Hdac6 (histone deacetylase 6) - Rat Genome Database

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Gene: Hdac6 (histone deacetylase 6) Rattus norvegicus
Analyze
Symbol: Hdac6
Name: histone deacetylase 6
RGD ID: 619981
Description: Enables deacetylase activity. Involved in several processes, including regulation of neurogenesis; regulation of protein modification process; and response to glucocorticoid. Located in axon and centrosome. Used to study polycystic kidney disease and polycystic liver disease 1. Biomarker of hypertension and polycystic liver disease 1. Human ortholog(s) of this gene implicated in chondrodysplasia with platyspondyly, distinctive brachydactyly, hydrocephaly, and microphthalmia. Orthologous to human HDAC6 (histone deacetylase 6); PARTICIPATES IN histone modification pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene; 2,6-dinitrotoluene.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: histone deacetylase 6-like; LOC100911205; LOC108348065
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X17,222,538 - 17,244,373 (+)NCBIGRCr8
mRatBN7.2X14,550,645 - 14,572,445 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX14,551,044 - 14,572,441 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.0X15,396,185 - 15,417,486 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX15,295,473 - 15,316,671 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 EnsemblX15,396,895 - 15,417,146 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X16,075,029 - 16,096,914 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X26,585,852 - 26,606,999 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1X26,658,892 - 26,659,565 (+)NCBI
CeleraX14,635,909 - 14,657,201 (+)NCBICelera
Cytogenetic MapXq12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(20S)-ginsenoside Rh2  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4,6-tribromophenol  (ISO)
2,4-dinitrotoluene  (EXP)
2,6-dinitrotoluene  (EXP)
3',5'-cyclic AMP  (ISO)
3,3',5,5'-tetrabromobisphenol A  (ISO)
4-hydroxyphenyl retinamide  (ISO)
6-propyl-2-thiouracil  (EXP)
acrolein  (ISO)
acrylamide  (EXP)
aflatoxin B1  (ISO)
Aflatoxin B2 alpha  (ISO)
alpha-pinene  (ISO)
amitrole  (EXP)
ammonium chloride  (EXP)
amphetamine  (EXP)
arsane  (ISO)
arsenic atom  (ISO)
atrazine  (EXP)
benzo[a]pyrene  (ISO)
bis(2-ethylhexyl) phthalate  (EXP,ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
bortezomib  (ISO)
Butylbenzyl phthalate  (ISO)
butyric acid  (ISO)
cadmium dichloride  (EXP,ISO)
carbon nanotube  (ISO)
CGP 52608  (ISO)
Chlamydocin  (ISO)
chloroquine  (EXP)
cisplatin  (ISO)
cocaine  (EXP)
curcumin  (ISO)
cycloheximide  (ISO)
cyclosporin A  (ISO)
decabromodiphenyl ether  (EXP,ISO)
dibutyl phthalate  (ISO)
dorsomorphin  (ISO)
doxorubicin  (EXP,ISO)
endosulfan  (ISO)
ethanol  (ISO)
finasteride  (EXP)
folic acid  (ISO)
FR900359  (ISO)
genistein  (ISO)
gentamycin  (EXP)
hydrogen peroxide  (ISO)
hypochlorous acid  (ISO)
indole-3-methanol  (ISO)
isoprenaline  (EXP,ISO)
ivermectin  (ISO)
lipopolysaccharide  (EXP)
mancozeb  (ISO)
maneb  (ISO)
manganese atom  (ISO)
manganese(0)  (ISO)
manganese(II) chloride  (ISO)
methamphetamine  (EXP)
methimazole  (EXP)
methotrexate  (ISO)
methylmercury chloride  (ISO)
metiram  (ISO)
miconazole  (EXP)
mono(2-ethylhexyl) phthalate  (ISO)
N,N-bis(2-hydroxypropyl)nitrosamine  (EXP)
N-benzyloxycarbonyl-L-leucyl-L-leucyl-L-leucinal  (ISO)
N-methyl-N-nitrosourea  (EXP)
N-nitrosodiethylamine  (EXP)
nefazodone  (EXP)
okadaic acid  (ISO)
ozone  (ISO)
paracetamol  (EXP)
paraquat  (EXP,ISO)
phenobarbital  (ISO)
pirinixic acid  (ISO)
ricolinostat  (ISO)
rotenone  (EXP)
SB 431542  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (EXP,ISO)
sodium propionate  (ISO)
sorafenib  (ISO)
sulfadimethoxine  (EXP)
sulforaphane  (ISO)
tamoxifen  (ISO)
tetrachloromethane  (ISO)
thalidomide  (EXP)
thapsigargin  (ISO)
titanium dioxide  (ISO)
Trapoxin B  (ISO)
trichostatin A  (ISO)
Triptolide  (ISO)
tubastatin A  (ISO)
valproic acid  (ISO)
venlafaxine hydrochloride  (EXP)
vorinostat  (EXP,ISO)
WIN 55212-2  (EXP)
zinc atom  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
actin filament organization  (IEA,ISO)
aggresome assembly  (IEA,ISO)
antiviral innate immune response  (IEA)
axonal transport of mitochondrion  (IEA,IMP,ISO)
cellular response to hydrogen peroxide  (IEA,ISO)
cellular response to misfolded protein  (IEA,ISO)
cellular response to parathyroid hormone stimulus  (IEP)
cellular response to topologically incorrect protein  (IEA,ISO)
cilium disassembly  (IEA,ISO)
collateral sprouting  (IEA,ISO)
dendritic spine morphogenesis  (IEA,ISO)
epidermal growth factor receptor signaling pathway  (IEA,ISO)
erythrocyte enucleation  (IEA,ISO)
Hsp90 deacetylation  (ISO)
intracellular protein transport  (IEA,ISO)
lysosome localization  (IEA,ISO)
mitochondrion localization  (IEA,ISO)
negative regulation of aggrephagy  (IEA,ISO)
negative regulation of axon extension involved in axon guidance  (IMP)
negative regulation of gene expression, epigenetic  (IEA,ISO)
negative regulation of hydrogen peroxide metabolic process  (IEA,ISO)
negative regulation of microtubule depolymerization  (IEA,ISO)
negative regulation of neuron projection development  (IMP)
negative regulation of protein acetylation  (IMP)
negative regulation of protein-containing complex assembly  (IEA,ISO)
negative regulation of protein-containing complex disassembly  (IEA,ISO)
negative regulation of proteolysis  (IEA,ISO)
neuron differentiation  (IEP)
polyamine deacetylation  (ISO)
polyubiquitinated misfolded protein transport  (IEA,ISO)
positive regulation of cellular response to oxidative stress  (IMP)
positive regulation of cholangiocyte proliferation  (IMP)
positive regulation of dendrite morphogenesis  (IMP)
positive regulation of epithelial cell migration  (IEA,ISO)
positive regulation of intracellular estrogen receptor signaling pathway  (IEA,ISO)
positive regulation of protein oligomerization  (IEA,ISO)
positive regulation of RIG-I signaling pathway  (IEA)
positive regulation of synaptic transmission, glutamatergic  (IMP)
positive regulation of tubulin deacetylation  (IMP)
positive regulation of type 2 mitophagy  (IEA,ISO)
protein deacetylation  (ISO)
protein deacylation  (ISO)
protein destabilization  (IEA,ISO)
protein polyubiquitination  (IEA,ISO)
protein quality control for misfolded or incompletely synthesized proteins  (IEA,ISO)
protein-containing complex disassembly  (IEA,ISO)
regulation of establishment of protein localization  (IEA,ISO)
regulation of fat cell differentiation  (IEA,ISO)
regulation of macroautophagy  (IEA,ISO)
regulation of microtubule cytoskeleton organization  (IMP)
regulation of mitochondrion organization  (IMP)
regulation of protein phosphorylation  (IMP)
regulation of protein stability  (IEA,ISO)
response to amphetamine  (IEP)
response to corticosterone  (IMP)
response to dexamethasone  (IEP)
response to immobilization stress  (IEP)
response to misfolded protein  (IEA,ISO)
spermidine deacetylation  (ISO)
tubulin deacetylation  (ISO)
type 2 mitophagy  (IEA,ISO)
ubiquitin-dependent protein catabolic process  (IEA,ISO)
ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway  (IEA,ISO)

Cellular Component
aggresome  (IEA,ISO)
axon  (IDA,IEA,ISO)
axon cytoplasm  (IEA)
caveola  (IEA,ISO)
cell leading edge  (IEA,ISO)
centrosome  (IDA,IEA,ISO)
ciliary basal body  (IEA,ISO)
cilium  (IEA)
cytoplasm  (IEA,ISO)
cytoplasmic ubiquitin ligase complex  (ISO)
cytoskeleton  (IEA)
cytosol  (IEA,ISO)
dendrite  (IEA,ISO)
histone deacetylase complex  (IEA,ISO)
inclusion body  (IEA,ISO)
microtubule  (IEA,ISO)
microtubule associated complex  (IEA,ISO)
microtubule cytoskeleton  (IEA,ISO)
neuron projection  (IEA,ISO)
neuronal cell body  (IEA,ISO)
nucleoplasm  (IEA,ISO,TAS)
nucleus  (IEA,ISO)
perikaryon  (IEA,ISO)
perinuclear region of cytoplasm  (IEA,ISO)
protein-containing complex  (IEA,ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Upregulation of class II histone deacetylases mRNA during neural differentiation of cultured rat hippocampal progenitor cells. Ajamian F, etal., Neurosci Lett 2003 Jul 31;346(1-2):57-60.
2. Sepsis and glucocorticoids upregulate p300 and downregulate HDAC6 expression and activity in skeletal muscle. Alamdari N, etal., Am J Physiol Regul Integr Comp Physiol. 2010 Aug;299(2):R509-20. doi: 10.1152/ajpregu.00858.2009. Epub 2010 Jun 10.
3. 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.
4. HDAC6 is overexpressed in cystic cholangiocytes and its inhibition reduces cystogenesis. Gradilone SA, etal., Am J Pathol. 2014 Mar;184(3):600-8. doi: 10.1016/j.ajpath.2013.11.027. Epub 2014 Jan 13.
5. HDAC6 inhibition restores ciliary expression and decreases tumor growth. Gradilone SA, etal., Cancer Res. 2013 Apr 1;73(7):2259-70. doi: 10.1158/0008-5472.CAN-12-2938. Epub 2013 Jan 31.
6. 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.
7. A centrosomal Cdc20-APC pathway controls dendrite morphogenesis in postmitotic neurons. Kim AH, etal., Cell. 2009 Jan 23;136(2):322-36.
8. HDAC6 inhibitor blocks amyloid beta-induced impairment of mitochondrial transport in hippocampal neurons. Kim C, etal., PLoS One. 2012;7(8):e42983. doi: 10.1371/journal.pone.0042983. Epub 2012 Aug 22.
9. Differentially expressed genes and morphological changes during lengthened immobilization in rat soleus muscle. Kim JW, etal., Differentiation. 2007 Feb;75(2):147-57.
10. Histone deacetylase 6 gates the synaptic action of acute stress in prefrontal cortex. Lee JB, etal., J Physiol. 2012 Apr 1;590(Pt 7):1535-46. doi: 10.1113/jphysiol.2011.224907. Epub 2012 Feb 13.
11. Combination of proteasome and HDAC inhibitors for uterine cervical cancer treatment. Lin Z, etal., Clin Cancer Res. 2009 Jan 15;15(2):570-7.
12. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
13. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
14. HDAC6 inhibition results in tau acetylation and modulates tau phosphorylation and degradation in oligodendrocytes. Noack M, etal., Glia. 2014 Apr;62(4):535-47. doi: 10.1002/glia.22624. Epub 2014 Jan 24.
15. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
16. Differential effects of binge methamphetamine injections on the mRNA expression of histone deacetylases (HDACs) in the rat striatum. Omonijo O, etal., Neurotoxicology. 2014 Oct 27;45C:178-184. doi: 10.1016/j.neuro.2014.10.008.
17. 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.
18. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
19. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
20. HDAC6 is a target for protection and regeneration following injury in the nervous system. Rivieccio MA, etal., Proc Natl Acad Sci U S A. 2009 Nov 17;106(46):19599-604. doi: 10.1073/pnas.0907935106. Epub 2009 Nov 2.
21. HDAC4 represses matrix metalloproteinase-13 transcription in osteoblastic cells, and parathyroid hormone controls this repression. Shimizu E, etal., J Biol Chem. 2010 Mar 26;285(13):9616-26. doi: 10.1074/jbc.M109.094862. Epub 2010 Jan 22.
22. Tubastatin, a selective histone deacetylase 6 inhibitor shows anti-inflammatory and anti-rheumatic effects. Vishwakarma S, etal., Int Immunopharmacol. 2013 May;16(1):72-8. doi: 10.1016/j.intimp.2013.03.016. Epub 2013 Mar 27.
23. HDAC-6 interacts with and deacetylates tubulin and microtubules in vivo. Zhang Y, etal., EMBO J 2003 Mar 3;22(5):1168-79.
Additional References at PubMed
PMID:9891014   PMID:10220385   PMID:11689694   PMID:11948178   PMID:12024216   PMID:12486003   PMID:12620231   PMID:14675537   PMID:15632090   PMID:15916966   PMID:16192271   PMID:16810319  
PMID:16933150   PMID:17785525   PMID:18316616   PMID:18356165   PMID:18606987   PMID:18636984   PMID:19228685   PMID:19457097   PMID:19893491   PMID:20308065   PMID:20457763   PMID:21539845  
PMID:21753002   PMID:22792322   PMID:23093407   PMID:23126280   PMID:23322205   PMID:23580651   PMID:23962722   PMID:24113571   PMID:24413532   PMID:24687993   PMID:24882211   PMID:24909686  
PMID:25411052   PMID:26401643   PMID:26765925   PMID:26975406   PMID:27430620   PMID:28516954   PMID:29201907   PMID:31068376   PMID:31251981   PMID:31432127   PMID:31775910   PMID:32453021  
PMID:32592806   PMID:32653342   PMID:32711564   PMID:33999989   PMID:35352799   PMID:35764897   PMID:37665135   PMID:38242268  


Genomics

Comparative Map Data
Hdac6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X17,222,538 - 17,244,373 (+)NCBIGRCr8
mRatBN7.2X14,550,645 - 14,572,445 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX14,551,044 - 14,572,441 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.0X15,396,185 - 15,417,486 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX15,295,473 - 15,316,671 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 EnsemblX15,396,895 - 15,417,146 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X16,075,029 - 16,096,914 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X26,585,852 - 26,606,999 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1X26,658,892 - 26,659,565 (+)NCBI
CeleraX14,635,909 - 14,657,201 (+)NCBICelera
Cytogenetic MapXq12NCBI
HDAC6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X48,801,398 - 48,824,982 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX48,801,377 - 48,824,982 (+)EnsemblGRCh38hg38GRCh38
GRCh37X48,659,805 - 48,683,392 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36X48,545,431 - 48,568,324 (+)NCBINCBI36Build 36hg18NCBI36
Build 34X48,416,735 - 48,439,629NCBI
CeleraX52,980,148 - 53,003,041 (-)NCBICelera
Cytogenetic MapXp11.23NCBI
HuRefX46,319,662 - 46,343,018 (+)NCBIHuRef
CHM1_1X48,691,631 - 48,714,524 (+)NCBICHM1_1
T2T-CHM13v2.0X48,211,870 - 48,235,478 (+)NCBIT2T-CHM13v2.0
Hdac6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X7,796,355 - 7,814,284 (-)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX7,796,359 - 7,814,128 (-)EnsemblGRCm39 Ensembl
GRCm38X7,930,116 - 7,948,047 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX7,930,120 - 7,947,889 (-)EnsemblGRCm38mm10GRCm38
MGSCv37X7,507,248 - 7,525,015 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36X7,087,085 - 7,104,203 (-)NCBIMGSCv36mm8
CeleraX3,521,555 - 3,539,209 (+)NCBICelera
Cytogenetic MapXA1.1NCBI
cM MapX3.58NCBI
Hdac6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955543348,019 - 378,071 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955543348,314 - 378,391 (+)NCBIChiLan1.0ChiLan1.0
HDAC6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X50,290,594 - 50,314,118 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X50,293,976 - 50,317,490 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X41,099,539 - 41,122,650 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X48,960,181 - 48,982,648 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX48,960,430 - 48,982,642 (+)Ensemblpanpan1.1panPan2
HDAC6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X42,004,268 - 42,024,726 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX42,004,591 - 42,024,427 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX16,379,688 - 16,400,160 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0X42,140,437 - 42,160,915 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX42,140,480 - 42,160,909 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X42,126,695 - 42,147,162 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X42,114,965 - 42,135,438 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X42,209,124 - 42,229,594 (+)NCBIUU_Cfam_GSD_1.0
Hdac6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X34,517,114 - 34,538,029 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936721758,181 - 778,053 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936721757,500 - 778,416 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HDAC6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX42,917,964 - 42,941,887 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X42,917,911 - 42,941,894 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X47,858,997 - 47,883,202 (+)NCBISscrofa10.2Sscrofa10.2susScr3
HDAC6
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X45,927,625 - 45,951,636 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 EnsemblX45,928,092 - 45,952,929 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366607611,407,911 - 11,431,438 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Hdac6
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624893608,540 - 628,580 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624893608,744 - 627,600 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Hdac6
53 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:148
Count of miRNA genes:67
Interacting mature miRNAs:71
Transcripts:ENSRNOT00000009295, ENSRNOT00000064924
Prediction methods:Miranda, Pita, 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.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70165Bp64Blood pressure QTL 645.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)X144812931706553Rat
1298071Edpm12Estrogen-dependent pituitary mass QTL 123.2pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)X292789847927898Rat
731181Uae27Urinary albumin excretion QTL 272.70.0059urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)X143491017Rat
10755455Coatc13Coat color QTL 130coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)7440600049406000Rat
631666Iddm5Insulin dependent diabetes mellitus QTL 5blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)X449454949494549Rat
634325Bw13Body weight QTL 130body mass (VT:0001259)body weight (CMO:0000012)X144797220991088Rat
631204Gluco15Glucose level QTL 150.001blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)X162371522646544Rat

Markers in Region
RH134245  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X14,572,163 - 14,572,372 (+)MAPPERmRatBN7.2
Rnor_6.0X15,417,205 - 15,417,413NCBIRnor6.0
Rnor_6.0X15,316,392 - 15,316,600NCBIRnor6.0
Rnor_5.0X16,198,440 - 16,198,648UniSTSRnor5.0
Rnor_5.0X16,096,633 - 16,096,841UniSTSRnor5.0
RGSC_v3.4X26,606,714 - 26,606,922UniSTSRGSC3.4
CeleraX14,656,920 - 14,657,128UniSTS
RH 3.4 MapX164.6UniSTS
Cytogenetic MapXq13UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
3 11 43 82 57 60 41 19 41 160 73 74 35 41 19

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001427028 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001427029 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_001057931 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_003754740 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006227289 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006256755 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006256756 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006256759 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039100468 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063279724 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063279726 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_228753 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AF321134 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH474078 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000021 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  KY009929 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000009295   ⟹   ENSRNOP00000009295
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX14,551,296 - 14,572,439 (+)Ensembl
Rnor_6.0 EnsemblX15,295,473 - 15,316,671 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000064924   ⟹   ENSRNOP00000063689
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX14,551,044 - 14,572,441 (+)Ensembl
Rnor_6.0 EnsemblX15,396,895 - 15,417,146 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000116471   ⟹   ENSRNOP00000096671
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX14,551,296 - 14,572,439 (+)Ensembl
RefSeq Acc Id: NM_001427028   ⟹   NP_001413957
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X17,223,175 - 17,244,373 (+)NCBI
RefSeq Acc Id: NM_001427029   ⟹   NP_001413958
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X17,223,175 - 17,244,373 (+)NCBI
RefSeq Acc Id: XM_006256759   ⟹   XP_006256821
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X17,223,106 - 17,244,367 (+)NCBI
mRatBN7.2X14,551,152 - 14,572,445 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039100468   ⟹   XP_038956396
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X17,222,538 - 17,244,367 (+)NCBI
mRatBN7.2X14,550,645 - 14,572,445 (+)NCBI
RefSeq Acc Id: XM_063279724   ⟹   XP_063135794
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X17,223,163 - 17,244,367 (+)NCBI
RefSeq Acc Id: XM_063279726   ⟹   XP_063135796
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X17,223,161 - 17,244,065 (+)NCBI
Ensembl Acc Id: ENSRNOP00000009295   ⟸   ENSRNOT00000009295
Ensembl Acc Id: ENSRNOP00000063689   ⟸   ENSRNOT00000064924
RefSeq Acc Id: XP_038956396   ⟸   XM_039100468
- Peptide Label: isoform X1
- UniProtKB: A0A1L5YJQ7 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_006256821   ⟸   XM_006256759
- Peptide Label: isoform X1
- UniProtKB: A0A1L5YJQ7 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000096671   ⟸   ENSRNOT00000116471
RefSeq Acc Id: XP_063135796   ⟸   XM_063279726
- Peptide Label: isoform X2
- UniProtKB: A0A1L5YJQ7 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063135794   ⟸   XM_063279724
- Peptide Label: isoform X1
- UniProtKB: A0A1L5YJQ7 (UniProtKB/TrEMBL)
RefSeq Acc Id: NP_001413958   ⟸   NM_001427029
- UniProtKB: A0A1L5YJQ7 (UniProtKB/TrEMBL)
RefSeq Acc Id: NP_001413957   ⟸   NM_001427028
- UniProtKB: A0A1L5YJQ7 (UniProtKB/TrEMBL)
Protein Domains
UBP-type

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZVD8-F1-model_v2 AlphaFold D3ZVD8 1-1155 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:619981 AgrOrtholog
Ensembl Genes ENSRNOG00000047281 Ensembl
  ENSRNOG00000048738 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000009295.7 UniProtKB/TrEMBL
  ENSRNOT00000064924 ENTREZGENE
  ENSRNOT00000064924.3 UniProtKB/TrEMBL
  ENSRNOT00000116471 ENTREZGENE
  ENSRNOT00000116471.1 UniProtKB/TrEMBL
Gene3D-CATH 3.30.40.10 UniProtKB/TrEMBL
  3.40.800.20 UniProtKB/TrEMBL
InterPro HDAC_PDAC UniProtKB/TrEMBL
  His_deacetylse UniProtKB/TrEMBL
  His_deacetylse_dom UniProtKB/TrEMBL
  His_deacetylse_dom_sf UniProtKB/TrEMBL
  Ureohydrolase_domain UniProtKB/TrEMBL
  Znf_RING/FYVE/PHD UniProtKB/TrEMBL
  Znf_UBP UniProtKB/TrEMBL
NCBI Gene Hdac6 ENTREZGENE
PANTHER HISTONE DEACETYLASE 6 UniProtKB/TrEMBL
  HISTONE DEACETYLASE HDAC1-RELATED UniProtKB/TrEMBL
Pfam Hist_deacetyl UniProtKB/TrEMBL
  zf-UBP UniProtKB/TrEMBL
PhenoGen Hdac6 PhenoGen
PRINTS HDASUPER UniProtKB/TrEMBL
PROSITE ZF_UBP UniProtKB/TrEMBL
RatGTEx ENSRNOG00000047281 RatGTEx
  ENSRNOG00000048738 RatGTEx
SMART ZnF_UBP UniProtKB/TrEMBL
Superfamily-SCOP RING/U-box UniProtKB/TrEMBL
  SSF52768 UniProtKB/TrEMBL
UniProt A0A0G2QC41_RAT UniProtKB/TrEMBL
  A0A1L5YJQ7 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6GM68_RAT UniProtKB/TrEMBL
  A6KP61_RAT UniProtKB/TrEMBL
  D3ZVD8_RAT UniProtKB/TrEMBL
UniProt Secondary F1LSE3 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Hdac6  histone deacetylase 6  LOC108348065  histone deacetylase 6  Data merged from RGD:11442569 737654 PROVISIONAL
2016-08-02 LOC108348065  histone deacetylase 6      Symbol and Name status set to provisional 70820 PROVISIONAL
2015-07-29 Hdac6  histone deacetylase 6  LOC100911205  histone deacetylase 6-like  Data merged from RGD:6494223 737654 PROVISIONAL
2012-07-05 LOC100911205  histone deacetylase 6-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2004-09-10 Hdac6  histone deacetylase 6      Symbol and Name status set to approved 1299863 APPROVED
2002-08-07 Hdac6  histone deacetylase 6      Symbol and Name status set to provisional 70820 PROVISIONAL