Cyp11a1 (cytochrome P450, family 11, subfamily a, polypeptide 1) - Rat Genome Database

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Gene: Cyp11a1 (cytochrome P450, family 11, subfamily a, polypeptide 1) Rattus norvegicus
Analyze
Symbol: Cyp11a1
Name: cytochrome P450, family 11, subfamily a, polypeptide 1
RGD ID: 69325
Description: Exhibits cholesterol binding activity and cholesterol monooxygenase (side-chain-cleaving) activity. Involved in several processes, including nervous system development; response to vitamin; and steroid biosynthetic process. Localizes to mitochondrial crista and perikaryon. Biomarker of several diseases, including glucose metabolism disease (multiple); hypertension; nephrosis; sciatic neuropathy; and status epilepticus. Human ortholog(s) of this gene implicated in congenital adrenal hyperplasia and congenital adrenal insufficiency. Orthologous to human CYP11A1 (cytochrome P450 family 11 subfamily A member 1); PARTICIPATES IN 11-beta-hydroxylase deficiency pathway; 17-alpha-hydroxylase deficiency pathway; 21-alpha-hydroxylase deficiency pathway; INTERACTS WITH (+)-pilocarpine; (+)-taxifolin; (-)-citrinin.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: cholesterol desmolase; cholesterol side-chain cleavage cytochrome P450; cholesterol side-chain cleavage enzyme; cholesterol side-chain cleavage enzyme, mitochondrial; Cyp11a; Cypxia1; cytochrome P450 11a cholesterol side chain cleavage; cytochrome P450 11A1; cytochrome P450 family 11 subfamily a; cytochrome P450 side-chain cleavage enzyme; cytochrome P450 subfamily 11A; cytochrome P450(scc); cytochrome P450, 11a, cholesterol side; cytochrome P450, subfamily 11A; P450(scc); P450scc
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2858,422,807 - 58,434,342 (+)NCBI
Rnor_6.0 Ensembl862,779,875 - 62,809,893 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0862,798,317 - 62,809,848 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0862,525,349 - 62,585,615 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4861,793,976 - 61,805,308 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1861,812,986 - 61,824,536 (+)NCBI
Celera857,887,124 - 57,898,655 (+)NCBICelera
Cytogenetic Map8q24NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-pilocarpine  (EXP)
(+)-taxifolin  (EXP)
(-)-citrinin  (EXP)
(S)-nicotine  (EXP,ISO)
1,1,1-trichloro-2,2-bis(4-hydroxyphenyl)ethane  (EXP)
1,1,1-Trichloro-2-(4-hydroxyphenyl)-2-(4-methoxyphenyl)ethane  (ISO)
1,1,1-Trichloro-2-(o-chlorophenyl)-2-(p-chlorophenyl)ethane  (EXP)
1,2-dichloroethane  (ISO)
1,3-dichloropropan-2-ol  (EXP)
1,3-dinitrobenzene  (ISO)
1-methyl-4-phenyl-1,2,3,6-tetrahydropyridine  (ISO)
17alpha-ethynylestradiol  (EXP,ISO)
17alpha-hydroxyprogesterone  (EXP)
17beta-estradiol  (EXP,ISO)
17beta-hydroxy-5alpha-androstan-3-one  (EXP,ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrabromodibenzodioxine  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4,6-tribromophenol  (ISO)
2,4,6-trichlorophenol  (ISO)
2,4-dibromophenol  (ISO)
2,4-dichlorophenol  (ISO)
2-bromophenol  (ISO)
2-methoxyethanol  (EXP)
2-tert-butylhydroquinone  (EXP)
20-hydroxycholesterol  (ISO)
3',5'-cyclic AMP  (ISO)
3'-amino-3'-deoxy-N(6),N(6)-dimethyladenosine  (EXP)
3,3',4,4',5-pentachlorobiphenyl  (ISO)
3,3',5,5'-tetrabromobisphenol A  (EXP,ISO)
3,3',5-triiodo-L-thyronine  (ISO)
3,3,4,4,5,5,6,6,7,7,8,8,9,9,10,10,10-heptadecafluoro-1-decanol  (ISO)
3,4-methylenedioxymethamphetamine  (ISO)
4,4'-diaminodiphenylmethane  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-nonylphenol  (ISO)
4-tert-Octylphenol  (ISO)
5-formyltetrahydrofolic acid  (EXP)
6-propyl-2-thiouracil  (ISO)
8-Br-cAMP  (EXP,ISO)
acetaldehyde  (ISO)
acetamiprid  (EXP,ISO)
acrylamide  (EXP)
aflatoxin B1  (EXP)
all-trans-retinoic acid  (ISO)
allethrin  (EXP)
aminoglutethimide  (ISO)
amlodipine  (EXP)
ammonium chloride  (EXP)
androgen antagonist  (EXP)
androst-4-ene-3,17-dione  (EXP)
androstane-3,17-diol  (EXP)
antalarmin  (ISO)
anthra[1,9-cd]pyrazol-6(2H)-one  (EXP,ISO)
Aroclor 1254  (EXP)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
astressin  (ISO)
atorvastatin calcium  (EXP)
atrazine  (EXP,ISO)
benzo[a]pyrene  (EXP,ISO)
benzofurans  (ISO)
beta-naphthoflavone  (ISO)
bicalutamide  (EXP)
bifenthrin  (EXP,ISO)
bis(2-ethylhexyl) phthalate  (EXP,ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
bromocriptine  (EXP)
bucladesine  (EXP,ISO)
Butylbenzyl phthalate  (EXP,ISO)
Butylparaben  (EXP)
cadmium atom  (EXP,ISO)
cadmium dichloride  (EXP,ISO)
caffeine  (EXP)
calcitriol  (ISO)
cetrorelix  (ISO)
chlormequat chloride  (EXP)
chlorohydrocarbon  (ISO)
chloroquine  (EXP)
chlorothalonil  (ISO)
chlorpyrifos  (EXP)
cholesterol  (ISO)
cholesterol sulfate  (ISO)
Chorionic gonadotropin  (EXP)
cisplatin  (EXP)
cobalt dichloride  (ISO)
colforsin daropate hydrochloride  (EXP,ISO)
cortisol  (ISO)
cycloheximide  (EXP)
cyhalothrin  (EXP)
cypermethrin  (EXP,ISO)
daidzein  (EXP)
daidzein 7-O-beta-D-glucoside  (EXP)
DDT  (ISO)
decabromodiphenyl ether  (ISO)
desogestrel  (ISO)
dexamethasone  (EXP)
Di-n-hexyl phthalate  (EXP)
diarsenic trioxide  (ISO)
dibutyl phthalate  (EXP,ISO)
dichlorine  (EXP)
Dicyclohexyl phthalate  (EXP)
diethyl phthalate  (EXP,ISO)
diethylstilbestrol  (EXP,ISO)
diheptyl phthalate  (EXP)
diisobutyl phthalate  (EXP,ISO)
Diisodecyl phthalate  (EXP)
diisononyl phthalate  (EXP,ISO)
dimethoate  (EXP,ISO)
Dimethyl phthalate  (EXP)
dipentyl phthalate  (EXP)
doxorubicin  (EXP,ISO)
endosulfan  (ISO)
enilconazole  (ISO)
enniatin  (ISO)
equol  (ISO)
ethanol  (ISO)
ethylene glycol bis(2-aminoethyl)tetraacetic acid  (ISO)
fenvalerate  (EXP,ISO)
finasteride  (EXP)
fluoxetine  (EXP)
flutamide  (EXP)
formaldehyde  (ISO)
formestane  (EXP)
fulvestrant  (EXP,ISO)
furan  (EXP)
gamma-hexachlorocyclohexane  (EXP,ISO)
genistein  (EXP,ISO)
genistein 7-O-beta-D-glucoside  (EXP)
glycitein  (EXP)
glycitin  (EXP)
glyphosate  (ISO)
Goe 6976  (ISO)
GW 3965  (ISO)
herbicide  (EXP)
hexachlorobenzene  (ISO)
hexane  (EXP)
HT-2 toxin  (ISO)
hydroxyflutamide  (ISO)
icariin  (ISO)
imidacloprid  (ISO)
iodoacetic acid  (ISO)
ketamine  (EXP)
ketoconazole  (EXP)
L-ascorbic acid  (EXP,ISO)
lamivudine  (ISO)
lead diacetate  (EXP,ISO)
lead(0)  (EXP)
lead(2+)  (EXP)
linuron  (EXP)
lipopolysaccharide  (EXP)
lycopene  (EXP)
malathion  (ISO)
manganese atom  (EXP)
manganese(0)  (EXP)
manganese(II) chloride  (EXP)
metformin  (EXP)
methamphetamine  (EXP)
methotrexate  (EXP)
methoxychlor  (EXP,ISO)
metyrapone  (ISO)
Mitotane  (ISO)
mono(2-ethylhexyl) phthalate  (EXP,ISO)
monobenzyl phthalate  (ISO)
Monobutylphthalate  (ISO)
monoethyl phthalate  (ISO)
myricetin  (ISO)
N-acetyl-L-cysteine  (EXP)
N-nitrosodiethylamine  (EXP)
nickel sulfate  (EXP)
nicotine  (EXP,ISO)
nimodipine  (ISO)
Nodularin  (EXP)
Nonylphenol  (EXP)
octreotide  (EXP,ISO)
ozone  (EXP)
p-tert-Amylphenol  (ISO)
paraquat  (EXP)
pasireotide  (EXP,ISO)
pentachlorobenzene  (ISO)
pentachlorophenol  (ISO)
perflubron  (ISO)
perfluorododecanoic acid  (EXP)
perfluoroheptanoic acid  (EXP)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (ISO)
permethrin  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
Piperophos  (EXP)
pirinixic acid  (EXP,ISO)
pregnenolone  (EXP,ISO)
prochloraz  (ISO)
procymidone  (EXP)
profenofos  (EXP)
progesterone  (EXP,ISO)
prostaglandin E2  (ISO)
quercetin  (EXP,ISO)
resveratrol  (EXP,ISO)
SB 203580  (EXP)
SB 431542  (EXP)
senecionine  (ISO)
sertraline  (EXP)
silver atom  (EXP,ISO)
silver(0)  (EXP,ISO)
simvastatin  (EXP)
sodium arsenite  (EXP,ISO)
sodium dichromate  (EXP)
sodium fluoride  (ISO)
sulpiride  (EXP)
sunitinib  (ISO)
T-2 toxin  (EXP,ISO)
testosterone  (EXP,ISO)
testosterone enanthate  (EXP,ISO)
tetrachloroethene  (ISO)
titanium dioxide  (ISO)
toluene  (EXP)
torcetrapib  (ISO)
tributylstannane  (EXP)
Tributyltin oxide  (ISO)
trichlorfon  (ISO)
triclosan  (EXP)
trimethyltin  (EXP)
triphenyl phosphate  (ISO)
triphenylstannane  (EXP)
Triptolide  (EXP,ISO)
triptonide  (ISO)
tris(2-butoxyethyl) phosphate  (ISO)
tris(2-chloroethyl) phosphate  (ISO)
undecane  (EXP)
uranium atom  (EXP)
valproic acid  (ISO)
vanadyl sulfate  (ISO)
vecuronium bromide  (ISO)
vinclozolin  (EXP)
vitamin E  (EXP)
vitamin K  (EXP)
wortmannin  (EXP)
zearalenone  (EXP,ISO)
zidovudine  (ISO)
ziram  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
biphenyl metabolic process  (IEP)
C21-steroid hormone biosynthetic process  (IBA,IDA,IEA,ISO)
cellular response to antibiotic  (IEP)
cellular response to cadmium ion  (IEP)
cellular response to cAMP  (IEP)
cellular response to fibroblast growth factor stimulus  (IEP)
cellular response to follicle-stimulating hormone stimulus  (IEP)
cellular response to gonadotropin stimulus  (IEP)
cellular response to interleukin-1  (IEP)
cellular response to lipopolysaccharide  (IEP)
cellular response to peptide hormone stimulus  (IBA,IEP)
cellular response to transforming growth factor beta stimulus  (IEP)
cellular response to tumor necrosis factor  (IEP)
cerebellum development  (IEP)
cholesterol metabolic process  (IBA,IEA,ISO,ISS)
cortisol metabolic process  (IBA)
dibenzo-p-dioxin metabolic process  (IEP)
glucocorticoid biosynthetic process  (IBA)
granulosa cell differentiation  (IEP)
hippocampus development  (IEP)
Leydig cell differentiation  (IEP)
male gonad development  (IEP)
maternal process involved in female pregnancy  (IEP)
mating behavior  (IMP)
organic acid metabolic process  (IEP)
phenol-containing compound metabolic process  (IEP)
phthalate metabolic process  (IEP)
response to alkaloid  (IEP)
response to amino acid  (IEP)
response to antibiotic  (IEP)
response to cadmium ion  (IEP)
response to cAMP  (IEP)
response to corticosterone  (IEP)
response to drug  (IEP)
response to estrogen  (IEP)
response to fungicide  (IEP)
response to gamma radiation  (IEP)
response to genistein  (IEP)
response to gonadotropin  (IEP)
response to hydrogen peroxide  (IMP)
response to insecticide  (IEP)
response to ionizing radiation  (IEP)
response to L-ascorbic acid  (IEP)
response to nutrient  (IEP)
response to organic cyclic compound  (IEP)
response to organic substance  (IEP)
response to peptide hormone  (IEP)
response to salt stress  (IEP)
response to steroid hormone  (IEP)
response to vitamin E  (IEP)
Schwann cell differentiation  (IEP)
steroid biosynthetic process  (IMP)
testosterone biosynthetic process  (IEP)

Cellular Component

Molecular Function

References

References - curated
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2. Ben-Zimra M, etal., Mol Endocrinol 2002 Aug;16(8):1864-80.
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14. Fei J, etal., Toxicology. 2010 Jan 12;267(1-3):1-6. Epub 2009 Nov 3.
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17. Ghayee HK and Auchus RJ, Rev Endocr Metab Disord. 2007 Dec;8(4):289-300.
18. GOA data from the GO Consortium
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22. Hammer F, etal., Endocrinology 2004 Feb;145(2):901-12. Epub 2003 Oct 23.
23. Han DY, etal., Toxicol Ind Health. 2010 Jun;26(5):287-96. Epub 2010 Mar 31.
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27. Katsumata N, etal., J Clin Endocrinol Metab. 2002 Aug;87(8):3808-13.
28. Kimoto T, etal., Endocrinology. 2010 Nov 3.
29. Kobayashi T, etal., J Reprod Dev. 2009 Dec;55(6):629-37. Epub 2009 Sep 7.
30. Kubota K, etal., J Reprod Dev. 2003 Oct;49(5):403-12.
31. Kumar V, etal., Food Chem Toxicol. 2008 Dec;46(12):3563-70. Epub 2008 Aug 31.
32. Kumar V, etal., J Steroid Biochem Mol Biol. 2008 Sep;111(3-5):208-16. Epub 2008 Jun 18.
33. Kumar V, etal., Reprod Toxicol. 2009 Apr;27(2):177-85. Epub 2008 Dec 11.
34. Kumar V, etal., Toxicology. 2008 Sep 4;250(2-3):124-31. Epub 2008 Jul 9.
35. Lavaque E, etal., J Neurobiol. 2006 Feb 15;66(3):308-18.
36. Lee da L, etal., J Interferon Cytokine Res. 2009 Dec;29(12):801-8.
37. Lin T, etal., J Endocrinol. 1998 Mar;156(3):461-7.
38. Lin T, etal., Mol Cell Endocrinol. 1994 May;101(1-2):111-9.
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40. MGD data from the GO Consortium
41. Miller WL Rev Endocr Metab Disord. 2009 Mar;10(1):3-17.
42. Murono EP, etal., Reprod Toxicol. 2006 Feb;21(2):148-53. Epub 2005 Oct 12.
43. Murrell JR, etal., Circulation. 2005 Aug 30;112(9):1301-8. Epub 2005 Aug 22.
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47. Nakamura E, etal., Endocrinology. 2010 Nov;151(11):5506-18. Epub 2010 Sep 1.
48. NCBI rat LocusLink and RefSeq merged data July 26, 2002
49. Nishizato Y, etal., Toxicol In Vitro. 2010 Mar;24(2):677-85. Epub 2009 Aug 7.
50. O'Shaughnessy PJ, etal., Reproduction. 2008 Jun;135(6):851-8.
51. Ohtani T, etal., J Hypertens. 2009 May;27(5):1074-83.
52. OMIM Disease Annotation Pipeline
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62. Pipeline to import KEGG annotations from KEGG into RGD
63. Pipeline to import SMPDB annotations from SMPDB into RGD
64. RGD automated data pipeline
65. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
66. RGD automated import pipeline for gene-chemical interactions
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68. Ryu JY, etal., J Toxicol Environ Health A. 2008;71(23):1542-9.
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Additional References at PubMed
PMID:7527351   PMID:8111631   PMID:11502818   PMID:12477932   PMID:12911631   PMID:14651853   PMID:15026086   PMID:16098191   PMID:16354159   PMID:17400582   PMID:18065196   PMID:18182448  
PMID:18296822   PMID:18410379   PMID:18614015   PMID:20568448   PMID:21273442   PMID:21636783   PMID:22217827   PMID:22674924   PMID:22798247   PMID:23332974   PMID:24713504   PMID:24760842  
PMID:27428926   PMID:30884106  


Genomics

Comparative Map Data
Cyp11a1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2858,422,807 - 58,434,342 (+)NCBI
Rnor_6.0 Ensembl862,779,875 - 62,809,893 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0862,798,317 - 62,809,848 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0862,525,349 - 62,585,615 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4861,793,976 - 61,805,308 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1861,812,986 - 61,824,536 (+)NCBI
Celera857,887,124 - 57,898,655 (+)NCBICelera
Cytogenetic Map8q24NCBI
CYP11A1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1574,337,759 - 74,367,646 (-)EnsemblGRCh38hg38GRCh38
GRCh381574,337,762 - 74,367,646 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371574,630,103 - 74,659,987 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361572,417,156 - 72,447,134 (-)NCBINCBI36hg18NCBI36
Build 341572,417,156 - 72,447,020NCBI
Celera1551,578,744 - 51,607,311 (-)NCBI
Cytogenetic Map15q24.1NCBI
HuRef1551,425,968 - 51,455,911 (-)NCBIHuRef
CHM1_11574,748,248 - 74,778,221 (-)NCBICHM1_1
Cyp11a1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39957,905,307 - 57,934,314 (+)NCBIGRCm39mm39
GRCm39 Ensembl957,913,694 - 57,934,306 (+)Ensembl
GRCm38957,998,024 - 58,027,031 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl958,006,411 - 58,027,023 (+)EnsemblGRCm38mm10GRCm38
MGSCv37957,862,824 - 57,874,830 (+)NCBIGRCm37mm9NCBIm37
MGSCv36957,813,153 - 57,825,158 (+)NCBImm8
Celera955,247,551 - 55,259,829 (+)NCBICelera
Cytogenetic Map9BNCBI
cM Map931.63NCBI
LOC102014960
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554503,474,491 - 3,484,232 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554503,433,310 - 3,484,462 (+)NCBIChiLan1.0ChiLan1.0
CYP11A1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11572,901,274 - 72,931,614 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1572,901,286 - 72,931,164 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01553,280,110 - 53,310,868 (-)NCBIMhudiblu_PPA_v0panPan3
CYP11A1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13037,474,997 - 37,487,028 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3037,473,901 - 37,487,507 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3037,409,316 - 37,421,325 (-)NCBI
ROS_Cfam_1.03037,680,903 - 37,692,929 (-)NCBI
UMICH_Zoey_3.13037,633,421 - 37,645,467 (-)NCBI
UNSW_CanFamBas_1.03037,658,685 - 37,670,696 (-)NCBI
UU_Cfam_GSD_1.03037,914,475 - 37,926,521 (-)NCBI
LOC101975820
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640115,519,508 - 115,532,788 (-)NCBI
SpeTri2.0NW_00493647133,367,810 - 33,380,764 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CYP11A1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl759,175,758 - 59,188,478 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1759,172,829 - 59,188,479 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
CYP11A1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1269,122,008 - 9,151,844 (+)NCBI
LOC101704598
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624781288,594 - 298,876 (+)NCBI

Position Markers
PMC27916P1  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0862,809,584 - 62,809,733NCBIRnor6.0
Rnor_5.0862,585,347 - 62,585,496UniSTSRnor5.0
RGSC_v3.4861,805,218 - 61,805,367UniSTSRGSC3.4
Celera857,898,391 - 57,898,540UniSTS
Cytogenetic Map8q24UniSTS
RH134353  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0862,809,565 - 62,809,773NCBIRnor6.0
Rnor_5.0862,585,328 - 62,585,536UniSTSRnor5.0
RGSC_v3.4861,805,199 - 61,805,407UniSTSRGSC3.4
Celera857,898,372 - 57,898,580UniSTS
RH 3.4 Map6783.7UniSTS
Cytogenetic Map8q24UniSTS
PMC140651P2  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0862,802,898 - 62,802,975NCBIRnor6.0
Rnor_5.0862,578,661 - 62,578,738UniSTSRnor5.0
RGSC_v3.4861,798,532 - 61,798,609UniSTSRGSC3.4
Celera857,891,705 - 57,891,782UniSTS
Cytogenetic Map8q24UniSTS
UniSTS:464661  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0862,808,022 - 62,808,411NCBIRnor6.0
Rnor_5.0862,583,785 - 62,584,174UniSTSRnor5.0
RGSC_v3.4861,803,656 - 61,804,045UniSTSRGSC3.4
Celera857,896,829 - 57,897,218UniSTS
Cytogenetic Map8q24UniSTS
UniSTS:257092  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0862,798,321 - 62,799,836NCBIRnor6.0
Rnor_5.0862,574,084 - 62,575,599UniSTSRnor5.0
RGSC_v3.4861,793,955 - 61,795,470UniSTSRGSC3.4
Celera857,887,128 - 57,888,643UniSTS
Cytogenetic Map8q24UniSTS
UniSTS:474701  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0862,807,952 - 62,809,031NCBIRnor6.0
Rnor_5.0862,583,715 - 62,584,794UniSTSRnor5.0
RGSC_v3.4861,803,586 - 61,804,665UniSTSRGSC3.4
Celera857,896,759 - 57,897,838UniSTS
Cytogenetic Map8q24UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1581557Eae16Experimental allergic encephalomyelitis QTL 163.8nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)89531047119211942Rat
631650Stl6Serum triglyceride level QTL 640.0019blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)810938911120496129Rat
61373Mcs4Mammary carcinoma susceptibility QTL 41.1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)82071759265717592Rat
631271Lecl1Lens clarity QTL 10.001lens clarity trait (VT:0001304)age of onset/diagnosis of cataract (CMO:0001584)82146491991140553Rat
731182Uae24Urinary albumin excretion QTL 246.4urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)821813070100873963Rat
631842Inf1Infertility severity QTL 14.10.001seminal gland mass (VT:0010524)seminal vesicle wet weight (CMO:0001603)82784149672841496Rat
1358892Kidm26Kidney mass QTL 263.69kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)829867983106526740Rat
1358896Bp262Blood pressure QTL 2622.89arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)829867983106526740Rat
1358907Cm40Cardiac mass QTL 401.89heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)829867983106526740Rat
2303564Gluco43Glucose level QTL 433blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)83014480075144800Rat
2303572Insul13Insulin level QTL 132blood insulin amount (VT:0001560)blood insulin level (CMO:0000349)83014480075144800Rat
1300146Rf17Renal function QTL 172.9renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)83091811275918112Rat
8662823Vetf5Vascular elastic tissue fragility QTL 51.9artery integrity trait (VT:0010639)patent ductus arteriosus score (CMO:0002566)830918112107206309Rat
724514Uae15Urinary albumin excretion QTL 152.9urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)83220198175971421Rat
1549908Neudeg1Neurodegradation QTL 15.50nervous system integrity trait (VT:0010566)logarithm of the ratio of the lesioned side motor neuron count to contralateral side motor neuron count (CMO:0001986)832888352101374135Rat
1331744Bp217Blood pressure QTL 2173.398arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)83355866062857995Rat
61353Bp35Blood pressure QTL 350.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)83355866065717592Rat
61353Bp35Blood pressure QTL 350.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)83355866065717592Rat
61353Bp35Blood pressure QTL 350.001arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)83355866065717592Rat
61353Bp35Blood pressure QTL 350.001arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)83355866065717592Rat
1359033Bp273Blood pressure QTL 273arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)83355866065717592Rat
11556286Cm81Cardiac mass QTL 810.01heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)83355866065717592Rat
2313046Bss78Bone structure and strength QTL 783.50.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)83355866089058369Rat
2313057Bss76Bone structure and strength QTL 7630.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)83355866089058369Rat
2313067Bss77Bone structure and strength QTL 773.10.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)83355866089058369Rat
2313088Bss75Bone structure and strength QTL 753.10.0001body length (VT:0001256)body length, nose to rump (CMO:0000079)83355866089058369Rat
1578765Klgr1Kidney lesion grade QTL 13.30.0001kidney morphology trait (VT:0002135)organ lesion measurement (CMO:0000677)833558660109028082Rat
1578769Uae31Urinary albumin excretion QTL 313.30.001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)833558660109028082Rat
1578755Pur5Proteinuria QTL 53.30.0001total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)833558660109028082Rat
2316950Scl66Serum cholesterol level QTL 664.1blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)833558764113580387Rat
1298065Scl16Serum cholesterol level QTL 163.8blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)83504141480041414Rat
1582222Epfw2Epididymal fat weight QTL 23.20.0005epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)83592559480925594Rat
1331838Niddm61Non-insulin dependent diabetes mellitus QTL 613.530.0004blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)839230130106506973Rat
61358Bp39Blood pressure QTL 392arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)83992790184927901Rat
61464Niddm11Non-insulin dependent diabetes mellitus QTL 113.10.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)83995802284958022Rat
737824Hcar10Hepatocarcinoma resistance QTL 102.9liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)84421919789542960Rat
1358906Bp253Blood pressure QTL 25340.0004arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)844219197100873963Rat
1554321Bmd3Bone mineral density QTL 37.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)844458129118087517Rat
1331769Rf39Renal function QTL 393.871urine output (VT:0003620)timed urine volume (CMO:0000260)84571234480003418Rat
1298079Activ2Activity QTL 29.50.000001voluntary movement trait (VT:0003491)rearing measurement (CMO:0001515)84571234490712344Rat
631216Stl9Serum triglyceride level QTL 94.710.0001blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)84571247575971259Rat
70161Bp62Blood pressure QTL 622.90.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)84658843796998640Rat
12879882Am8Aortic mass QTL 80.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)847200750106394378Rat
12879878Bw183Body weight QTL 1830.001body mass (VT:0001259)body weight (CMO:0000012)847200750106394378Rat
12879879Cm99Cardiac mass QTL 990.001heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)847200750106394378Rat
12879880Cm100Cardiac mass QTL 1000.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)847200750106394378Rat
12879881Cm101Cardiac mass QTL 1010.001heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)847200750106394378Rat
12879883Kidm65Kidney mass QTL 650.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)847200750106394378Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)850529480128036471Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)850529480128036471Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)850529480128036471Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)850529480128036471Rat
1331837Bw23Body weight QTL 234.190.00007body mass (VT:0001259)body weight (CMO:0000012)850529563106506973Rat
2313086Bss60Bone structure and strength QTL 604.10.0001tibia length (VT:0004357)tibia length (CMO:0000450)85406504489058369Rat
4889938Bss89Bone structure and strength QTL 893.8tibia size trait (VT:0100001)tibia cortical bone volume (CMO:0001725)85406504489058369Rat
5684973Bss100Bone structure and strength QTL 1004.7tibia area (VT:1000281)tibia area measurement (CMO:0001382)85406504489058369Rat
1358912Bw51Body weight QTL 512.95body mass (VT:0001259)body weight (CMO:0000012)855435004115812386Rat
2303570Gluco48Glucose level QTL 482blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)855659105100659105Rat
2293697Bmd39Bone mineral density QTL 39femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)858230766106394378Rat
1582243Bw66Body weight QTL 663.40.0048body mass (VT:0001259)body weight (CMO:0000012)85842551091990535Rat
1582254Kidm31Kidney mass QTL 313kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)85842551091990535Rat
631664Hcar3Hepatocarcinoma resistance QTL 32.90.0005liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)858425510106526740Rat
1300177Cm2Cardiac mass QTL 23.65heart mass (VT:0007028)heart weight (CMO:0000017)859234112108068306Rat
2301402Bp316Blood pressure QTL 3160.005arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)861394378106394378Rat
10402857Bp380Blood pressure QTL 3800.95arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)861394378106394378Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:136
Count of miRNA genes:113
Interacting mature miRNAs:120
Transcripts:ENSRNOT00000010831
Prediction methods:Microtar, 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 14 3
Medium 1 1 1 1 1 23 1
Low 3 43 15 7 17 7 7 7 48 28 13 8 7
Below cutoff 14 14 2 14 22 7 2 3

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000010831   ⟹   ENSRNOP00000010831
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl862,779,875 - 62,809,893 (+)Ensembl
RefSeq Acc Id: NM_017286   ⟹   NP_058982
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2858,422,807 - 58,434,338 (+)NCBI
Rnor_6.0862,798,317 - 62,809,848 (+)NCBI
Rnor_5.0862,525,349 - 62,585,615 (+)NCBI
RGSC_v3.4861,793,976 - 61,805,308 (+)RGD
Celera857,887,124 - 57,898,655 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039080971   ⟹   XP_038936899
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2858,425,009 - 58,434,342 (+)NCBI
RefSeq Acc Id: XM_039080972   ⟹   XP_038936900
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2858,425,392 - 58,434,342 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_058982   ⟸   NM_017286
- Peptide Label: precursor
- UniProtKB: P14137 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000010831   ⟸   ENSRNOT00000010831
RefSeq Acc Id: XP_038936899   ⟸   XM_039080971
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038936900   ⟸   XM_039080972
- Peptide Label: isoform X2

Transcriptome

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


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:69325 AgrOrtholog
Ensembl Genes ENSRNOG00000008074 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000010831 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000010831 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 1.10.630.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7307104 IMAGE-MGC_LOAD
InterPro CYP11A1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Cyt_P450 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Cyt_P450_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Cyt_P450_E_grp-I UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Cyt_P450_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:29680 UniProtKB/Swiss-Prot
MGC_CLONE MGC:105469 IMAGE-MGC_LOAD
NCBI Gene 29680 ENTREZGENE
PANTHER PTHR24279:SF3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam p450 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Cyp11a1 PhenoGen
PRINTS EP450I UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  P450 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE CYTOCHROME_P450 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF48264 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0H2UHG1_RAT UniProtKB/TrEMBL
  CP11A_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary Q5FWY8 UniProtKB/Swiss-Prot
  Q6LDR9 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-09-10 Cyp11a1  cytochrome P450, family 11, subfamily a, polypeptide 1  Cyp11a  cytochrome P450, subfamily 11A  Symbol and Name updated 1299863 APPROVED
2002-06-10 Cyp11a  cytochrome P450, subfamily 11A      Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_expression highly expressed from placentation to midgestation 632560