Hdac1 (histone deacetylase 1) - Rat Genome Database

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Gene: Hdac1 (histone deacetylase 1) Rattus norvegicus
Analyze
Symbol: Hdac1
Name: histone deacetylase 1
RGD ID: 1309799
Description: Enables DNA-binding transcription factor binding activity; chromatin binding activity; and histone deacetylase activity. Involved in several processes, including positive regulation of cytokine production; regulation of apoptotic process; and regulation of protein modification process. Located in several cellular components, including chromatin; neuron projection; and perinuclear region of cytoplasm. Part of protein-containing complex. Biomarker of pulmonary hypertension. Orthologous to human HDAC1 (histone deacetylase 1); PARTICIPATES IN CHD family mediated chromatin remodeling pathway; Hedgehog signaling pathway; histone modification pathway; INTERACTS WITH (S)-nicotine; 2,3,7,8-tetrachlorodibenzodioxine; acrylamide.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: HD1; LOC297893
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Related Pseudogenes: Hdac1-ps12  
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.25141,853,992 - 141,881,057 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl5141,853,989 - 141,881,111 (-)Ensembl
Rnor_6.05147,716,664 - 147,743,723 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5147,716,664 - 147,743,723 (-)EnsemblRnor6.0rn6Rnor6.0
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
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(20S)-ginsenoside Rh2  (ISO)
(S)-nicotine  (EXP,ISO)
1,2-dimethylhydrazine  (ISO)
15-deoxy-Delta(12,14)-prostaglandin J2  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4,6-tribromophenol  (ISO)
3,3'-diindolylmethane  (ISO)
3,4-methylenedioxymethamphetamine  (ISO)
4-phenylbutyric acid  (ISO)
5-aza-2'-deoxycytidine  (ISO)
5-fluorouracil  (ISO)
7,12-dimethyltetraphene  (ISO)
acetylsalicylic acid  (ISO)
acrylamide  (EXP)
aldehydo-D-glucose  (ISO)
all-trans-retinoic acid  (ISO)
allethrin  (EXP)
ammonium chloride  (EXP)
amphetamine  (EXP,ISO)
andrographolide  (ISO)
antirheumatic drug  (ISO)
arsenous acid  (ISO)
aspartame  (ISO)
benomyl  (ISO)
benzamide  (ISO)
benzo[a]pyrene  (EXP,ISO)
benzo[b]fluoranthene  (ISO)
beta-naphthoflavone  (EXP)
bisphenol A  (EXP,ISO)
butyric acid  (ISO)
C60 fullerene  (EXP)
caffeine  (EXP)
captan  (ISO)
carbamazepine  (ISO)
chlorpyrifos  (EXP)
choline  (ISO)
chromium atom  (ISO)
chromium(6+)  (ISO)
ciprofibrate  (ISO)
cisplatin  (ISO)
cobalt dichloride  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
cortisol  (ISO)
CU-O LINKAGE  (ISO)
curcumin  (ISO)
cyclosporin A  (ISO)
cyhalothrin  (EXP)
cypermethrin  (EXP)
D-glucose  (ISO)
decabromodiphenyl ether  (ISO)
deoxynivalenol  (ISO)
dexamethasone  (EXP,ISO)
diarsenic trioxide  (ISO)
dibenz[a,h]anthracene  (ISO)
dibutyl phthalate  (ISO)
dioxygen  (EXP)
doxorubicin  (EXP,ISO)
endosulfan  (EXP,ISO)
entinostat  (ISO)
enzyme inhibitor  (ISO)
ethanol  (EXP)
fenvalerate  (EXP)
fingolimod hydrochloride  (ISO)
flutamide  (EXP)
folic acid  (ISO)
furan  (EXP)
gamma-mangostin  (ISO)
genistein  (ISO)
gentamycin  (EXP,ISO)
glucaric acid  (ISO)
glucose  (ISO)
glyphosate  (ISO)
guggulsterone  (ISO)
hesperidin  (ISO)
hydrogen peroxide  (ISO)
hydroquinone  (ISO)
indirubin  (ISO)
indole-3-methanol  (ISO)
ivermectin  (ISO)
L-methionine  (ISO)
lead(0)  (EXP,ISO)
lead(2+)  (EXP,ISO)
lipopolysaccharide  (ISO)
lithium chloride  (ISO)
lovastatin  (ISO)
manganese atom  (EXP,ISO)
manganese(0)  (EXP,ISO)
manganese(II) chloride  (ISO)
methotrexate  (ISO)
methoxyacetic acid  (ISO)
methylmercury chloride  (ISO)
monosodium L-glutamate  (ISO)
N-benzyloxycarbonyl-L-leucyl-L-leucyl-L-leucinal  (ISO)
N-ethyl-N-nitrosourea  (ISO)
N-nitrosodiethylamine  (ISO)
N-Vinyl-2-pyrrolidone  (EXP)
nicotinamide  (ISO)
nicotine  (EXP,ISO)
oleanolic acid  (ISO)
oxybenzone  (EXP)
paracetamol  (EXP,ISO)
pelargonidin  (ISO)
pentachlorophenol  (ISO)
phenethyl isothiocyanate  (EXP)
potassium chloride  (ISO)
progesterone  (ISO)
resveratrol  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
Soman  (EXP)
sulforaphane  (ISO)
sulindac sulfide  (ISO)
sunitinib  (ISO)
taiwanin C  (ISO)
tamoxifen  (ISO)
Tanshinone I  (ISO)
temozolomide  (ISO)
tert-butyl hydroperoxide  (ISO)
tetrachloromethane  (ISO)
theophylline  (ISO)
thioacetamide  (EXP)
thiophenes  (ISO)
trichloroethene  (EXP)
trichostatin A  (ISO)
Triptolide  (EXP)
triptonide  (ISO)
valproic acid  (EXP,ISO)
vinclozolin  (EXP)
vincristine  (EXP)
vitamin E  (ISO)
vorinostat  (EXP,ISO)
warfarin  (ISO)
withaferin A  (ISO)
zileuton  (EXP)
zinc atom  (ISO)
zinc dichloride  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
cellular response to oxidative stress  (IDA)
cellular response to platelet-derived growth factor stimulus  (IGI)
cellular response to tumor necrosis factor  (IEP)
chromatin organization  (IEA)
chromatin remodeling  (ISO)
circadian regulation of gene expression  (ISO,ISS)
circadian rhythm  (ISO)
DNA methylation-dependent heterochromatin formation  (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  (IEA,ISO)
histone H3 deacetylation  (IMP,ISO)
histone H4 deacetylation  (ISO,ISS)
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  (IDA)
negative regulation of DNA-templated transcription  (IDA,ISO,ISS)
negative regulation of gene expression  (ISO)
negative regulation of I-kappaB kinase/NF-kappaB signaling  (ISO)
negative regulation of insulin secretion  (IMP)
negative regulation of intrinsic apoptotic signaling pathway  (ISO)
negative regulation of myotube differentiation  (ISO)
negative regulation of neuron apoptotic process  (IMP)
negative regulation of peptidyl-lysine acetylation  (IMP)
negative regulation of transcription by RNA polymerase II  (ISO)
neuron differentiation  (ISO)
odontogenesis of dentin-containing tooth  (ISO)
oligodendrocyte differentiation  (ISO)
positive regulation of cell population proliferation  (IMP,ISO)
positive regulation of chemokine (C-X-C motif) ligand 2 production  (IMP)
positive regulation of DNA-templated transcription  (ISO)
positive regulation of gene expression  (IGI)
positive regulation of interleukin-1 production  (IMP)
positive regulation of oligodendrocyte differentiation  (IMP,ISO)
positive regulation of signaling receptor activity  (ISO)
positive regulation of smooth muscle cell proliferation  (IGI)
positive regulation of transcription by RNA polymerase II  (ISO)
positive regulation of tumor necrosis factor production  (IMP)
positive regulation of type B pancreatic cell apoptotic process  (IMP)
positive regulation of tyrosine phosphorylation of STAT protein  (IMP)
protein deacetylation  (ISO)
regulation of endopeptidase activity  (ISO)
regulation of transcription by RNA polymerase II  (IBA,ISO)
response to amphetamine  (IMP)
response to caffeine  (IEP)
response to hyperoxia  (IEP)
response to lipopolysaccharide  (IEP)
response to xenobiotic stimulus  (IEP)

Cellular Component

References

References - curated
# Reference Title Reference Citation
1. Histone deacetylase-1 (HDAC1) is a molecular switch between neuronal survival and death. Bardai FH, etal., J Biol Chem. 2012 Oct 12;287(42):35444-53. doi: 10.1074/jbc.M112.394544. Epub 2012 Aug 23.
2. The nucleosome remodeling and deacetylase complex in development and disease. Basta J and Rauchman M, Transl Res. 2014 May 10. pii: S1931-5244(14)00166-2. doi: 10.1016/j.trsl.2014.05.003.
3. Lipopolysaccharide induces epididymal and testicular antimicrobial gene expression in vitro: insights into the epigenetic regulation of sperm-associated antigen 11e gene. Biswas B and Yenugu S, Immunogenetics. 2013 Apr;65(4):239-53. doi: 10.1007/s00251-012-0674-5. Epub 2012 Dec 28.
4. Exposure to caregiver maltreatment alters expression levels of epigenetic regulators in the medial prefrontal cortex. Blaze J and Roth TL, Int J Dev Neurosci. 2013 Dec;31(8):804-10. doi: 10.1016/j.ijdevneu.2013.10.001. Epub 2013 Oct 10.
5. Satb2 is a postmitotic determinant for upper-layer neuron specification in the neocortex. Britanova O, etal., Neuron. 2008 Feb 7;57(3):378-92. doi: 10.1016/j.neuron.2007.12.028.
6. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
7. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
8. The expression of histone deacetylase 4 is associated with prednisone poor-response in childhood acute lymphoblastic leukemia. Gruhn B, etal., Leuk Res. 2013 Oct;37(10):1200-7. doi: 10.1016/j.leukres.2013.07.016. Epub 2013 Aug 12.
9. HDAC4 and PCAF bind to cardiac sarcomeres and play a role in regulating myofilament contractile activity. Gupta MP, etal., J Biol Chem. 2008 Apr 11;283(15):10135-46. Epub 2008 Feb 4.
10. Upregulation and nuclear recruitment of HDAC1 in hormone refractory prostate cancer. Halkidou K, etal., Prostate. 2004 May 1;59(2):177-89.
11. Down-regulation of β-catenin and the associated migration ability by Taiwanin C in arecoline and 4-NQO-induced oral cancer cells via GSK-3β activation. Hsieh CH, etal., Mol Carcinog. 2017 Mar;56(3):1055-1067. doi: 10.1002/mc.22570. Epub 2016 Oct 4.
12. Transcriptional repression by REST: recruitment of Sin3A and histone deacetylase to neuronal genes. Huang Y, etal., Nat Neurosci. 1999 Oct;2(10):867-72.
13. Selective histone deacetylase (HDAC) inhibition imparts beneficial effects in Huntington's disease mice: implications for the ubiquitin-proteasomal and autophagy systems. Jia H, etal., Hum Mol Genet. 2012 Dec 15;21(24):5280-93. doi: 10.1093/hmg/dds379. Epub 2012 Sep 10.
14. Histone deacetylase expression in white matter oligodendrocytes after stroke. Kassis H, etal., Neurochem Int. 2014 Nov;77:17-23. doi: 10.1016/j.neuint.2014.03.006. Epub 2014 Mar 19.
15. Oxidative stress regulates IGF1R expression in vascular smooth-muscle cells via p53 and HDAC recruitment. Kavurma MM, etal., Biochem J. 2007 Oct 1;407(1):79-87.
16. Uteroplacental insufficiency affects epigenetic determinants of chromatin structure in brains of neonatal and juvenile IUGR rats. Ke X, etal., Physiol Genomics. 2006 Mar 13;25(1):16-28. Epub 2005 Dec 27.
17. HDAC inhibition suppresses cardiac hypertrophy and fibrosis in DOCA-salt hypertensive rats via regulation of HDAC6/HDAC8 enzyme activity. Kee HJ, etal., Kidney Blood Press Res. 2013;37(4-5):229-39. doi: 10.1159/000350148. Epub 2013 Jul 8.
18. Drug-induced inactivation or gene silencing of class I histone deacetylases suppresses ovarian cancer cell growth: implications for therapy. Khabele D, etal., Cancer Biol Ther. 2007 May;6(5):795-801. Epub 2007 Feb 14.
19. Clinically relevant concentrations of valproic acid modulate melatonin MT(1) receptor, HDAC and MeCP2 mRNA expression in C6 glioma cells. Kim B, etal., Eur J Pharmacol. 2008 Jul 28;589(1-3):45-8. Epub 2008 May 7.
20. HDAC1 nuclear export induced by pathological conditions is essential for the onset of axonal damage. Kim JY, etal., Nat Neurosci. 2010 Feb;13(2):180-9. doi: 10.1038/nn.2471. Epub 2009 Dec 27.
21. Modes of p53 regulation. Kruse JP and Gu W, Cell. 2009 May 15;137(4):609-22. doi: 10.1016/j.cell.2009.04.050.
22. Members of the NuRD chromatin remodeling complex interact with AUF1 in developing cortical neurons. Lee C, etal., Cereb Cortex. 2008 Dec;18(12):2909-19. doi: 10.1093/cercor/bhn051. Epub 2008 Apr 15.
23. Activation of PPARγ inhibits HDAC1-mediated pulmonary arterial smooth muscle cell proliferation and its potential mechanisms. Li F, etal., Eur J Pharmacol. 2017 Nov 5;814:324-334. doi: 10.1016/j.ejphar.2017.08.045. Epub 2017 Sep 1.
24. Combination of proteasome and HDAC inhibitors for uterine cervical cancer treatment. Lin Z, etal., Clin Cancer Res. 2009 Jan 15;15(2):570-7.
25. Regulation of neuron survival and death by p130 and associated chromatin modifiers. Liu DX, etal., Genes Dev. 2005 Mar 15;19(6):719-32.
26. Histone deacetylase-1 is enriched at the platelet-derived growth factor-D promoter in response to interleukin-1beta and forms a cytokine-inducible gene-silencing complex with NF-kappab p65 and interferon regulatory factor-1. Liu MY and Khachigian LM, J Biol Chem. 2009 Dec 11;284(50):35101-12. Epub 2009 Oct 20.
27. Histone deacetylases 1 and 3 but not 2 mediate cytokine-induced beta cell apoptosis in INS-1 cells and dispersed primary islets from rats and are differentially regulated in the islets of type 1 diabetic children. Lundh M, etal., Diabetologia. 2012 Sep;55(9):2421-31. doi: 10.1007/s00125-012-2615-0. Epub 2012 Jul 7.
28. Valproic acid induces functional heat-shock protein 70 via Class I histone deacetylase inhibition in cortical neurons: a potential role of Sp1 acetylation. Marinova Z, etal., J Neurochem. 2009 Nov;111(4):976-87. Epub 2009 Sep 18.
29. Induction of a novel histone deacetylase 1/c-Myc/Mnt/Max complex formation is implicated in parity-induced refractoriness to mammary carcinogenesis. Matsuoka Y, etal., Cancer Sci. 2008 Feb;99(2):309-15.
30. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
31. Lipopolysaccharide induces up-regulation of TGF-alpha through HDAC2 in a rat model of bronchopulmonary dysplasia. Ni W, etal., PLoS One. 2014 Mar 4;9(3):e91083. doi: 10.1371/journal.pone.0091083. eCollection 2014.
32. Histone deacetylase-2 is a key regulator of diabetes- and transforming growth factor-beta1-induced renal injury. Noh H, etal., Am J Physiol Renal Physiol. 2009 Sep;297(3):F729-39. doi: 10.1152/ajprenal.00086.2009. Epub 2009 Jun 24.
33. Histone deacetylase 1/2 mediates proliferation of renal interstitial fibroblasts and expression of cell cycle proteins. Pang M, etal., J Cell Biochem. 2011 Aug;112(8):2138-48. doi: 10.1002/jcb.23135.
34. Development of type 2 diabetes following intrauterine growth retardation in rats is associated with progressive epigenetic silencing of Pdx1. Park JH, etal., J Clin Invest. 2008 Jun;118(6):2316-24.
35. Physical and functional HAT/HDAC interplay regulates protein acetylation balance. Peserico A and Simone C, J Biomed Biotechnol. 2011;2011:371832. doi: 10.1155/2011/371832. Epub 2010 Dec 5.
36. Prenatal caffeine ingestion induces aberrant DNA methylation and histone acetylation of steroidogenic factor 1 and inhibits fetal adrenal steroidogenesis. Ping J, etal., Toxicology. 2014 Jul 3;321:53-61. doi: 10.1016/j.tox.2014.03.011. Epub 2014 Apr 6.
37. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
38. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
39. Delta FosB mediates epigenetic desensitization of the c-fos gene after chronic amphetamine exposure. Renthal W, etal., J Neurosci. 2008 Jul 16;28(29):7344-9. doi: 10.1523/JNEUROSCI.1043-08.2008.
40. GOA pipeline RGD automated data pipeline
41. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
42. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
43. Dexamethasone induces a putative repressor complex and chromatin modifications in the CRH promoter. Sharma D, etal., Mol Endocrinol. 2013 Jul;27(7):1142-52. doi: 10.1210/me.2013-1079. Epub 2013 May 13.
44. HDAC up-regulation in early colon field carcinogenesis is involved in cell tumorigenicity through regulation of chromatin structure. Stypula-Cyrus Y, etal., PLoS One. 2013 May 28;8(5):e64600. doi: 10.1371/journal.pone.0064600. Print 2013.
45. Screening of histone deacetylases (HDAC) expression in human prostate cancer reveals distinct class I HDAC profiles between epithelial and stromal cells. Waltregny D, etal., Eur J Histochem. 2004 Jul-Sep;48(3):273-90.
46. Significance of DNA methyltransferase-1 and histone deacetylase-1 in pancreatic cancer. Wang W, etal., Oncol Rep. 2009 Jun;21(6):1439-47.
47. Histone deacetylases 1, 2 and 3 are highly expressed in prostate cancer and HDAC2 expression is associated with shorter PSA relapse time after radical prostatectomy. Weichert W, etal., Br J Cancer. 2008 Feb 12;98(3):604-10. Epub 2008 Jan 22.
48. Expression of class I histone deacetylases indicates poor prognosis in endometrioid subtypes of ovarian and endometrial carcinomas. Weichert W, etal., Neoplasia. 2008 Sep;10(9):1021-7.
49. Differential modulation of the oligodendrocyte transcriptome by sonic hedgehog and bone morphogenetic protein 4 via opposing effects on histone acetylation. Wu M, etal., J Neurosci. 2012 May 9;32(19):6651-64. doi: 10.1523/JNEUROSCI.4876-11.2012.
50. DeltaNp73 modulates nerve growth factor-mediated neuronal differentiation through repression of TrkA. Zhang J and Chen X, Mol Cell Biol. 2007 May;27(10):3868-80. Epub 2007 Mar 12.
51. Quantitation of HDAC1 mRNA expression in invasive carcinoma of the breast*. Zhang Z, etal., Breast Cancer Res Treat. 2005 Nov;94(1):11-6.
52. Histone deacetylation inhibition in pulmonary hypertension: therapeutic potential of valproic acid and suberoylanilide hydroxamic acid. Zhao L, etal., Circulation. 2012 Jul 24;126(4):455-67. doi: 10.1161/CIRCULATIONAHA.112.103176. Epub 2012 Jun 18.
53. Abnormal epigenetic modifications in peripheral blood mononuclear cells from patients with alopecia areata. Zhao M, etal., Br J Dermatol. 2012 Feb;166(2):226-73. doi: 10.1111/j.1365-2133.2011.10646.x. Epub 2012 Jan 9.
54. Hyperoxia arrests alveolar development through suppression of histone deacetylases in neonatal rats. Zhu L, etal., Pediatr Pulmonol. 2012 Mar;47(3):264-74. doi: 10.1002/ppul.21540. Epub 2011 Sep 8.
Additional References at PubMed
PMID:8917507   PMID:9271381   PMID:10615135   PMID:10846170   PMID:10983972   PMID:11062478   PMID:11136718   PMID:11641274   PMID:11836251   PMID:12403844   PMID:12477932   PMID:12590135  
PMID:14519686   PMID:14593184   PMID:14643676   PMID:14645126   PMID:15060137   PMID:15226430   PMID:15509593   PMID:15608638   PMID:15919722   PMID:16109736   PMID:16217013   PMID:16462733  
PMID:16540471   PMID:16569215   PMID:16581785   PMID:16678101   PMID:16731528   PMID:16762839   PMID:17082476   PMID:17150957   PMID:17172643   PMID:17182846   PMID:17392792   PMID:17702849  
PMID:17707228   PMID:17785205   PMID:17827154   PMID:17905753   PMID:17910034   PMID:17996965   PMID:18247378   PMID:18316616   PMID:18326024   PMID:18347167   PMID:18486321   PMID:18651664  
PMID:18799668   PMID:18850004   PMID:18854353   PMID:18936100   PMID:18974119   PMID:19057576   PMID:19182791   PMID:19235719   PMID:19380719   PMID:19503085   PMID:19549282   PMID:19644445  
PMID:19796622   PMID:19805123   PMID:19875195   PMID:20590529   PMID:20691756   PMID:20720167   PMID:21093383   PMID:21177534   PMID:21680841   PMID:21718540   PMID:21874024   PMID:21960634  
PMID:22075476   PMID:22720776   PMID:22770845   PMID:22926524   PMID:23629966   PMID:23684218   PMID:23720316   PMID:23770133   PMID:24111946   PMID:24276224   PMID:24413057   PMID:24686813  
PMID:24690943   PMID:24736997   PMID:24991957   PMID:25623071   PMID:25697003   PMID:26078221   PMID:26176076   PMID:26297832   PMID:26558695   PMID:26812044   PMID:27733539   PMID:28046085  
PMID:28300292   PMID:28747611   PMID:29224834   PMID:30086304   PMID:30138634   PMID:30322885   PMID:30913399   PMID:31022463   PMID:31108155   PMID:31311969   PMID:31493239   PMID:32227584  
PMID:32596952   PMID:32641996   PMID:32889570   PMID:32914392   PMID:33378032   PMID:33378103   PMID:34381129   PMID:35172152   PMID:35853847  


Genomics

Comparative Map Data
Hdac1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.25141,853,992 - 141,881,057 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl5141,853,989 - 141,881,111 (-)Ensembl
Rnor_6.05147,716,664 - 147,743,723 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5147,716,664 - 147,743,723 (-)EnsemblRnor6.0rn6Rnor6.0
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
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38132,292,083 - 32,333,626 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl132,292,083 - 32,333,635 (+)EnsemblGRCh38hg38GRCh38
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
T2T-CHM13v2.0132,150,000 - 32,191,544 (+)NCBI
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
(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
ROS_Cfam_1.0 Ensembl269,467,851 - 69,502,759 (-)Ensembl
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
(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
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl688,749,634 - 88,785,411 (+)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 - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.120100,529,782 - 100,575,953 (-)NCBIChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366603316,112,046 - 16,155,022 (+)NCBIVero_WHO_p1.0
Hdac1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462476415,510,866 - 15,552,025 (+)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_00462476415,510,655 - 15,552,020 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
RH127908  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_5.05151,445,233 - 151,445,420NCBIRnor5.0
Rnor_5.0186,018,419 - 86,018,606NCBIRnor5.0
RGSC_v3.45148,672,112 - 148,672,298UniSTSRGSC3.4
Celera5140,328,851 - 140,329,037UniSTS
Celera179,298,721 - 79,298,907UniSTS
Cytogenetic Map5q36UniSTS
BI274654  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25141,854,353 - 141,854,557 (+)MAPPERmRatBN7.2
Rnor_6.05147,717,026 - 147,717,229NCBIRnor6.0
Rnor_5.05151,446,048 - 151,446,251UniSTSRnor5.0
RGSC_v3.45148,672,878 - 148,673,081UniSTSRGSC3.4
Celera5140,329,616 - 140,329,819UniSTS
RH 3.4 Map5960.01UniSTS
Cytogenetic Map5q36UniSTS
RH125343  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_5.05151,445,154 - 151,445,375NCBIRnor5.0
Rnor_5.0186,018,464 - 86,018,685NCBIRnor5.0
RGSC_v3.45148,672,033 - 148,672,253UniSTSRGSC3.4
Celera5140,328,772 - 140,328,992UniSTS
Celera179,298,642 - 79,298,862UniSTS
Cytogenetic Map5q36UniSTS
Hdac1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25141,855,340 - 141,855,753 (+)MAPPERmRatBN7.2
Rnor_6.05147,718,013 - 147,718,425NCBIRnor6.0
Rnor_5.05151,447,035 - 151,447,447UniSTSRnor5.0
RGSC_v3.45148,673,865 - 148,674,277UniSTSRGSC3.4
Celera5140,330,603 - 140,331,015UniSTS
Cytogenetic Map5q36UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1576314Eutr1Estrogen induced uterine response QTL 1uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)52138965166875058Rat
1549845Scl44Serum cholesterol level QTL 446blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)540128307148607290Rat
1578766Tcas11Tongue tumor susceptibility QTL 114.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)546711509161317411Rat
61426Scl2Serum cholesterol level QTL 27.30.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)559793399143070159Rat
61393Bp7Blood pressure QTL 74.50.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)560293434161481680Rat
1354598Srn6Serum renin concentration QTL 63.8blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)569540295151018848Rat
1302790Scl20Serum cholesterol level QTL 206.40.0001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)582394392166664054Rat
61452Ciaa5CIA Autoantibody QTL 53.5blood autoantibody amount (VT:0003725)calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)594858972143070159Rat
1331796Thshl2Thyroid stimulating hormone level QTL 22.3blood thyroid-stimulating hormone amount (VT:0005119)serum thyroid stimulating hormone level (CMO:0001248)597059760147465714Rat
1358187Emca1Estrogen-induced mammary cancer QTL 14.4mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)599216724148607142Rat
1578673Bmd13Bone mineral density QTL 134.9femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)5103689353148689353Rat
2317056Wbc3White blood cell count QTL 32.510.01leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)5105999803150999803Rat
7207488Bss110Bone structure and strength QTL 18.4femur strength trait (VT:0010010)femur stiffness (CMO:0001674)5106906205151906205Rat
7207491Bss112Bone structure and strength QTL 1127femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)5106906205151906205Rat
7207481Bss106Bone structure and strength QTL 1067.9femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)5106906205151906205Rat
7207486Bss109Bone structure and strength QTL 109femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)5106906205151906205Rat
1549838Bss4Bone structure and strength QTL 49.2femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)5106906205151906205Rat
1298089Scl14Serum cholesterol level QTL 145.80.0004blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)5108845856153845856Rat
1598847Cm62Cardiac mass QTL 623.4heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)5108845856153845856Rat
8657050Bw146Body weight QTL 14619.840.001body mass (VT:0001259)body weight gain (CMO:0000420)5108938288153938288Rat
8694441Bw169Body weight QTL 16917.610.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)5111416838156416838Rat
8694198Abfw3Abdominal fat weight QTL 316.130.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)5111416838156416838Rat
8694389Bw160Body weight QTL 1606.170.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)5111416838156416838Rat
8552960Pigfal15Plasma insulin-like growth factor 1 level QTL 15blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)5111416838156416838Rat
1581510Cm54Cardiac mass QTL 543.40.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)5120740824143608494Rat
2293642Bss37Bone structure and strength QTL 374.640.0001femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)5120740824151018848Rat
1641920Colcs1Colorectal carcinoma susceptibility QTL 12.990.0055intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)5121846814166846814Rat
10053720Scort26Serum corticosterone level QTL 262.060.0147blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)5124965598166875058Rat
724525Bp147Blood pressure QTL 1474.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5126424772166875058Rat
1598819Bp292Blood pressure QTL 2924.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5127798274166875058Rat
1598861Cm64Cardiac mass QTL 642.9heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)5127798274166875058Rat
8552908Pigfal4Plasma insulin-like growth factor 1 level QTL 46.6blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)5128506074166875058Rat
8694169Bw148Body weight QTL 14850.001body mass (VT:0001259)body weight gain (CMO:0000420)5128506074166875058Rat
634349Bp139Blood pressure QTL 1390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5128924607166875058Rat
1331803Rf32Renal function QTL 322.798kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)5129132428143070159Rat
70156Niddm30Non-insulin dependent diabetes mellitus QTL 303.98blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)5129132447151006154Rat
738018Anxrr4Anxiety related response QTL 45.1exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)5130130159166875058Rat
7794791Mcs33Mammary carcinoma susceptibility QTL 331.93mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)5131345754166875058Rat
631505Bp103Blood pressure QTL 1033.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5132717196165560427Rat
631562Apr2Acute phase response QTL 23.7blood murinoglobulin 1 amount (VT:0010597)plasma murinoglobulin 1 level (CMO:0001931)5135927956166875058Rat
61444Strs2Sensitivity to stroke QTL 24.7cerebrum integrity trait (VT:0010549)post-insult time to onset of cerebrovascular lesion (CMO:0002343)5135929696166875058Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:88
Count of miRNA genes:70
Interacting mature miRNAs:81
Transcripts:ENSRNOT00000012854
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


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 exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 37 57 41 19 41 2 3 74 35 41 11 2
Low 6 6 8 6
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000012854   ⟹   ENSRNOP00000012854
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl5141,853,996 - 141,881,111 (-)Ensembl
Rnor_6.0 Ensembl5147,716,664 - 147,743,723 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000114611   ⟹   ENSRNOP00000093634
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl5141,853,989 - 141,881,111 (-)Ensembl
RefSeq Acc Id: NM_001025409   ⟹   NP_001020580
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25141,853,992 - 141,881,057 (-)NCBI
Rnor_6.05147,716,664 - 147,743,723 (-)NCBI
Rnor_5.05151,445,686 - 151,472,652 (-)NCBI
RGSC_v3.45148,672,515 - 148,699,810 (-)RGD
Celera5140,329,254 - 140,356,320 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001020580 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH97943 (Get FASTA)   NCBI Sequence Viewer  
  AAI07477 (Get FASTA)   NCBI Sequence Viewer  
  EDL80545 (Get FASTA)   NCBI Sequence Viewer  
  Q4QQW4 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001020580   ⟸   NM_001025409
- UniProtKB: Q4QQW4 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000012854   ⟸   ENSRNOT00000012854
RefSeq Acc Id: ENSRNOP00000093634   ⟸   ENSRNOT00000114611
Protein Domains
Hist_deacetyl

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q4QQW4-F1-model_v2 AlphaFold Q4QQW4 1-482 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13694067
Promoter ID:EPDNEW_R4592
Type:single initiation site
Name:Hdac1_1
Description:histone deacetylase 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.05147,743,736 - 147,743,796EPDNEW

Strain Variation

Strain Sequence Variants (mRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Damaging Variants


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
5 147718433 147718434 T C snv CDR


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1309799 AgrOrtholog
BioCyc Gene G2FUF-39796 BioCyc
Ensembl Genes ENSRNOG00000009568 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000012854 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000093634.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000012854 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000114611.1 UniProtKB/TrEMBL
Gene3D-CATH 3.40.800.20 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:6921765 IMAGE-MGC_LOAD
  IMAGE:7443793 IMAGE-MGC_LOAD
  IMAGE:7458532 IMAGE-MGC_LOAD
InterPro His_deacetylse UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  His_deacetylse_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  His_deacetylse_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  His_deacetylse_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ureohydrolase_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:297893 UniProtKB/Swiss-Prot
MGC_CLONE MGC:116064 IMAGE-MGC_LOAD
  MGC:125110 IMAGE-MGC_LOAD
  MGC:72946 IMAGE-MGC_LOAD
NCBI Gene 297893 ENTREZGENE
Pfam Hist_deacetyl UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Hdac1 PhenoGen
PIRSF His_deacetylse_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PRINTS HDASUPER UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  HISDACETLASE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF52768 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I6AG62_RAT UniProtKB/TrEMBL
  HDAC1_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q99PA2_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-05-16 Hdac1  histone deacetylase 1  Hdac1_predicted  histone deacetylase 1 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-05-16 Hdac1  histone deacetylase 1  Hdac1  histone deacetylase 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-12 Hdac1_predicted  histone deacetylase 1 (predicted)      Symbol and Name status set to approved 70820 APPROVED