Hdac6 (histone deacetylase 6) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: Hdac6 (histone deacetylase 6) Mus musculus
Analyze
Symbol: Hdac6
Name: histone deacetylase 6
RGD ID: 1552302
MGI Page MGI
Description: Enables cytoskeletal protein binding activity; protein lysine deacetylase activity; and ubiquitin binding activity. Involved in several processes, including positive regulation of mitophagy in response to mitochondrial depolarization; positive regulation of peptidyl-serine phosphorylation; and protein destabilization. Acts upstream of or within several processes, including aggresome assembly; erythrocyte enucleation; and neuron projection morphogenesis. Located in several cellular components, including dendrite; microtubule cytoskeleton; and perikaryon. Part of protein-containing complex. Is expressed in several structures, including central nervous system; early embryo; gut gland; lung; and metanephros. Human ortholog(s) of this gene implicated in chondrodysplasia with platyspondyly, distinctive brachydactyly, hydrocephaly, and microphthalmia. Orthologous to human HDAC6 (histone deacetylase 6).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Hd6; Hdac5; histone deacetylase 5; histone deacetylase mHDA2; mHDA; mHDA2; scurfy candidate 6; Sfc; Sfc6; tubulin-lysine deacetylase HDAC6
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
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
JBrowse: View Region in Genome Browser (JBrowse)
Model


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

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
actin filament organization  (IMP)
aggresome assembly  (IGI,ISO)
axonal transport of mitochondrion  (ISO)
cellular response to hydrogen peroxide  (ISO)
cellular response to misfolded protein  (IMP)
cellular response to parathyroid hormone stimulus  (ISO)
cellular response to topologically incorrect protein  (ISO)
chromatin organization  (IEA)
cilium disassembly  (ISO)
collateral sprouting  (IMP)
dendritic spine morphogenesis  (IMP)
epigenetic regulation of gene expression  (IBA)
erythrocyte enucleation  (IMP)
intracellular protein transport  (ISO)
lysosome localization  (ISO)
mitochondrion localization  (IMP)
myotube differentiation  (IMP,ISO)
negative regulation of aggrephagy  (ISO)
negative regulation of axon extension involved in axon guidance  (ISO)
negative regulation of gene expression, epigenetic  (ISO)
negative regulation of microtubule depolymerization  (IDA)
negative regulation of neuron projection development  (ISO)
negative regulation of protein acetylation  (ISO)
negative regulation of protein-containing complex assembly  (ISO)
negative regulation of protein-containing complex disassembly  (ISO)
negative regulation of proteolysis  (ISO)
neuron differentiation  (ISO)
parkin-mediated stimulation of mitophagy in response to mitochondrial depolarization  (ISO)
polyamine deacetylation  (ISO)
polyubiquitinated misfolded protein transport  (ISO)
positive regulation of cellular response to oxidative stress  (ISO)
positive regulation of cholangiocyte proliferation  (ISO)
positive regulation of dendrite morphogenesis  (ISO)
positive regulation of epithelial cell migration  (ISO)
positive regulation of mitophagy in response to mitochondrial depolarization  (IGI)
positive regulation of peptidyl-serine phosphorylation  (IMP,ISO)
positive regulation of synaptic transmission, glutamatergic  (ISO)
positive regulation of tubulin deacetylation  (ISO)
protein destabilization  (IMP)
protein polyubiquitination  (IDA)
protein quality control for misfolded or incompletely synthesized proteins  (ISO)
protein-containing complex disassembly  (IGI)
regulation of establishment of protein localization  (IMP)
regulation of fat cell differentiation  (IMP)
regulation of macroautophagy  (ISO)
regulation of microtubule cytoskeleton organization  (ISO)
regulation of mitochondrion organization  (ISO)
regulation of protein phosphorylation  (ISO)
regulation of protein stability  (ISO)
response to amphetamine  (ISO)
response to corticosterone  (ISO)
response to dexamethasone  (ISO)
response to growth factor  (ISO)
response to immobilization stress  (ISO)
response to misfolded protein  (ISO)
skeletal muscle tissue development  (IMP,ISO)
spermidine deacetylation  (ISO)
ubiquitin-dependent protein catabolic process  (IGI,IMP)
ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway  (IMP)

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
Phenotype Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. 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.
2. Mutations in a delta 8-delta 7 sterol isomerase in the tattered mouse and X-linked dominant chondrodysplasia punctata. jderry@immunex.com. Derry JM, etal., Nat Genet 1999 Jul;22(3):286-90.
3. 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.
4. 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.
5. 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.
6. Combination of proteasome and HDAC inhibitors for uterine cervical cancer treatment. Lin Z, etal., Clin Cancer Res. 2009 Jan 15;15(2):570-7.
7. A transcript map of a 2-Mb BAC contig in the proximal portion of the mouse X chromosome and regional mapping of the scurfy mutation. Means GD, etal., Genomics 2000 May 1;65(3):213-23.
8. MGDs mouse GO annotations MGD data from the GO Consortium
9. Large-scale screen for genes controlling mammalian embryogenesis, using high-throughput gene expression analysis in mouse embryos. Neidhardt L, etal., Mech Dev 2000 Nov;98(1-2):77-94.
10. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
11. 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.
12. Mouse MP Annotation Import Pipeline RGD automated import pipeline
13. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
14. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
15. 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.
16. 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:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:11544199   PMID:11689694   PMID:12372765   PMID:12466851   PMID:12477932   PMID:12486003  
PMID:14610273   PMID:15102857   PMID:15347674   PMID:15367668   PMID:15537544   PMID:15782199   PMID:15916966   PMID:15976449   PMID:16141072   PMID:16141073   PMID:16272578   PMID:16602821  
PMID:16810319   PMID:16873063   PMID:16899714   PMID:16933150   PMID:17389687   PMID:17785525   PMID:17846173   PMID:17938201   PMID:18180281   PMID:18196966   PMID:18635817   PMID:18794144  
PMID:18799693   PMID:18824292   PMID:19033385   PMID:19457097   PMID:19641021   PMID:19737819   PMID:19893491   PMID:19910924   PMID:20059953   PMID:20075865   PMID:20133936   PMID:20233974  
PMID:20360068   PMID:20457763   PMID:20596014   PMID:20696758   PMID:20886111   PMID:21220424   PMID:21267068   PMID:21444725   PMID:21677750   PMID:21677773   PMID:21731673   PMID:21785432  
PMID:21791548   PMID:21847094   PMID:21873635   PMID:22022450   PMID:22193721   PMID:22210316   PMID:22328923   PMID:22367781   PMID:22457490   PMID:22492994   PMID:22504143   PMID:22575637  
PMID:22651689   PMID:22715468   PMID:22778253   PMID:22792322   PMID:22932141   PMID:22955928   PMID:22957056   PMID:23126280   PMID:23152903   PMID:23184605   PMID:23258539   PMID:23364049  
PMID:23487739   PMID:23532979   PMID:23580651   PMID:23962722   PMID:24035499   PMID:24089523   PMID:24113571   PMID:24146251   PMID:24200693   PMID:24302573   PMID:24632940   PMID:24667272  
PMID:24726361   PMID:24747960   PMID:24771510   PMID:24858848   PMID:24866403   PMID:24882211   PMID:24952961   PMID:24955524   PMID:25011550   PMID:25070956   PMID:25108026   PMID:25271058  
PMID:25298398   PMID:25330030   PMID:25442004   PMID:25482409   PMID:25516595   PMID:25552369   PMID:25662604   PMID:25817558   PMID:25873389   PMID:26164555   PMID:26198811   PMID:26210454  
PMID:26372908   PMID:26445700   PMID:26447190   PMID:26452072   PMID:26471297   PMID:26496610   PMID:26507311   PMID:26581825   PMID:26649145   PMID:26746851   PMID:26775640   PMID:26869226  
PMID:27028867   PMID:27165822   PMID:27208785   PMID:27222932   PMID:27365406   PMID:27372014   PMID:27430620   PMID:27435857   PMID:27506979   PMID:27544826   PMID:27573019   PMID:27737934  
PMID:27900262   PMID:27997532   PMID:28028172   PMID:28052874   PMID:28116619   PMID:28188215   PMID:28190767   PMID:28251586   PMID:28255013   PMID:28273454   PMID:28287402   PMID:28382171  
PMID:28416194   PMID:28507509   PMID:28623308   PMID:28674407   PMID:28700998   PMID:28737768   PMID:28760828   PMID:28811097   PMID:28811599   PMID:28854366   PMID:28887310   PMID:29048427  
PMID:29054408   PMID:29281743   PMID:29355491   PMID:29415205   PMID:29434588   PMID:29447134   PMID:29520015   PMID:29791853   PMID:29890133   PMID:29896294   PMID:29980788   PMID:30102568  
PMID:30409884   PMID:30446775   PMID:30550785   PMID:30910594   PMID:30981804   PMID:30999900   PMID:31068376   PMID:31162944   PMID:31218594   PMID:31264358   PMID:31311988   PMID:31356453  
PMID:31600191   PMID:31750881   PMID:32017059   PMID:32147437   PMID:32174022   PMID:32275885   PMID:32325033   PMID:32546531   PMID:32550904   PMID:32554809   PMID:32605998   PMID:32640546  
PMID:32697819   PMID:32771698   PMID:32796032   PMID:32803714   PMID:32849638   PMID:32885602   PMID:32943500   PMID:32973784   PMID:33004910   PMID:33139698   PMID:33168187   PMID:33329575  
PMID:33895473   PMID:34052832   PMID:34119632   PMID:34161765   PMID:34234781   PMID:34280336   PMID:34321999   PMID:34326423   PMID:34620845   PMID:34638868   PMID:34976203   PMID:35167193  
PMID:35323110   PMID:35534985   PMID:35575093   PMID:35678904   PMID:35842608   PMID:35922041   PMID:36068335   PMID:36444797   PMID:36581745   PMID:36594386   PMID:36788143   PMID:36958689  
PMID:37373121   PMID:37642636   PMID:37890489   PMID:38043200   PMID:38199570   PMID:38334424   PMID:38409164   PMID:38466143   PMID:38569472  


Genomics

Comparative Map Data
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
(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
(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
(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
451 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:1447
Count of miRNA genes:620
Interacting mature miRNAs:750
Transcripts:ENSMUST00000033501, ENSMUST00000115642, ENSMUST00000133349, ENSMUST00000137499, ENSMUST00000145675, ENSMUST00000151916, ENSMUST00000153788, ENSMUST00000154200, ENSMUST00000154244, ENSMUST00000156127
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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1302195Pbwg10_mpostnatal body weight growth 10 (mouse)Not determinedX126202173Mouse
1357433Dbts2_mdiabetes 2 (mouse)Not determinedX7226295150107038Mouse

Markers in Region
RH126845  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38X7,942,805 - 7,943,021UniSTSGRCm38
MGSCv37X7,519,931 - 7,520,147UniSTSGRCm37
CeleraX3,526,378 - 3,526,594UniSTS
Cytogenetic MapXA1.1UniSTS
Whitehead/MRC_RHX40.26UniSTS
AF006603  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38X7,930,290 - 7,930,393UniSTSGRCm38
MGSCv37X7,507,416 - 7,507,519UniSTSGRCm37
CeleraX3,538,938 - 3,539,041UniSTS
Cytogenetic MapXA1.1UniSTS
Whitehead/MRC_RHX39.85UniSTS
DXImx16  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38X7,934,813 - 7,934,997UniSTSGRCm38
MGSCv37X7,511,939 - 7,512,123UniSTSGRCm37
Cytogenetic MapXA1.1UniSTS
cM MapX UniSTS
DXImx17  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38X7,935,396 - 7,935,543UniSTSGRCm38
MGSCv37X7,512,522 - 7,512,669UniSTSGRCm37
CeleraX3,533,857 - 3,534,004UniSTS
Cytogenetic MapXA1.1UniSTS
cM MapX2.0UniSTS
OMM5169  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38X7,948,218 - 7,948,918UniSTSGRCm38
MGSCv37X7,525,344 - 7,526,044UniSTSGRCm37
Cytogenetic MapXA1.1UniSTS


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001130416 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001411604 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001411606 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001411607 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001411608 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001411612 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_010413 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NR_177433 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NR_177434 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017318389 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_036161824 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AF006603 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK148092 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK148144 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK154099 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK155545 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK155546 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK177646 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK178087 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK182664 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK183013 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK184333 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK184549 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK187745 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK197897 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK199628 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK212628 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK219790 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AL670169 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC033428 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC041105 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BM250542 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BY195054 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BY234769 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH466638 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSMUST00000033501   ⟹   ENSMUSP00000033501
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 EnsemblX7,796,361 - 7,814,128 (-)Ensembl
GRCm38.p6 EnsemblX7,930,122 - 7,947,889 (-)Ensembl
RefSeq Acc Id: ENSMUST00000115642   ⟹   ENSMUSP00000111306
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 EnsemblX7,796,359 - 7,814,128 (-)Ensembl
GRCm38.p6 EnsemblX7,930,120 - 7,947,889 (-)Ensembl
RefSeq Acc Id: ENSMUST00000133349   ⟹   ENSMUSP00000120348
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 EnsemblX7,809,662 - 7,813,792 (-)Ensembl
GRCm38.p6 EnsemblX7,943,423 - 7,947,553 (-)Ensembl
RefSeq Acc Id: ENSMUST00000137499
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 EnsemblX7,796,363 - 7,814,077 (-)Ensembl
GRCm38.p6 EnsemblX7,930,124 - 7,947,838 (-)Ensembl
RefSeq Acc Id: ENSMUST00000145675   ⟹   ENSMUSP00000121653
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 EnsemblX7,797,598 - 7,814,128 (-)Ensembl
GRCm38.p6 EnsemblX7,931,359 - 7,947,889 (-)Ensembl
RefSeq Acc Id: ENSMUST00000151916
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 EnsemblX7,803,561 - 7,804,911 (-)Ensembl
GRCm38.p6 EnsemblX7,937,322 - 7,938,672 (-)Ensembl
RefSeq Acc Id: ENSMUST00000153788
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 EnsemblX7,797,794 - 7,800,724 (-)Ensembl
GRCm38.p6 EnsemblX7,931,555 - 7,934,485 (-)Ensembl
RefSeq Acc Id: ENSMUST00000154200
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 EnsemblX7,809,638 - 7,813,398 (-)Ensembl
GRCm38.p6 EnsemblX7,943,399 - 7,947,159 (-)Ensembl
RefSeq Acc Id: ENSMUST00000154244   ⟹   ENSMUSP00000123482
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 EnsemblX7,813,233 - 7,814,006 (-)Ensembl
GRCm38.p6 EnsemblX7,946,994 - 7,947,767 (-)Ensembl
RefSeq Acc Id: ENSMUST00000156127
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 EnsemblX7,803,668 - 7,806,203 (-)Ensembl
GRCm38.p6 EnsemblX7,937,429 - 7,939,964 (-)Ensembl
RefSeq Acc Id: NM_001130416   ⟹   NP_001123888
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39X7,796,359 - 7,814,036 (-)NCBI
GRCm38X7,930,122 - 7,947,889 (-)NCBI
MGSCv37X7,507,248 - 7,525,015 (-)RGD
CeleraX3,521,555 - 3,539,209 (+)RGD
cM MapX ENTREZGENE
Sequence:
RefSeq Acc Id: NM_001411604   ⟹   NP_001398533
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39X7,796,359 - 7,814,036 (-)NCBI
RefSeq Acc Id: NM_001411606   ⟹   NP_001398535
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39X7,796,359 - 7,814,036 (-)NCBI
RefSeq Acc Id: NM_001411607   ⟹   NP_001398536
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39X7,796,359 - 7,814,036 (-)NCBI
RefSeq Acc Id: NM_001411608   ⟹   NP_001398537
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39X7,796,359 - 7,814,036 (-)NCBI
RefSeq Acc Id: NM_001411612   ⟹   NP_001398541
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39X7,796,359 - 7,814,036 (-)NCBI
RefSeq Acc Id: NM_010413   ⟹   NP_034543
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39X7,796,359 - 7,814,036 (-)NCBI
GRCm38X7,930,122 - 7,947,889 (-)NCBI
MGSCv37X7,507,248 - 7,525,015 (-)RGD
CeleraX3,521,555 - 3,539,209 (+)RGD
cM MapX ENTREZGENE
Sequence:
RefSeq Acc Id: NR_177433
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39X7,796,359 - 7,814,036 (-)NCBI
RefSeq Acc Id: NR_177434
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39X7,796,359 - 7,814,036 (-)NCBI
RefSeq Acc Id: XM_017318389   ⟹   XP_017173878
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39X7,796,355 - 7,814,284 (-)NCBI
GRCm38X7,930,116 - 7,948,047 (-)NCBI
Sequence:
RefSeq Acc Id: XM_036161824   ⟹   XP_036017717
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39X7,796,355 - 7,814,123 (-)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: NP_034543   ⟸   NM_010413
- Peptide Label: isoform 2
- UniProtKB: B1AUA6 (UniProtKB/Swiss-Prot),   Q9Z2V5 (UniProtKB/Swiss-Prot),   Q3U4Q5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001123888   ⟸   NM_001130416
- Peptide Label: isoform 2
- UniProtKB: B1AUA6 (UniProtKB/Swiss-Prot),   Q9Z2V5 (UniProtKB/Swiss-Prot),   Q3U4Q5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017173878   ⟸   XM_017318389
- Peptide Label: isoform X1
- UniProtKB: B1AUA6 (UniProtKB/Swiss-Prot),   Q9Z2V5 (UniProtKB/Swiss-Prot),   Q3U4Q5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSMUSP00000120348   ⟸   ENSMUST00000133349
RefSeq Acc Id: ENSMUSP00000121653   ⟸   ENSMUST00000145675
RefSeq Acc Id: ENSMUSP00000033501   ⟸   ENSMUST00000033501
RefSeq Acc Id: ENSMUSP00000123482   ⟸   ENSMUST00000154244
RefSeq Acc Id: ENSMUSP00000111306   ⟸   ENSMUST00000115642
RefSeq Acc Id: XP_036017717   ⟸   XM_036161824
- Peptide Label: isoform X1
- UniProtKB: Q9Z2V5 (UniProtKB/Swiss-Prot),   B1AUA6 (UniProtKB/Swiss-Prot),   Q3U4Q5 (UniProtKB/TrEMBL)
RefSeq Acc Id: NP_001398536   ⟸   NM_001411607
- Peptide Label: isoform 2
- UniProtKB: Q9Z2V5 (UniProtKB/Swiss-Prot),   B1AUA6 (UniProtKB/Swiss-Prot)
RefSeq Acc Id: NP_001398537   ⟸   NM_001411608
- Peptide Label: isoform 3
RefSeq Acc Id: NP_001398541   ⟸   NM_001411612
- Peptide Label: isoform 4
RefSeq Acc Id: NP_001398535   ⟸   NM_001411606
- Peptide Label: isoform 2
- UniProtKB: Q9Z2V5 (UniProtKB/Swiss-Prot),   B1AUA6 (UniProtKB/Swiss-Prot)
RefSeq Acc Id: NP_001398533   ⟸   NM_001411604
- Peptide Label: isoform 1
Protein Domains
Histone deacetylase   UBP-type

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9Z2V5-F1-model_v2 AlphaFold Q9Z2V5 1-1149 view protein structure

Promoters
RGD ID:6845830
Promoter ID:MM_KWN:59458
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Spleen
Transcripts:OTTMUST00000041594
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36X7,512,241 - 7,512,741 (-)MPROMDB
RGD ID:6845828
Promoter ID:MM_KWN:59459
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:BoneMarrow_2Hour
Transcripts:OTTMUST00000041593
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36X7,516,236 - 7,516,736 (-)MPROMDB
RGD ID:6845829
Promoter ID:MM_KWN:59460
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Spleen
Transcripts:OTTMUST00000041592,   UC009SNH.1
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36X7,516,591 - 7,517,091 (-)MPROMDB
RGD ID:6845826
Promoter ID:MM_KWN:59461
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Kidney,   Liver,   Lung,   MEF_B4,   MEF_B6,   Spleen
Transcripts:ENSMUST00000033501,   ENSMUST00000115642,   NM_010413,   OTTMUST00000041587,   OTTMUST00000041589,   OTTMUST00000041590,   OTTMUST00000041591,   UC009SNI.1,   UC009SNK.1
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36X7,524,826 - 7,525,492 (-)MPROMDB
RGD ID:13680016
Promoter ID:EPDNEW_M24157
Type:initiation region
Name:Hdac6_1
Description:Mus musculus histone deacetylase 6 , transcript variant 2, mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38X7,947,797 - 7,947,857EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1333752 AgrOrtholog
Ensembl Genes ENSMUSG00000031161 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000033501 ENTREZGENE
  ENSMUST00000033501.15 UniProtKB/Swiss-Prot
  ENSMUST00000115642 ENTREZGENE
  ENSMUST00000115642.8 UniProtKB/Swiss-Prot
  ENSMUST00000133349.2 UniProtKB/TrEMBL
  ENSMUST00000145675.8 UniProtKB/TrEMBL
  ENSMUST00000154244.2 UniProtKB/TrEMBL
Gene3D-CATH 3.30.40.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  3.40.800.20 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro His_deacetylse 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
  Znf_RING/FYVE/PHD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Znf_UBP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:15185 UniProtKB/Swiss-Prot
MGD MGI:1333752 ENTREZGENE
NCBI Gene 15185 ENTREZGENE
PANTHER HISTONE DEACETYLASE 6 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  HISTONE DEACETYLASE HDAC1-RELATED UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Hist_deacetyl UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  zf-UBP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Hdac6 PhenoGen
PRINTS HDASUPER UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE ZF_UBP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART ZnF_UBP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP RING/U-box UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF52768 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A1B0GX25_MOUSE UniProtKB/TrEMBL
  B1AUA6 ENTREZGENE
  B1AUA8_MOUSE UniProtKB/TrEMBL
  B1AUA9_MOUSE UniProtKB/TrEMBL
  HDAC6_MOUSE UniProtKB/Swiss-Prot
  Q3U4Q5 ENTREZGENE, UniProtKB/TrEMBL
  Q3UG37_MOUSE UniProtKB/TrEMBL
  Q8CGC3_MOUSE UniProtKB/TrEMBL
  Q9Z2V5 ENTREZGENE
UniProt Secondary A0A0A6YYQ7 UniProtKB/TrEMBL
  A0A0K0K1F1 UniProtKB/TrEMBL
  B1AUA6 UniProtKB/Swiss-Prot
  F6Q3W9 UniProtKB/TrEMBL