Lss (lanosterol synthase) - Rat Genome Database

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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. Located in intracellular membrane-bounded organelle. 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; 2,2',5,5'-tetrachlorobiphenyl.
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
Alliance Genes
More Info more info ...
Allele / Splice: Lssem2Mcwi  
Genetic Models: SS-Lssem2Mcwi
Is Marker For: Strains:   SCR/Sscr  
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22012,091,138 - 12,118,858 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl2012,092,774 - 12,118,762 (-)Ensembl
Rnor_6.02012,844,522 - 12,870,474 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2012,842,884 - 12,870,497 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02015,337,114 - 15,338,473 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.02015,000,298 - 15,027,581 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42012,507,575 - 12,534,612 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12012,507,801 - 12,534,839 (-)NCBI
Celera2013,590,952 - 13,616,816 (-)NCBICelera
Cytogenetic Map20p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(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  (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-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-hydroxyphenyl retinamide  (ISO)
5-fluorouracil  (ISO)
7,12-dimethyltetraphene  (ISO)
8-Br-cAMP  (ISO)
acetamide  (EXP)
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  (ISO)
Aroclor 1254  (EXP)
avobenzone  (ISO)
azoxystrobin  (ISO)
benzatropine  (ISO)
benzo[a]pyrene  (ISO)
benzo[b]fluoranthene  (ISO)
benzo[e]pyrene  (ISO)
beta-naphthoflavone  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
buta-1,3-diene  (ISO)
cadmium dichloride  (EXP)
caffeine  (ISO)
calcitriol  (ISO)
cannabidiol  (ISO)
carbon nanotube  (ISO)
chlorpromazine  (ISO)
chromium(6+)  (ISO)
ciguatoxin CTX1B  (ISO)
cisplatin  (ISO)
clarithromycin  (ISO)
clofibric acid  (EXP)
clomipramine  (ISO)
clozapine  (ISO)
cobalt dichloride  (EXP,ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
Cuprizon  (EXP,ISO)
curcumin  (EXP,ISO)
cyclosporin A  (ISO)
cyproconazole  (EXP)
deguelin  (ISO)
dexamethasone  (EXP)
diazinon  (ISO)
dibenzo[a,l]pyrene  (ISO)
dibutyl phthalate  (EXP,ISO)
dichloromethane  (ISO)
dimethylarsinic acid  (ISO)
dipotassium bis[mu-tartrato(4-)]diantimonate(2-) trihydrate  (ISO)
doxepin  (ISO)
doxorubicin  (ISO)
epoxiconazole  (EXP)
erythromycin A  (ISO)
ethanol  (ISO)
ethyl methanesulfonate  (ISO)
fenofibrate  (ISO)
fipronil  (EXP)
flecainide  (ISO)
fluoranthene  (ISO)
fluoxetine  (ISO)
flusilazole  (ISO)
flutamide  (EXP)
folpet  (ISO)
formaldehyde  (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)
lead(2+)  (ISO)
loratadine  (ISO)
luteolin  (EXP)
metformin  (EXP)
methapyrilene  (ISO)
methyl methanesulfonate  (ISO)
methylarsonic acid  (ISO)
methyltestosterone  (ISO)
N-nitrosodiethylamine  (EXP,ISO)
N-nitrosodimethylamine  (ISO)
nickel atom  (ISO)
nickel dichloride  (ISO)
obeticholic acid  (ISO)
ouabain  (ISO)
ozone  (EXP)
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)
quercetin  (ISO)
rotenone  (EXP,ISO)
sertraline  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sotalol  (ISO)
succimer  (ISO)
sunitinib  (ISO)
tamoxifen  (ISO)
tebuconazole  (ISO)
temozolomide  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone  (ISO)
tetrachloromethane  (EXP,ISO)
thimerosal  (ISO)
thioridazine  (ISO)
titanium dioxide  (ISO)
triacsin C  (ISO)
triadimefon  (ISO)
trichostatin A  (ISO)
trimellitic anhydride  (ISO)
triphenyl phosphate  (EXP)
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

Biological Process

Cellular Component

Molecular Function

References

Additional References at PubMed
PMID:7639730   PMID:14741744   PMID:17186944   PMID:17460354   PMID:18054775   PMID:19119143   PMID:19946888   PMID:21498505   PMID:22871113   PMID:30401459  


Genomics

Comparative Map Data
Lss
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22012,091,138 - 12,118,858 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl2012,092,774 - 12,118,762 (-)Ensembl
Rnor_6.02012,844,522 - 12,870,474 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2012,842,884 - 12,870,497 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02015,337,114 - 15,338,473 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.02015,000,298 - 15,027,581 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42012,507,575 - 12,534,612 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12012,507,801 - 12,534,839 (-)NCBI
Celera2013,590,952 - 13,616,816 (-)NCBICelera
Cytogenetic Map20p12NCBI
LSS
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382146,188,446 - 46,228,774 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl2146,188,141 - 46,228,824 (-)EnsemblGRCh38hg38GRCh38
GRCh372147,608,360 - 47,648,688 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362146,432,788 - 46,473,119 (-)NCBINCBI36hg18NCBI36
Build 342146,433,466 - 46,473,119NCBI
Celera2132,720,748 - 32,761,140 (-)NCBI
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 (-)NCBI
Lss
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391076,367,303 - 76,392,973 (+)NCBIGRCm39mm39
GRCm39 Ensembl1076,367,422 - 76,392,972 (+)Ensembl
GRCm381076,531,565 - 76,557,139 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1076,531,588 - 76,557,138 (+)EnsemblGRCm38mm10GRCm38
MGSCv371075,994,372 - 76,016,679 (+)NCBIGRCm37mm9NCBIm37
MGSCv361075,975,343 - 75,997,650 (+)NCBImm8
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 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540742,633,658 - 42,653,399 (-)NCBIChiLan1.0ChiLan1.0
LSS
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12145,787,252 - 45,822,181 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2145,787,252 - 45,822,181 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02132,535,564 - 32,571,379 (-)NCBIMhudiblu_PPA_v0panPan3
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 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3138,707,040 - 38,730,234 (-)NCBI
ROS_Cfam_1.03139,120,352 - 39,143,563 (-)NCBI
ROS_Cfam_1.0 Ensembl3139,120,357 - 39,143,585 (-)Ensembl
UMICH_Zoey_3.13138,982,033 - 39,005,248 (-)NCBI
UNSW_CanFamBas_1.03138,942,696 - 38,965,462 (-)NCBI
UU_Cfam_GSD_1.03139,460,908 - 39,484,125 (-)NCBI
Lss
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440497138,779,602 - 38,807,151 (-)NCBI
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 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl289,811,698 - 89,846,242 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605418,194,151 - 18,231,629 (-)NCBIVero_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_1.0hetGla2
HetGla 1.0NW_00462474531,301,648 - 31,325,283 (-)NCBIHetGla_female_1.0hetGla2

Position Markers
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


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354642Despr15Despair related QTL 150.0027locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)20124159021Rat
1600382Edcs3Endometrial carcinoma susceptibility QTL33.50.003uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)20125159026Rat
2317851Alcrsp22Alcohol response QTL 223.20.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127339237Rat
1641893Alcrsp7Alcohol response QTL 7response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127339237Rat
8694189Bw153Body weight QTL 1533.130.001body mass (VT:0001259)body weight gain (CMO:0000420)20129191651Rat
9590275Scort15Serum corticosterone level QTL 153.480.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20129191651Rat
7411650Foco23Food consumption QTL 2320.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20129191651Rat
9590109Sffal8Serum free fatty acids level QTL 85.320.01blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)20129191651Rat
9589155Insul32Insulin level QTL 326.380.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20129191651Rat
6893685Bw111Body weight QTL 1112.70.004body mass (VT:0001259)body weight (CMO:0000012)20132578807Rat
7411668Foco32Food consumption QTL 3280.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20136600972Rat
9590252Scort12Serum corticosterone level QTL 1220.460.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20136600972Rat
2305926Iddm37Insulin dependent diabetes mellitus QTL 376blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)20152784246527842Rat
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20153065546530655Rat
1598816Memor12Memory QTL 122.4exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)20260683647606836Rat
2317057Aia27Adjuvant induced arthritis QTL 272.83joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)20289259726381954Rat
61432Cia1Collagen induced arthritis QTL 1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)20362165614101050Rat
4889857Pur27Proteinuria QTL 2712.20.001total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)20460660717617956Rat
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)20460660717617956Rat
70154Insul2Insulin level QTL 23.75blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20669170617489458Rat
1581577Pur15Proteinuria QTL 154.380.0002total urine protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)20804241017617956Rat
4889870Pur30Proteinuria QTL 30190.005total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)20804241029322208Rat
631265Iresp1Immunoglobin response QTL18.3blood anti-double stranded DNA antibody amount (VT:0004762)serum anti-DNA antibody level (CMO:0001533)20903971913461775Rat
7411652Foco24Food consumption QTL 240.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)201175751554435887Rat
9590092Insglur9Insulin/glucose ratio QTL 918.380.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)201175751554435887Rat


Related Rat Strains
The following Strains have been annotated to Lss


Genetic Models
This gene Lss is modified in the following models/strains
miRNA Target Status

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.


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 16 48 33 14 33 74 35 34 11
Low 27 9 8 5 8 8 11 7 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000078412   ⟹   ENSRNOP00000069432
RefSeq Status:
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
RefSeq Acc Id: ENSRNOT00000081903   ⟹   ENSRNOP00000070074
RefSeq Status:
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
RefSeq Acc Id: ENSRNOT00000084053   ⟹   ENSRNOP00000069968
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl2012,842,884 - 12,855,891 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000085270   ⟹   ENSRNOP00000070008
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl2012,856,483 - 12,858,096 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000107519   ⟹   ENSRNOP00000093002
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2012,092,774 - 12,118,747 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000113267   ⟹   ENSRNOP00000090987
RefSeq Status:
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
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_039099120   ⟹   XP_038955048
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22012,091,138 - 12,118,844 (-)NCBI
RefSeq Acc Id: XM_039099121   ⟹   XP_038955049
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22012,091,138 - 12,118,858 (-)NCBI
RefSeq Acc Id: XM_039099122   ⟹   XP_038955050
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22012,091,138 - 12,114,142 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_112311   ⟸   NM_031049
- Sequence:
RefSeq Acc Id: ENSRNOP00000070008   ⟸   ENSRNOT00000085270
RefSeq Acc Id: ENSRNOP00000069432   ⟸   ENSRNOT00000078412
RefSeq Acc Id: ENSRNOP00000070074   ⟸   ENSRNOT00000081903
RefSeq Acc Id: ENSRNOP00000069968   ⟸   ENSRNOT00000084053
RefSeq Acc Id: XP_038955049   ⟸   XM_039099121
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038955048   ⟸   XM_039099120
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038955050   ⟸   XM_039099122
- Peptide Label: isoform X2
RefSeq Acc Id: ENSRNOP00000093002   ⟸   ENSRNOT00000107519
RefSeq Acc Id: ENSRNOP00000090987   ⟸   ENSRNOT00000113267
Protein Domains
SQHop_cyclase_C   SQHop_cyclase_N

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

Strain Variation

Strain Sequence Variants (MRatBN7.2)
ACI/EurMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620955 AgrOrtholog
BioCyc Gene G2FUF-4191 BioCyc
BioCyc Pathway PWY-6132 [lanosterol biosynthesis] BioCyc
Ensembl Genes ENSRNOG00000054549 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000069432 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000069968 UniProtKB/TrEMBL
  ENSRNOP00000070008 UniProtKB/TrEMBL
  ENSRNOP00000070074 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000078412 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000081903 UniProtKB/TrEMBL
  ENSRNOT00000084053 UniProtKB/TrEMBL
  ENSRNOT00000085270 UniProtKB/TrEMBL
InterPro SQ_cyclase_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SQ_cyclase_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Squalene_cyclase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Terpene_synthase_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Terpenoid_cyclase/PrenylTrfase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:81681 UniProtKB/Swiss-Prot
NCBI Gene 81681 ENTREZGENE
PANTHER PTHR11764 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam SQHop_cyclase_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SQHop_cyclase_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Lss PhenoGen
PROSITE TERPENE_SYNTHASES UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF48239 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGRFAMs squalene_cyclas UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A096MJH3_RAT UniProtKB/TrEMBL
  A0A096MK55_RAT UniProtKB/TrEMBL
  A0A096MK62_RAT UniProtKB/TrEMBL
  A0A0G2JVC8_RAT UniProtKB/TrEMBL
  ERG7_RAT UniProtKB/Swiss-Prot, 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 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