Lss (lanosterol synthase) - Rat Genome Database

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Advanced Search (OLGA)
Gene: Lss (lanosterol synthase) Rattus norvegicus
Analyze
Symbol: Lss
Name: lanosterol synthase
RGD ID: 620955
Description: Enables lanosterol synthase activity. Involved in cholesterol biosynthetic process. Predicted to be located in endoplasmic reticulum membrane. Predicted to be active in lipid droplet. Human ortholog(s) of this gene implicated in alopecia-mental retardation syndrome 4; cataract; cataract 44; and hypotrichosis 14. Orthologous to human LSS (lanosterol synthase); PARTICIPATES IN cholesterol biosynthetic pathway; alendronate pharmacodynamics pathway; cholesterol ester storage disease pathway; INTERACTS WITH 1-naphthyl isothiocyanate; 17alpha-ethynylestradiol; 17beta-estradiol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: 2,3-epoxysqualene--lanosterol cyclase; 2,3-oxidosqualene: lanosterol cyclase; lanosterol synthase (2,3-oxidosqualene-lanosterol cyclase); LOC103690153; OSC; oxidosqualene--lanosterol cyclase; uncharacterized LOC103690153
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Allele / Splice: Lssem2Mcwi
Genetic Models: SS-Lssem2Mcwi
Is Marker For: Strains:   SCR/Sscr  
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82012,090,641 - 12,118,230 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl2012,073,543 - 12,118,253 (-)EnsemblGRCr8
mRatBN7.22012,091,138 - 12,118,858 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2012,092,774 - 12,118,762 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx2012,789,080 - 12,815,472 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02012,150,002 - 12,176,395 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02012,621,780 - 12,648,174 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.02012,844,522 - 12,870,474 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2012,842,884 - 12,870,497 (-)Ensemblrn6Rnor6.0
Rnor_5.02015,000,298 - 15,027,581 (-)NCBIRnor_5.0Rnor_5.0rn5
Rnor_5.02015,337,114 - 15,338,473 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.42012,507,575 - 12,534,612 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera2013,590,952 - 13,616,816 (-)NCBICelera
RGSC_v3.12012,507,801 - 12,534,839 (-)NCBI
Cytogenetic Map20p12NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+/-)-Aegeline  (ISO)
(RS)-coclaurine  (ISO)
(RS)-norcoclaurine  (ISO)
(S)-coclaurine  (ISO)
1,2-dimethylhydrazine  (ISO)
1-[(4-chlorophenyl)-phenylmethyl]-4-methylpiperazine  (ISO)
1-naphthyl isothiocyanate  (EXP,ISO)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (EXP,ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,2',5,5'-tetrachlorobiphenyl  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
2,4-dinitrotoluene  (EXP)
2,6-dimethoxyphenol  (ISO)
2,6-dinitrotoluene  (EXP)
22-Hydroxycholesterol  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3,3',5-triiodo-L-thyronine  (EXP)
3-chloropropane-1,2-diol  (EXP)
3H-1,2-dithiole-3-thione  (EXP)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-fluorouracil  (ISO)
7,12-dimethyltetraphene  (ISO)
8-Br-cAMP  (ISO)
AB-Fubinaca  (EXP)
acetamide  (EXP)
Acetyl tributyl citrate  (ISO)
acrylamide  (ISO)
afimoxifene  (ISO)
aflatoxin B1  (ISO)
aldrin  (ISO)
amiodarone  (EXP,ISO)
amitriptyline  (ISO)
ammonium chloride  (EXP)
amphetamine  (EXP)
antimony(0)  (ISO)
arachidonic acid  (ISO)
Archazolid B  (ISO)
aristolochic acid A  (ISO)
Aroclor 1254  (EXP)
arsane  (ISO)
arsenic atom  (ISO)
atrazine  (EXP)
avobenzone  (ISO)
azoxystrobin  (ISO)
benzatropine  (ISO)
benzene-1,2,4-triol  (ISO)
benzo[a]pyrene  (ISO)
benzo[b]fluoranthene  (ISO)
benzo[e]pyrene  (ISO)
beta-lapachone  (ISO)
beta-naphthoflavone  (ISO)
bis(2-ethylhexyl) phthalate  (EXP,ISO)
bisphenol A  (EXP,ISO)
bisphenol AF  (ISO)
Bisphenol B  (ISO)
bisphenol F  (ISO)
buta-1,3-diene  (ISO)
Butylbenzyl phthalate  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (EXP,ISO)
caffeine  (ISO)
calcitriol  (ISO)
cannabidiol  (ISO)
carbon nanotube  (ISO)
CGP 52608  (ISO)
chlorpromazine  (ISO)
chromium(6+)  (ISO)
ciguatoxin CTX1B  (ISO)
cisplatin  (ISO)
clarithromycin  (ISO)
clavulanic acid  (ISO)
clofibric acid  (EXP)
clomipramine  (ISO)
clozapine  (ISO)
cobalt dichloride  (EXP,ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) chloride  (ISO)
copper(II) sulfate  (ISO)
Cuprizon  (EXP,ISO)
curcumin  (EXP,ISO)
cyclosporin A  (ISO)
cyproconazole  (EXP)
DDE  (ISO)
deguelin  (ISO)
deoxynivalenol  (ISO)
dexamethasone  (EXP)
Di-n-octyl phthalate  (ISO)
diazinon  (ISO)
dibenzo[a,l]pyrene  (ISO)
Dibutyl phosphate  (ISO)
dibutyl phthalate  (EXP,ISO)
dichloromethane  (ISO)
diethyl phthalate  (ISO)
Diisodecyl phthalate  (ISO)
diisononyl phthalate  (ISO)
dimethylarsinic acid  (ISO)
dipotassium bis[mu-tartrato(4-)]diantimonate(2-) trihydrate  (ISO)
doxepin  (ISO)
doxorubicin  (ISO)
epoxiconazole  (EXP,ISO)
erythromycin A  (ISO)
ethanol  (ISO)
ethyl methanesulfonate  (ISO)
Febrifugine  (ISO)
fenofibrate  (ISO)
fenthion  (ISO)
fipronil  (EXP)
flecainide  (ISO)
fluoranthene  (ISO)
fluoxetine  (ISO)
flusilazole  (ISO)
flutamide  (EXP)
folpet  (ISO)
formaldehyde  (ISO)
furfural  (ISO)
Ganoderic acid A  (ISO)
gold atom  (ISO)
gold(0)  (ISO)
hexaconazole  (ISO)
hydroquinone  (ISO)
imipramine  (ISO)
indometacin  (ISO)
isoflavones  (ISO)
ivermectin  (ISO)
ketoconazole  (ISO)
lead(0)  (ISO)
loperamide  (ISO)
loratadine  (ISO)
luteolin  (EXP)
manganese atom  (ISO)
manganese(0)  (ISO)
manganese(II) chloride  (ISO)
metformin  (EXP)
methapyrilene  (ISO)
methidathion  (ISO)
methyl methanesulfonate  (ISO)
methylarsonic acid  (ISO)
methyltestosterone  (ISO)
N-nitrosodiethylamine  (EXP,ISO)
N-nitrosodimethylamine  (ISO)
nickel atom  (ISO)
nickel dichloride  (ISO)
Nivalenol  (ISO)
obeticholic acid  (ISO)
ouabain  (ISO)
ozone  (EXP,ISO)
paracetamol  (ISO)
PCB138  (EXP)
pentamidine  (ISO)
perfluorobutyric acid  (ISO)
perfluorononanoic acid  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (ISO)
perhexiline  (ISO)
phenobarbital  (EXP,ISO)
phenylpropanolamine  (ISO)
pirinixic acid  (EXP,ISO)
potassium dichromate  (ISO)
pravastatin  (EXP,ISO)
pregnenolone 16alpha-carbonitrile  (EXP,ISO)
progesterone  (ISO)
propiconazole  (ISO)
quercetin  (ISO)
rotenone  (EXP,ISO)
sertraline  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sodium chloride  (ISO)
sotalol  (ISO)
succimer  (ISO)
sulforaphane  (ISO)
sunitinib  (ISO)
tamoxifen  (ISO)
tebuconazole  (ISO)
temozolomide  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone  (ISO)
tetrachloromethane  (EXP,ISO)
thimerosal  (ISO)
thioridazine  (ISO)
thiram  (ISO)
titanium dioxide  (ISO)
triacsin C  (ISO)
triadimefon  (ISO)
trichostatin A  (ISO)
trimellitic anhydride  (ISO)
triphenyl phosphate  (EXP,ISO)
troglitazone  (EXP,ISO)
tunicamycin  (ISO)
valdecoxib  (EXP)
valproic acid  (ISO)
vinclozolin  (EXP)
vitamin K  (EXP)
vorinostat  (ISO)
Yessotoxin  (ISO)
yohimbine  (ISO)
zaragozic acid A  (EXP,ISO)
zimeldine  (ISO)
zoledronic acid  (EXP,ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Molecular cloning, characterization, and functional expression of rat oxidosqualene cyclase cDNA. Abe I and Prestwich GD, Proc Natl Acad Sci U S A 1995 Sep 26;92(20):9274-8.
2. 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.
3. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
4. KEGG: Kyoto Encyclopedia of Genes and Genomes KEGG
5. Molecular cloning of cDNA encoding rat 2,3-oxidosqualene: lanosterol cyclase. Kusano M, etal., Biol Pharm Bull 1995 Jan;18(1):195-7.
6. Adverse effects of long-term exposure to bisphenol A during adulthood leading to hyperglycaemia and hypercholesterolemia in mice. Marmugi A, etal., Toxicology. 2014 Nov 5;325:133-43. doi: 10.1016/j.tox.2014.08.006. Epub 2014 Aug 26.
7. Purification of 2,3-oxidosqualene cyclase from rat liver. Moore WR and Schatzman GL, J Biol Chem. 1992 Nov 5;267(31):22003-6.
8. Lanosterol synthase mutations cause cholesterol deficiency-associated cataracts in the Shumiya cataract rat. Mori M, etal., J Clin Invest. 2006 Feb;116(2):395-404. Epub 2006 Jan 26.
9. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
10. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
11. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
12. SMPDB Annotation Import Pipeline Pipeline to import SMPDB annotations from SMPDB into RGD
13. GOA pipeline RGD automated data pipeline
14. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
15. Defects of cholesterol biosynthesis. Waterham HR FEBS Lett. 2006 Oct 9;580(23):5442-9. Epub 2006 Jul 20.
16. Lanosterol reverses protein aggregation in cataracts. Zhao L, etal., Nature. 2015 Jul 30;523(7562):607-11. doi: 10.1038/nature14650. Epub 2015 Jul 22.
Additional References at PubMed
PMID:7639730   PMID:14741744   PMID:17186944   PMID:17460354   PMID:18054775   PMID:19119143   PMID:19946888   PMID:21498505   PMID:22871113   PMID:30401459   PMID:38079167  


Genomics

Comparative Map Data
Lss
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82012,090,641 - 12,118,230 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl2012,073,543 - 12,118,253 (-)EnsemblGRCr8
mRatBN7.22012,091,138 - 12,118,858 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2012,092,774 - 12,118,762 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx2012,789,080 - 12,815,472 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02012,150,002 - 12,176,395 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02012,621,780 - 12,648,174 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.02012,844,522 - 12,870,474 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2012,842,884 - 12,870,497 (-)Ensemblrn6Rnor6.0
Rnor_5.02015,000,298 - 15,027,581 (-)NCBIRnor_5.0Rnor_5.0rn5
Rnor_5.02015,337,114 - 15,338,473 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.42012,507,575 - 12,534,612 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera2013,590,952 - 13,616,816 (-)NCBICelera
RGSC_v3.12012,507,801 - 12,534,839 (-)NCBI
Cytogenetic Map20p12NCBI
LSS
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382146,188,446 - 46,228,774 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2146,188,141 - 46,228,840 (-)Ensemblhg38GRCh38
GRCh372147,608,360 - 47,648,688 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362146,432,788 - 46,473,119 (-)NCBIBuild 36Build 36hg18NCBI36
Build 342146,433,466 - 46,473,119NCBI
Celera2132,720,748 - 32,761,140 (-)NCBICelera
Cytogenetic Map21q22.3NCBI
HuRef2132,990,213 - 33,031,026 (-)NCBIHuRef
CHM1_12147,167,889 - 47,208,226 (-)NCBICHM1_1
T2T-CHM13v2.02144,570,708 - 44,611,332 (-)NCBIT2T-CHM13v2.0
Lss
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391076,367,303 - 76,392,973 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1076,367,422 - 76,392,972 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm381076,531,565 - 76,557,139 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1076,531,588 - 76,557,138 (+)Ensemblmm10GRCm38
MGSCv371075,994,372 - 76,016,679 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361075,975,343 - 75,997,650 (+)NCBIMGSCv36mm8
Celera1077,576,142 - 77,598,449 (+)NCBICelera
Cytogenetic Map10C1NCBI
cM Map1039.1NCBI
Lss
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540742,633,658 - 42,653,399 (-)Ensembl
ChiLan1.0NW_00495540742,633,658 - 42,653,399 (-)NCBIChiLan1.0ChiLan1.0
LSS
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22242,290,120 - 42,328,031 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12137,162,576 - 37,201,020 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02132,535,564 - 32,571,379 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12145,787,252 - 45,822,181 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2145,787,252 - 45,822,181 (-)EnsemblpanPan2panpan1.1
LSS
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13139,479,255 - 39,502,439 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3139,480,581 - 39,503,042 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha3138,707,040 - 38,730,234 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.03139,120,352 - 39,143,563 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3139,120,357 - 39,143,585 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13138,982,033 - 39,005,248 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03138,942,696 - 38,965,462 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03139,460,908 - 39,484,125 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Lss
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440497138,779,602 - 38,807,151 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936778323,014 - 351,102 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_004936778323,120 - 351,100 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LSS
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa10.213218,517,444 - 218,539,989 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LSS
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1289,809,065 - 89,846,295 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl289,811,698 - 89,846,242 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366605418,194,151 - 18,231,629 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Lss
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474531,306,807 - 31,325,199 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462474531,301,648 - 31,325,283 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Lss
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v18106,591,950 - 106,619,854 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Lss
379 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:84
Count of miRNA genes:68
Interacting mature miRNAs:80
Transcripts:ENSRNOT00000042499
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
4889610Pancm3Pancreatic morphology QTL 33.750.001pancreas mass (VT:0010144)pancreas wet weight (CMO:0000626)20418947649189476Rat
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20133724594Rat
2317057Aia27Adjuvant induced arthritis QTL 272.83joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)20126925056Rat
7387283Uae44Urinary albumin excretion QTL 440.1712urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)20126128279Rat
4889870Pur30Proteinuria QTL 30190.005urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)20804392029865039Rat
2305926Iddm37Insulin dependent diabetes mellitus QTL 376blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)20153308346533083Rat
7411668Foco32Food consumption QTL 3280.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20136600300Rat
1354642Despr15Despair related QTL 150.0027locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)20124164241Rat
1558640Prcs2Prostate cancer susceptibility QTL 23.3prostate integrity trait (VT:0010571)percentage of study population developing ventral prostate tumorous lesions during a period of time (CMO:0000943)20134066551Rat
8694189Bw153Body weight QTL 1533.130.001body mass (VT:0001259)body weight gain (CMO:0000420)20129193376Rat
4889857Pur27Proteinuria QTL 2712.20.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)20127341128Rat
1598870Bp289Blood pressure QTL 2892.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)20821635953216359Rat
9590109Sffal8Serum free fatty acids level QTL 85.320.01blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)20129193376Rat
1581577Pur15Proteinuria QTL 154.380.0002urine total protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)20804392015089182Rat
9590275Scort15Serum corticosterone level QTL 153.480.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20129193376Rat
9589155Insul32Insulin level QTL 326.380.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20129193376Rat
1598858Cm61Cardiac mass QTL 613.6heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)20821635953216359Rat
7411650Foco23Food consumption QTL 2320.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20129193376Rat
61432Cia1Collagen induced arthritis QTL 1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)20114100378Rat
2317851Alcrsp22Alcohol response QTL 223.20.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127341128Rat
1641893Alcrsp7Alcohol response QTL 7response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127341128Rat
6893685Bw111Body weight QTL 1112.70.004body mass (VT:0001259)body weight (CMO:0000012)20132578510Rat
9590252Scort12Serum corticosterone level QTL 1220.460.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20136600300Rat

Markers in Region
RH140502  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22012,092,914 - 12,093,040 (+)MAPPERmRatBN7.2
Rnor_6.02013,183,368 - 13,183,493NCBIRnor6.0
Rnor_6.02012,844,661 - 12,844,786NCBIRnor6.0
Rnor_5.02015,337,253 - 15,337,378UniSTSRnor5.0
Rnor_5.02015,002,073 - 15,002,198UniSTSRnor5.0
RGSC_v3.42012,507,714 - 12,507,839UniSTSRGSC3.4
Celera2013,591,091 - 13,591,216UniSTS
RH 3.4 Map20154.34UniSTS
Cytogenetic Map20p12UniSTS


Related Rat Strains
The following Strains have been annotated to Lss
SCR/Sscr    


Genetic Models
This gene Lss is modified in the following models/strains:
SS-Lssem2Mcwi    


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 165 91 90 59 91 59 6 355 191 11 144 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000078412   ⟹   ENSRNOP00000069432
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2012,092,775 - 12,118,762 (-)Ensembl
Rnor_6.0 Ensembl2012,842,918 - 12,870,496 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000081903   ⟹   ENSRNOP00000070074
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2012,092,775 - 12,118,762 (-)Ensembl
Rnor_6.0 Ensembl2012,861,228 - 12,870,497 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000084053   ⟹   ENSRNOP00000069968
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl2012,842,884 - 12,855,891 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000085270   ⟹   ENSRNOP00000070008
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl2012,856,483 - 12,858,096 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000107519   ⟹   ENSRNOP00000093002
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2012,092,774 - 12,118,747 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000113267   ⟹   ENSRNOP00000090987
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2012,095,754 - 12,118,739 (-)Ensembl
RefSeq Acc Id: NM_031049   ⟹   NP_112311
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82012,092,275 - 12,118,230 (-)NCBI
mRatBN7.22012,092,776 - 12,118,739 (-)NCBI
Rnor_6.02012,844,522 - 12,870,474 (-)NCBI
Rnor_5.02015,337,114 - 15,338,473 (-)NCBI
RGSC_v3.42012,507,575 - 12,534,612 (-)RGD
Celera2013,590,952 - 13,616,816 (-)RGD
Sequence:
RefSeq Acc Id: XM_039099122   ⟹   XP_038955050
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82012,090,641 - 12,113,625 (-)NCBI
mRatBN7.22012,091,138 - 12,114,142 (-)NCBI
RefSeq Acc Id: NP_112311   ⟸   NM_031049
- UniProtKB: Q62811 (UniProtKB/Swiss-Prot),   P48450 (UniProtKB/Swiss-Prot),   A0A0G2JVC8 (UniProtKB/TrEMBL),   A6JKC8 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000070008   ⟸   ENSRNOT00000085270
Ensembl Acc Id: ENSRNOP00000069432   ⟸   ENSRNOT00000078412
Ensembl Acc Id: ENSRNOP00000070074   ⟸   ENSRNOT00000081903
Ensembl Acc Id: ENSRNOP00000069968   ⟸   ENSRNOT00000084053
RefSeq Acc Id: XP_038955050   ⟸   XM_039099122
- Peptide Label: isoform X1
Ensembl Acc Id: ENSRNOP00000093002   ⟸   ENSRNOT00000107519
Ensembl Acc Id: ENSRNOP00000090987   ⟸   ENSRNOT00000113267
Protein Domains
Squalene cyclase C-terminal   Squalene cyclase N-terminal

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P48450-F1-model_v2 AlphaFold P48450 1-733 view protein structure

Transcriptome

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

Promoters
RGD ID:13701516
Promoter ID:EPDNEW_R12040
Type:initiation region
Name:Lss_1
Description:lanosterol synthase
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_6.02012,870,479 - 12,870,539EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620955 AgrOrtholog
BioCyc Gene G2FUF-4191 BioCyc
BioCyc Pathway PWY-6132 [lanosterol biosynthesis] BioCyc
BioCyc Pathway Image PWY-6132 BioCyc
Ensembl Genes ENSRNOG00000054549 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000078412 ENTREZGENE
Gene3D-CATH 1.50.10.20 UniProtKB/Swiss-Prot
  6.20.120.20 UniProtKB/Swiss-Prot
InterPro SQ_cyclase_C UniProtKB/Swiss-Prot
  SQ_cyclase_N UniProtKB/Swiss-Prot
  Squalene_cyclase UniProtKB/Swiss-Prot
  Terpene_synthase_CS UniProtKB/Swiss-Prot
  Terpenoid_cyclase/PrenylTrfase UniProtKB/Swiss-Prot
KEGG Report rno:81681 UniProtKB/Swiss-Prot
NCBI Gene 81681 ENTREZGENE
PANTHER LANOSTEROL SYNTHASE UniProtKB/Swiss-Prot
  PTHR11764 UniProtKB/Swiss-Prot
Pfam SQHop_cyclase_C UniProtKB/Swiss-Prot
  SQHop_cyclase_N UniProtKB/Swiss-Prot
PhenoGen Lss PhenoGen
PROSITE TERPENE_SYNTHASES UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000054549 RatGTEx
Superfamily-SCOP SSF48239 UniProtKB/Swiss-Prot
UniProt A0A096MK55_RAT UniProtKB/TrEMBL
  A0A0G2JVC8 ENTREZGENE, UniProtKB/TrEMBL
  A0ABK0LDV6_RAT UniProtKB/TrEMBL
  A0ABK0LH16_RAT UniProtKB/TrEMBL
  A6JKC8 ENTREZGENE, UniProtKB/TrEMBL
  ERG7_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q62811 ENTREZGENE
UniProt Secondary Q62811 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Lss  lanosterol synthase  LOC103690153  uncharacterized LOC103690153  Data merged from RGD:9143348 737654 PROVISIONAL
2014-08-25 LOC103690153  uncharacterized LOC103690153      Symbol and Name status set to provisional 70820 PROVISIONAL
2008-09-18 Lss  lanosterol synthase (2,3-oxidosqualene-lanosterol cyclase)  Lss  lanosterol synthase  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 Lss  lanosterol synthase    2,3-oxidosqualene: lanosterol cyclase  Name updated 1299863 APPROVED
2002-08-07 Lss  2,3-oxidosqualene: lanosterol cyclase      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_domains contains five QW motifs 728996