic leukemia (ortholog); alopecia areata (ortholog); breast carcinoma (ortholog); FOUND IN chromatin (ortholog); cytosol (ortholog); heterochromatin (ortholog)
Type: protein-coding
RefSeq Status: MODEL
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_02440505849,495,732 - 49,526,636 (+)NCBI
SpeTri2.0NW_00493647415,320,635 - 15,351,418 (+)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 oxidative stress  (ISO)
cellular response to tumor necrosis factor  (ISO)
circadian regulation of gene expression  (ISO)
circadian rhythm  (ISO)
DNA methylation-dependent heterochromatin assembly  (ISO)
embryonic digit morphogenesis  (ISO)
endoderm development  (ISO)
epidermal cell differentiation  (ISO)
eyelid development in camera-type eye  (ISO)
fungiform papilla formation  (ISO)
hair follicle placode formation  (ISO)
hippocampus development  (ISO)
histone deacetylation  (ISO)
histone H3 deacetylation  (ISO)
histone H4 deacetylation  (ISO)
negative regulation by host of viral transcription  (ISO)
negative regulation of androgen receptor signaling pathway  (ISO)
negative regulation of apoptotic process  (ISO)
negative regulation of canonical Wnt signaling pathway  (ISO)
negative regulation of cell population proliferation  (ISO)
negative regulation of gene expression  (ISO)
negative regulation of I-kappaB kinase/NF-kappaB signaling  (ISO)
negative regulation of insulin secretion  (ISO)
negative regulation of intrinsic apoptotic signaling pathway  (ISO)
negative regulation of myotube differentiation  (ISO)
negative regulation of neuron apoptotic process  (ISO)
negative regulation of peptidyl-lysine acetylation  (ISO)
negative regulation of transcription by RNA polymerase II  (ISO)
negative regulation of transcription, DNA-templated  (ISO)
neuron differentiation  (ISO)
odontogenesis of dentin-containing tooth  (ISO)
positive regulation of cell population proliferation  (ISO)
positive regulation of chemokine (C-X-C motif) ligand 2 production  (ISO)
positive regulation of interleukin-1 production  (ISO)
positive regulation of oligodendrocyte differentiation  (ISO)
positive regulation of signaling receptor activity  (ISO)
positive regulation of transcription by RNA polymerase II  (ISO)
positive regulation of transcription, DNA-templated  (ISO)
positive regulation of tumor necrosis factor production  (ISO)
positive regulation of type B pancreatic cell apoptotic process  (ISO)
positive regulation of tyrosine phosphorylation of STAT protein  (ISO)
protein deacetylation  (ISO)
regulation of endopeptidase activity  (ISO)
regulation of transcription by RNA polymerase II  (ISO)
response to amphetamine  (ISO)
response to caffeine  (ISO)
response to drug  (ISO)
response to hyperoxia  (ISO)
response to lipopolysaccharide  (ISO)

References

Genomics

Comparative Map Data
Hdac1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505849,495,732 - 49,526,636 (+)NCBI
SpeTri2.0NW_00493647415,320,635 - 15,351,418 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HDAC1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl132,292,083 - 32,333,635 (+)EnsemblGRCh38hg38GRCh38
GRCh38132,292,083 - 32,333,628 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37132,757,684 - 32,799,227 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36132,530,295 - 32,571,811 (+)NCBINCBI36hg18NCBI36
Build 34132,426,800 - 32,468,317NCBI
Celera131,028,175 - 31,069,691 (+)NCBI
Cytogenetic Map1p35.2-p35.1NCBI
HuRef130,873,184 - 30,914,532 (+)NCBIHuRef
CHM1_1132,873,153 - 32,914,668 (+)NCBICHM1_1
Hdac1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm394129,409,897 - 129,436,439 (-)NCBIGRCm39mm39
GRCm39 Ensembl4129,409,897 - 129,436,506 (-)Ensembl
GRCm384129,516,104 - 129,542,646 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl4129,516,104 - 129,542,713 (-)EnsemblGRCm38mm10GRCm38
MGSCv374129,193,348 - 129,219,890 (-)NCBIGRCm37mm9NCBIm37
MGSCv364129,018,408 - 129,044,950 (-)NCBImm8
Celera1782,795,228 - 82,797,813 (+)NCBICelera
Cytogenetic Map4D2.2NCBI
cM Map463.26NCBI
Hdac1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.25141,853,992 - 141,881,057 (-)NCBI
Rnor_6.0 Ensembl5147,716,664 - 147,743,723 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.05147,716,664 - 147,743,723 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.05151,445,686 - 151,472,652 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45148,672,515 - 148,699,810 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.15148,682,553 - 148,709,849 (-)NCBI
Celera5140,329,254 - 140,356,320 (-)NCBICelera
Cytogenetic Map5q36NCBI
Hdac1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495545210,636,366 - 10,670,864 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495545210,636,366 - 10,668,873 (+)NCBIChiLan1.0ChiLan1.0
HDAC1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1132,585,791 - 32,626,408 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl132,585,791 - 32,626,410 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0131,578,373 - 31,619,970 (+)NCBIMhudiblu_PPA_v0panPan3
HDAC1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1268,901,339 - 68,936,473 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl268,901,651 - 68,936,186 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha265,482,127 - 65,517,259 (-)NCBI
ROS_Cfam_1.0269,467,855 - 69,503,012 (-)NCBI
UMICH_Zoey_3.1266,304,797 - 66,339,911 (-)NCBI
UNSW_CanFamBas_1.0267,300,918 - 67,335,502 (-)NCBI
UU_Cfam_GSD_1.0268,299,008 - 68,334,559 (-)NCBI
HDAC1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl688,749,634 - 88,785,412 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1688,749,611 - 88,785,220 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2682,882,080 - 82,907,607 (-)NCBISscrofa10.2Sscrofa10.2susScr3
HDAC1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.120100,529,782 - 100,575,953 (-)NCBI
Hdac1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462476415,510,655 - 15,552,020 (+)NCBI


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts XM_005318092 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JAESOR010000117 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: XM_005318092   ⟹   XP_005318149
RefSeq Status:
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440505849,495,732 - 49,526,636 (+)NCBI
SpeTri2.0NW_00493647415,320,635 - 15,351,418 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_005318149 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_005318149   ⟸   XM_005318092
- Sequence:


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000012082 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSSTOP00000010833 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000012080 UniProtKB/TrEMBL
Gene3D-CATH 3.40.800.20 UniProtKB/TrEMBL
InterPro 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
NCBI Gene Hdac1 ENTREZGENE
Pfam Hist_deacetyl UniProtKB/TrEMBL
PIRSF His_deacetylse_1 UniProtKB/TrEMBL
PRINTS HDASUPER UniProtKB/TrEMBL
  HISDACETLASE UniProtKB/TrEMBL
Superfamily-SCOP SSF52768 UniProtKB/TrEMBL
UniProt I3MII7_ICTTR UniProtKB/TrEMBL