Hmgcs2 (3-hydroxy-3-methylglutaryl-Coenzyme A synthase 2) - Rat Genome Database

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Gene: Hmgcs2 (3-hydroxy-3-methylglutaryl-Coenzyme A synthase 2) Mus musculus
Analyze
Symbol: Hmgcs2
Name: 3-hydroxy-3-methylglutaryl-Coenzyme A synthase 2
RGD ID: 10713
MGI Page MGI
Description: Enables hydroxymethylglutaryl-CoA synthase activity. Predicted to be involved in acetyl-CoA metabolic process; farnesyl diphosphate biosynthetic process, mevalonate pathway; and ketone body biosynthetic process. Predicted to act upstream of or within cholesterol biosynthetic process. Located in mitochondrion. Is expressed in several structures, including alimentary system; cardiovascular system; facial bone primordium; nervous system; and reproductive system. Used to study HMG-CoA synthase 2 deficiency. Human ortholog(s) of this gene implicated in HMG-CoA synthase 2 deficiency. Orthologous to human HMGCS2 (3-hydroxy-3-methylglutaryl-CoA synthase 2).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 1300002P16; 3-hydroxy-3-methylglutaryl coenzyme A synthase; HMG-CoA synthase; hydroxymethylglutaryl-CoA synthase, mitochondrial; mH; mHS
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39398,187,747 - 98,218,054 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl398,187,751 - 98,218,054 (+)EnsemblGRCm39 Ensembl
GRCm38398,280,431 - 98,310,738 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl398,280,435 - 98,310,738 (+)EnsemblGRCm38mm10GRCm38
MGSCv37398,084,354 - 98,114,661 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36398,365,840 - 98,396,137 (+)NCBIMGSCv36mm8
Celera399,679,562 - 99,709,869 (+)NCBICelera
Cytogenetic Map3F2.2NCBI
cM Map342.74NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-catechin  (ISO)
(+)-dexrazoxane  (EXP)
(+)-schisandrin B  (ISO)
1,2-dimethylhydrazine  (EXP)
1-benzylpiperazine  (ISO)
14-Deoxy-11,12-didehydroandrographolide  (ISO)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (ISO)
2-butan-2-yl-4-[4-[4-[4-[[2-(2,4-dichlorophenyl)-2-(1,2,4-triazol-1-ylmethyl)-1,3-dioxolan-4-yl]methoxy]phenyl]-1-piperazinyl]phenyl]-1,2,4-triazol-3-one  (EXP)
3,3',4,4',5-pentachlorobiphenyl  (ISO)
3,3',5-triiodo-L-thyronine  (ISO)
3,4-methylenedioxymethamphetamine  (EXP)
3-chloropropane-1,2-diol  (EXP,ISO)
3-hydroxybutyric acid  (ISO)
4,4'-diaminodiphenylmethane  (ISO)
4,4'-sulfonyldiphenol  (EXP)
6-propyl-2-thiouracil  (ISO)
acetamide  (ISO)
acrylamide  (ISO)
aflatoxin B1  (EXP,ISO)
all-trans-retinoic acid  (EXP)
ammonium chloride  (ISO)
Aroclor 1254  (EXP)
benzalkonium chloride  (EXP)
benzo[a]pyrene  (EXP,ISO)
Benzo[k]fluoranthene  (EXP)
bezafibrate  (EXP)
bis(2-ethylhexyl) phthalate  (EXP,ISO)
bisphenol A  (EXP,ISO)
bromobenzene  (ISO)
cadmium atom  (EXP)
cadmium dichloride  (EXP)
calcium atom  (ISO)
calcium(0)  (ISO)
captan  (EXP)
carbon nanotube  (EXP)
carbonyl sulfide  (ISO)
carnosic acid  (EXP)
cefaloridine  (ISO)
cetrorelix  (ISO)
chenodeoxycholic acid  (ISO)
CHIR 99021  (ISO)
chlorpyrifos  (EXP)
ciglitazone  (ISO)
ciguatoxin CTX1B  (EXP)
ciprofibrate  (EXP)
clofibrate  (EXP,ISO)
Clofop  (ISO)
cobalt dichloride  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
corticosterone  (ISO)
Cuprizon  (ISO)
cyclosporin A  (EXP,ISO)
cytarabine  (ISO)
desogestrel  (ISO)
dexamethasone  (ISO)
dichlorine  (ISO)
dichloroacetic acid  (EXP)
diclofenac  (EXP)
dimethylarsinic acid  (EXP)
dipentyl phthalate  (ISO)
diquat  (EXP)
diuron  (ISO)
dopamine  (ISO)
dorsomorphin  (ISO)
doxorubicin  (EXP)
endosulfan  (ISO)
entinostat  (ISO)
ethanol  (EXP,ISO)
fenofibrate  (ISO)
fenoldopam  (ISO)
fipronil  (ISO)
flutamide  (ISO)
folic acid  (EXP)
folpet  (EXP)
fructose  (ISO)
fumonisin B1  (EXP)
furan  (ISO)
gadolinium trichloride  (ISO)
gemfibrozil  (ISO)
genistein  (ISO)
gentamycin  (ISO)
glafenine  (ISO)
glyphosate  (EXP)
GW 4064  (ISO)
GW 501516  (ISO)
GW 7647  (ISO)
Heptachlor epoxide  (EXP)
hydrazine  (EXP)
indometacin  (EXP,ISO)
iron atom  (ISO)
iron(0)  (ISO)
itraconazole  (EXP)
ketamine  (ISO)
ketoconazole  (EXP)
L-ascorbic acid  (ISO)
L-ascorbic acid 2-phosphate  (ISO)
lamivudine  (EXP)
lead diacetate  (EXP)
lithocholic acid  (EXP)
manganese atom  (ISO)
manganese(0)  (ISO)
manganese(II) chloride  (ISO)
menadione  (ISO)
Mesaconitine  (ISO)
methapyrilene  (ISO)
methidathion  (EXP)
methimazole  (ISO)
methotrexate  (ISO)
methylarsonic acid  (EXP)
mono(2-ethylhexyl) phthalate  (EXP)
morphine  (EXP)
Muraglitazar  (ISO)
N,N-diethyl-m-toluamide  (ISO)
N-nitrosodiethylamine  (ISO)
N-nitrosomorpholine  (ISO)
N-Nitrosopyrrolidine  (ISO)
nevirapine  (ISO)
nickel atom  (ISO)
nickel dichloride  (ISO)
nitrofen  (ISO)
O-methyleugenol  (ISO)
oxybenzone  (ISO)
ozone  (EXP,ISO)
p-toluidine  (ISO)
paclitaxel  (ISO)
paracetamol  (EXP,ISO)
perfluorodecanoic acid  (ISO)
perfluorododecanoic acid  (ISO)
perfluoroheptanoic acid  (ISO)
perfluorohexanesulfonic acid  (ISO)
perfluorononanoic acid  (ISO)
perfluorooctane-1-sulfonic acid  (EXP,ISO)
perfluorooctanoic acid  (EXP,ISO)
phenethyl caffeate  (ISO)
phenobarbital  (EXP,ISO)
PhIP  (ISO)
pirinixic acid  (EXP,ISO)
pregnenolone 16alpha-carbonitrile  (EXP)
progesterone  (ISO)
propiconazole  (EXP)
prostaglandin F2alpha  (ISO)
pyrazinecarboxamide  (ISO)
pyrrolidine dithiocarbamate  (ISO)
quercetin  (EXP,ISO)
resveratrol  (EXP)
rotenone  (ISO)
SB 431542  (ISO)
sodium arsenate  (EXP)
sodium arsenite  (EXP,ISO)
sodium dichromate  (ISO)
streptozocin  (ISO)
tacrolimus hydrate  (EXP)
tamoxifen  (EXP)
tebuconazole  (ISO)
Tesaglitazar  (ISO)
testosterone enanthate  (ISO)
Tetrachlorobisphenol A  (ISO)
tetrachloroethene  (EXP)
tetrachloromethane  (EXP,ISO)
tetracycline  (EXP)
tetrathiomolybdate(2-)  (ISO)
thiacloprid  (EXP)
thioacetamide  (ISO)
thiophanate-methyl  (EXP)
titanium dioxide  (EXP)
tributylstannane  (ISO)
trichloroethene  (EXP,ISO)
trimellitic anhydride  (EXP)
triptonide  (EXP)
troglitazone  (EXP,ISO)
urethane  (ISO)
ursodeoxycholic acid  (ISO)
valproic acid  (EXP,ISO)
vanadyl sulfate  (ISO)
XAV939  (ISO)
zidovudine  (EXP)
zinc atom  (ISO)
zinc sulfate  (ISO)
zinc(0)  (ISO)
ziram  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
acetyl-CoA metabolic process  (IBA,ISO)
adipose tissue development  (ISO)
cellular response to amino acid stimulus  (ISO)
cellular response to fatty acid  (ISO)
cellular response to glucocorticoid stimulus  (ISO)
cellular response to hormone stimulus  (ISO)
cellular response to insulin stimulus  (ISO)
cellular response to lipopolysaccharide  (ISO)
cellular response to organic cyclic compound  (ISO)
cholesterol biosynthetic process  (IEA)
cholesterol metabolic process  (IEA)
farnesyl diphosphate biosynthetic process, mevalonate pathway  (IBA)
isoprenoid biosynthetic process  (IEA)
ketone body biosynthetic process  (ISO)
kidney development  (ISO)
lipid metabolic process  (IEA)
liver development  (ISO)
lung development  (ISO)
midgut development  (ISO)
multicellular organismal response to stress  (ISO)
response to bacterium  (ISO)
response to cAMP  (ISO)
response to ethanol  (ISO)
response to fatty acid  (ISO)
response to glucagon  (ISO)
response to glucocorticoid  (ISO)
response to growth hormone  (ISO)
response to insulin  (ISO)
response to linoleic acid  (ISO)
response to metal ion  (ISO)
response to monosaccharide  (ISO)
response to nutrient  (ISO)
response to organic cyclic compound  (ISO)
response to peptide hormone  (ISO)
response to prostaglandin F  (ISO)
response to starvation  (ISO)
response to temperature stimulus  (ISO)
response to testosterone  (ISO)
response to triglyceride  (ISO)
response to xenobiotic stimulus  (ISO)
steroid biosynthetic process  (IEA)
steroid metabolic process  (IEA)
sterol biosynthetic process  (IEA)

Cellular Component

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. The ketogenic diet; fatty acids, fatty acid-activated receptors and neurological disorders. Cullingford TE Prostaglandins Leukot Essent Fatty Acids. 2004 Mar;70(3):253-64.
2. Transcriptional regulation of mitochondrial HMG-CoA synthase in the control of ketogenesis. Hegardt FG Biochimie. 1998 Oct;80(10):803-6.
3. Functional annotation of a full-length mouse cDNA collection. Kawai J, etal., Nature. 2001 Feb 8;409(6821):685-90.
4. Impaired ketogenesis is a major mechanism for disturbed hepatic fatty acid metabolism in rats with long-term cholestasis and after relief of biliary obstruction. Lang C, etal., J Hepatol. 2002 Nov;37(5):564-71.
5. Electronic Transfer of Homolog Data MGD and Homologene mouse data transfer
6. MGDs mouse GO annotations MGD data from the GO Consortium
7. Integrated analysis of protein composition, tissue diversity, and gene regulation in mouse mitochondria. Mootha VK, etal., Cell 2003 Nov 26;115(5):629-40.
8. Two-dimensional electrophoresis of liver proteins: characterization of a drug-induced hepatomegaly in rats. Newsholme SJ, etal., Electrophoresis. 2000 Jun;21(11):2122-8.
9. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
10. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
11. SMPDB Annotation Import Pipeline Pipeline to import SMPDB annotations from SMPDB into RGD
12. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
13. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
14. Regulation of mitochondrial 3-hydroxy-3-methylglutaryl-coenzyme A synthase protein by starvation, fat feeding, and diabetes. Serra D, etal., Arch Biochem Biophys. 1993 Nov 15;307(1):40-5.
15. miR-107-mediated decrease of HMGCS2 indicates poor outcomes and promotes cell migration in hepatocellular carcinoma. Su SG, etal., Int J Biochem Cell Biol. 2017 Oct;91(Pt A):53-59. doi: 10.1016/j.biocel.2017.08.016. Epub 2017 Sep 1.
Additional References at PubMed
PMID:7851882   PMID:7907092   PMID:8827514   PMID:8889548   PMID:9537422   PMID:10349636   PMID:10438476   PMID:10922068   PMID:11042159   PMID:11076861   PMID:11252174   PMID:11714850  
PMID:12466851   PMID:12477932   PMID:12865426   PMID:14662765   PMID:14681479   PMID:15489334   PMID:16141072   PMID:16141073   PMID:16498401   PMID:16602821   PMID:16916647   PMID:17208939  
PMID:18287559   PMID:18614015   PMID:19865483   PMID:21088282   PMID:21267068   PMID:21677750   PMID:21873635   PMID:22666383   PMID:22937132   PMID:23140645   PMID:23260145   PMID:23665349  
PMID:23676500   PMID:24315375   PMID:24391449   PMID:24717294   PMID:25124681   PMID:25904331   PMID:26108225   PMID:26767982   PMID:27689697   PMID:27776119   PMID:27874312   PMID:28188211  
PMID:28378742   PMID:28528772   PMID:31025252   PMID:31442404   PMID:31910233   PMID:32348758   PMID:32560809   PMID:32726607   PMID:33505018   PMID:33619377   PMID:34818540   PMID:35421611  
PMID:35710581   PMID:35794482   PMID:36220812   PMID:36420731   PMID:36629048   PMID:37225978   PMID:37296573   PMID:37561521   PMID:37898316   PMID:37990936  


Genomics

Comparative Map Data
Hmgcs2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39398,187,747 - 98,218,054 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl398,187,751 - 98,218,054 (+)EnsemblGRCm39 Ensembl
GRCm38398,280,431 - 98,310,738 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl398,280,435 - 98,310,738 (+)EnsemblGRCm38mm10GRCm38
MGSCv37398,084,354 - 98,114,661 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36398,365,840 - 98,396,137 (+)NCBIMGSCv36mm8
Celera399,679,562 - 99,709,869 (+)NCBICelera
Cytogenetic Map3F2.2NCBI
cM Map342.74NCBI
HMGCS2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381119,747,996 - 119,768,932 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1119,748,002 - 119,768,905 (-)EnsemblGRCh38hg38GRCh38
GRCh371120,290,619 - 120,311,555 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361120,092,525 - 120,113,041 (-)NCBINCBI36Build 36hg18NCBI36
Build 341120,003,046 - 120,023,560NCBI
Celera1118,521,355 - 118,542,283 (-)NCBICelera
Cytogenetic Map1p12NCBI
HuRef1118,149,159 - 118,170,093 (-)NCBIHuRef
CHM1_11120,406,161 - 120,427,088 (-)NCBICHM1_1
T2T-CHM13v2.01119,761,239 - 119,782,165 (-)NCBIT2T-CHM13v2.0
Hmgcs2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82188,564,348 - 188,590,872 (+)NCBIGRCr8
mRatBN7.22185,875,609 - 185,903,505 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2185,875,616 - 185,902,130 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2193,524,494 - 193,551,482 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02191,333,168 - 191,359,836 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02186,157,074 - 186,184,065 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02200,452,623 - 200,480,785 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2200,452,624 - 200,479,423 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02219,928,546 - 219,956,233 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42193,128,736 - 193,143,106 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12193,091,489 - 193,105,860 (+)NCBI
Celera2178,363,353 - 178,390,245 (+)NCBICelera
Cytogenetic Map2q34NCBI
Hmgcs2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543522,804,484 - 22,821,482 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495543522,804,484 - 22,820,807 (-)NCBIChiLan1.0ChiLan1.0
HMGCS2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21112,370,431 - 112,392,565 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11111,972,859 - 111,994,914 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0182,778,489 - 82,798,987 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11117,776,165 - 117,796,679 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1117,775,770 - 117,796,679 (+)Ensemblpanpan1.1panPan2
HMGCS2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11756,679,942 - 56,698,521 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1756,680,301 - 56,698,419 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1756,315,432 - 56,328,270 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01757,558,992 - 57,577,456 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1757,554,455 - 57,577,399 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11756,594,625 - 56,613,171 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01756,620,825 - 56,639,082 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01757,237,948 - 57,256,436 (-)NCBIUU_Cfam_GSD_1.0
Hmgcs2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505810,015,851 - 10,037,163 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366274,451,823 - 4,473,223 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366274,451,847 - 4,473,163 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LOC110260333
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl4101,385,512 - 101,443,405 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.14101,385,486 - 101,404,273 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
HMGCS2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12014,018,669 - 14,040,934 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2014,019,692 - 14,041,016 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603816,649,801 - 16,670,981 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Hmgcs2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462477215,432,198 - 15,467,797 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462477215,432,612 - 15,464,343 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Hmgcs2
1179 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:943
Count of miRNA genes:433
Interacting mature miRNAs:510
Transcripts:ENSMUST00000090746, ENSMUST00000120541
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.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
26884436Zlq3_mzygomatic length QTL 3, 10 week (mouse)33265060142405761Mouse
4142399Aec1_mautoimmune exocrinopathy 1 (mouse)Not determined7586174102690034Mouse
26884427Cvht4_mcranial vault height 4, 10 week (mouse)316054164109707316Mouse
13207570Tcq12_mtotal cholesterol QTL 12 (mouse)316504164130163649Mouse
26884422Cvht7_mcranial vault height 7, 16 week (mouse)328954149118893649Mouse
1302056Orgwq4_morgan weight QTL 4 (mouse)Not determined330067588147304689Mouse
1301705Sles3_msystemic lupus erythmatosus suppressor 3 (mouse)Not determined337174862143353183Mouse
13208566Bmiq5_mbody mass index QTL 5 (mouse)340954435115793649Mouse
26884380Skwq1_mskull length QTL 1, 5 week (mouse)343954435101607316Mouse
26884378Skwq6_mskull length QTL 6, 10 week (mouse)351907421102307316Mouse
26884382Bzwq1_mbi-zygomatic width QTL 1, 5 week (mouse)352207421137205761Mouse
11039519Ltpr3_mLeishmania tropica response 3 (mouse)356704102100464137Mouse
1301971Cia5_mcollagen induced arthritis QTL 5 (mouse)Not determined366046658100046795Mouse
25314313Syncl1_msynaptonemal complex length 1 (mouse)367907333128393649Mouse
11251721Ewc3_methanol withdrawal and consumption 3 (mouse)369568554103568554Mouse
1301791Char4_mP. chabaudi malaria resistance QTL 4 (mouse)Not determined369625509100655290Mouse
1301422Sle11_msystematic lupus erythematosus susceptibility 11 (mouse)Not determined370208904104209042Mouse
11049572Lmr11c_mleishmaniasis resistance 11c (mouse)372139967106140094Mouse
1300982Lmr11_mleishmaniasis resistance 11 (mouse)Not determined372139967106140094Mouse
1300595Tmevd2_mTheiler's murine encephalomyelitis virus induced demyelinating disease susceptibility 2 (mouse)Not determined375463302109463549Mouse
1301392Eae3_msusceptibility to experimental allergic encephalomyelitis 3 (mouse)Not determined379548730113548837Mouse
1301947Pcfm3_mperiosteal circumference and femur length 3 (mouse)Not determined381084652115084797Mouse
1301904Iba2_minduction of brown adipocytes 2 (mouse)Not determined382147043116147184Mouse
11041900Lmr11a_mleishmaniasis resistance 11a (mouse)383463991117464137Mouse
11039510Ltpr3d_mLeishmania tropica response 3d (mouse)383463991117464137Mouse
11039511Ltpr3c_mLeishmania tropica response 3c (mouse)383463991117464137Mouse
11039507Ltpr3g_mLeishmania tropica response 3g (mouse)383463991117464137Mouse
11039508Ltpr3f_mLeishmania tropica response 3f (mouse)383463991117464137Mouse
11039509Ltpr3e_mLeishmania tropica response 3e (mouse)383463991117464137Mouse
11039512Ltpr3b_mLeishmania tropica response 3b (mouse)383463991117464137Mouse
1301272Cfsw1_mcystic fibrosis survival to weaning 1 (mouse)Not determined383882912117883044Mouse
4142099Cq3_mcholesterol QTL 3 (mouse)Not determined384888918118889067Mouse
14746984Manh54_mmandible shape 54 (mouse)385289152119289152Mouse
1357583Sle18_msystematic lupus erythematosus susceptibility 18 (mouse)Not determined387208904125316236Mouse
12738440Twq3_mtestis weight QTL 3 (mouse)387228015121228015Mouse
4142178Ctrq2_mC. trachomatis resistance QTL 2 (mouse)Not determined389139967137453008Mouse
10766455Sle22_msystematic lupus erythematosus susceptibility 22 (mouse)390376936124377072Mouse
14747001Mancz4_mmandible centroid size 4 (mouse)390378017124378017Mouse
1301398Rapop3_mradiation-induced apoptosis 3 (mouse)Not determined390511217100464137Mouse
1302052Etohcta4_methanol conditioned taste aversion 4 (mouse)Not determined391000105125008748Mouse
1301349Pgia26_mproteoglycan induced arthritis 26 (mouse)Not determined392251533126251650Mouse
27226732Tibmd3_mtibia midshaft diameter 3, 10 week (mouse)396607316147805636Mouse
1301277nctm1_mNakano cataract modifier 1 (mouse)Not determined397698638100373060Mouse

Markers in Region
U12791  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38398,309,097 - 98,309,253UniSTSGRCm38
MGSCv37398,113,020 - 98,113,176UniSTSGRCm37
Celera399,708,228 - 99,708,384UniSTS
Cytogenetic Map3F2.2UniSTS
Whitehead_YAC3 UniSTS
Hmgcs2  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map3F2.2UniSTS
cM Map348.0UniSTS


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000090746   ⟹   ENSMUSP00000088249
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl398,187,751 - 98,218,054 (+)Ensembl
GRCm38.p6 Ensembl398,280,435 - 98,310,738 (+)Ensembl
RefSeq Acc Id: ENSMUST00000120541   ⟹   ENSMUSP00000113296
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl398,187,751 - 98,218,048 (+)Ensembl
GRCm38.p6 Ensembl398,280,435 - 98,310,732 (+)Ensembl
RefSeq Acc Id: NM_008256   ⟹   NP_032282
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39398,187,747 - 98,218,054 (+)NCBI
GRCm38398,280,431 - 98,310,738 (+)ENTREZGENE
MGSCv37398,084,354 - 98,114,661 (+)RGD
Celera399,679,562 - 99,709,869 (+)RGD
cM Map3 ENTREZGENE
Sequence:
Reference Protein Sequences
RefSeq Acc Id: NP_032282   ⟸   NM_008256
- Peptide Label: precursor
- UniProtKB: Q9DBK1 (UniProtKB/Swiss-Prot),   Q64740 (UniProtKB/Swiss-Prot),   Q9DBM4 (UniProtKB/Swiss-Prot),   P54869 (UniProtKB/Swiss-Prot),   Q8N7N8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSMUSP00000088249   ⟸   ENSMUST00000090746
RefSeq Acc Id: ENSMUSP00000113296   ⟸   ENSMUST00000120541
Protein Domains
Hydroxymethylglutaryl-coenzyme A synthase C-   Hydroxymethylglutaryl-coenzyme A synthase N-

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P54869-F1-model_v2 AlphaFold P54869 1-508 view protein structure

Promoters
RGD ID:6833959
Promoter ID:MM_KWN:35464
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Liver
Transcripts:ENSMUST00000120541,   OTTMUST00000065217
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36398,084,146 - 98,084,646 (+)MPROMDB
RGD ID:6881760
Promoter ID:EPDNEW_M4331
Type:multiple initiation site
Name:Hmgcs2_1
Description:Mus musculus 3-hydroxy-3-methylglutaryl-Coenzyme A synthase 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
GRCm38398,280,435 - 98,280,495EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:101939 AgrOrtholog
Ensembl Genes ENSMUSG00000027875 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000090746 ENTREZGENE
  ENSMUST00000090746.3 UniProtKB/Swiss-Prot
  ENSMUST00000120541.8 UniProtKB/Swiss-Prot
Gene3D-CATH 3.40.47.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro HMG_CoA_synt_AS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  HMG_CoA_synt_C_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  HMG_CoA_synth_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  HMG_CoA_synthase_euk UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Thiolase-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:15360 UniProtKB/Swiss-Prot
MGD MGI:101939 ENTREZGENE
NCBI Gene 15360 ENTREZGENE
PANTHER 3-HYDROXY-3-METHYLGLUTARYL COENZYME A SYNTHASE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  HYDROXYMETHYLGLUTARYL-COA SYNTHASE, MITOCHONDRIAL UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam HMG_CoA_synt_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  HMG_CoA_synt_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Hmgcs2 PhenoGen
PROSITE HMG_COA_SYNTHASE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF53901 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt HMCS2_MOUSE UniProtKB/Swiss-Prot, ENTREZGENE
  Q64740 ENTREZGENE
  Q8N7N8 ENTREZGENE, UniProtKB/TrEMBL
  Q9DBK1 ENTREZGENE
  Q9DBM4 ENTREZGENE
UniProt Secondary Q64740 UniProtKB/Swiss-Prot
  Q9DBK1 UniProtKB/Swiss-Prot
  Q9DBM4 UniProtKB/Swiss-Prot