Cyp1b1 (cytochrome P450, family 1, subfamily b, polypeptide 1) - Rat Genome Database

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Gene: Cyp1b1 (cytochrome P450, family 1, subfamily b, polypeptide 1) Rattus norvegicus
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Symbol: Cyp1b1
Name: cytochrome P450, family 1, subfamily b, polypeptide 1
RGD ID: 2460
Description: Enables monooxygenase activity. Involved in several processes, including positive regulation of cellular metabolic process; response to gonadotropin; and response to steroid hormone. Located in nucleus. Biomarker of breast adenocarcinoma and esophagus squamous cell carcinoma. Human ortholog(s) of this gene implicated in Peters anomaly; anterior segment dysgenesis 6; breast cancer; glaucoma (multiple); and lung squamous cell carcinoma. Orthologous to human CYP1B1 (cytochrome P450 family 1 subfamily B member 1); PARTICIPATES IN phase I biotransformation pathway via cytochrome P450; steroid hormone biosynthetic pathway; tryptophan metabolic pathway; INTERACTS WITH 1,2,3,4,6,7,8-Heptachlorodibenzodioxin; 1,2,3,4,6,7,8-Heptachlorodibenzofuran; 1,2,3,4,7,8-Hexachlorodibenzofuran.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: CYPIB1; cytochrome P450 1b1; cytochrome P450, subfamily 1B, polypeptide 1; cytochrome P450RAP; hydroperoxy icosatetraenoate dehydratase; P450RAP
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2615,342,312 - 15,350,886 (+)NCBImRatBN7.2
Rnor_6.0 Ensembl62,307,808 - 2,316,722 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.062,308,179 - 2,316,739 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.062,294,952 - 2,300,644 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.462,548,224 - 2,553,767 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.162,545,648 - 2,553,767 (-)NCBI
Celera615,009,941 - 15,015,671 (+)NCBICelera
Cytogenetic Map6q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-epigallocatechin 3-gallate  (ISO)
(-)-trans-epsilon-viniferin  (ISO)
(R)-pantothenic acid  (ISO)
(S)-naringenin  (ISO)
1,2,3,4,6,7,8-Heptachlorodibenzodioxin  (EXP)
1,2,3,4,6,7,8-Heptachlorodibenzofuran  (EXP)
1,2,3,4,7,8-Hexachlorodibenzofuran  (EXP)
1,2,3,6,7,8-Hexachlorodibenzodioxin  (EXP)
1,2,3,7,8-Pentachlorodibenzodioxin  (EXP,ISO)
1,3-Dinitropyrene  (ISO)
1,4-dihydroxy-2-naphthoic acid  (ISO)
1,4-naphthoquinone  (ISO)
1,8-Dinitropyrene  (ISO)
1-hydroxy-2-naphthoic acid  (ISO)
1-methylphenanthrene  (EXP)
1-naphthol  (ISO)
1-naphthyl isothiocyanate  (EXP,ISO)
1-nitropyrene  (ISO)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (EXP,ISO)
17beta-estradiol 3-benzoate  (EXP)
17beta-hydroxy-5alpha-androstan-3-one  (ISO)
2'-deoxyguanosine  (ISO)
2'-hydroxychalcone  (ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (EXP,ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,2',4,5-tetrachlorobiphenyl  (EXP)
2,2',5,5'-tetrachlorobiphenyl  (ISO)
2,3',4,4',5,5'-Hexachlorobiphenyl  (EXP)
2,3',4,4',5-Pentachlorobiphenyl  (EXP,ISO)
2,3,3',4,4',5,5'-Heptachlorobiphenyl  (EXP)
2,3,3',4,4',5-Hexachlorobiphenyl  (EXP,ISO)
2,3,4,3',4'-Pentachlorobiphenyl  (EXP)
2,3,4,7,8-Pentachlorodibenzofuran  (EXP,ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP,ISO)
2,4-D  (EXP)
2,4-diaminotoluene  (ISO)
2,4-dichlorophenol  (ISO)
2-(3,4-dimethoxyphenyl)-5-\{[2-(3,4-dimethoxyphenyl)ethyl](methyl)amino\}-2-(propan-2-yl)pentanenitrile  (ISO)
2-acetamidofluorene  (ISO)
2-hydroxy-17beta-estradiol  (ISO)
2-naphthol  (ISO)
3',5'-cyclic AMP  (EXP,ISO)
3,3',4,4',5-pentachlorobiphenyl  (EXP,ISO)
3,3',4,4'-tetrachlorobiphenyl  (EXP,ISO)
3,3',5,5'-tetrabromobisphenol A  (EXP,ISO)
3,3'-diindolylmethane  (ISO)
3,4,5,3',4',5'-Hexachlorobiphenyl  (EXP)
3,4-dichloroaniline  (ISO)
3,4-methylenedioxymethamphetamine  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
3-methylcholanthrene  (EXP,ISO)
3-Methylchrysene  (ISO)
3-Nitrofluoranthene  (ISO)
4',5,7-trihydroxy-3'-methoxyflavone  (ISO)
4',5,7-Trimethoxyflavone  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-(N-nitrosomethylamino)-1-(3-pyridyl)butan-1-one  (ISO)
4-hydroxy-17beta-estradiol  (ISO)
4-hydroxychalcone  (ISO)
4-hydroxynon-2-enal  (ISO)
4-hydroxyphenyl retinamide  (ISO)
4-methoxy-17beta-estradiol  (ISO)
4-Methylchrysene  (ISO)
4-nonylphenol  (EXP)
5,7-dihydroxy-4'-methoxyflavone  (ISO)
5-aza-2'-deoxycytidine  (ISO)
5-azacytidine  (ISO)
5-Hydroxyflavone  (ISO)
5-methoxy-2-\{[(4-methoxy-3,5-dimethylpyridin-2-yl)methyl]sulfinyl\}-1H-benzimidazole  (ISO)
5-methoxyindole  (ISO)
5-Methylchrysene  (ISO)
6-chrysenamine  (ISO)
6-hydroxyluteolin  (ISO)
6-Methylchrysene  (ISO)
6-Nitrobenzo[a]pyrene  (ISO)
6-Nitrochrysene  (ISO)
6-prenylnaringenin  (ISO)
6-propyl-2-thiouracil  (EXP)
7,12-dimethyltetraphene  (EXP,ISO)
7-hydroxyflavone  (ISO)
8-Br-cAMP  (EXP,ISO)
9-phenanthrol  (ISO)
acenaphthene  (ISO)
acenaphthylene  (ISO)
actinomycin D  (EXP,ISO)
adefovir pivoxil  (ISO)
afimoxifene  (ISO)
aflatoxin B1  (ISO)
AH23848  (ISO)
aldehydo-D-glucose  (ISO)
alizarin  (ISO)
all-trans-retinoic acid  (ISO)
all-trans-retinol  (ISO)
Aloe emodin  (ISO)
alpha-naphthoflavone  (EXP,ISO)
amentoflavone  (ISO)
amiodarone  (ISO)
ammonium chloride  (EXP)
amodiaquine  (ISO)
andrographolide  (ISO)
aniline  (ISO)
anthracene  (ISO)
anthraflavic acid  (ISO)
antirheumatic drug  (ISO)
apigenin  (ISO)
arachidonic acid  (ISO)
Aroclor 1254  (EXP,ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite ion  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
atrazine  (EXP,ISO)
avobenzone  (ISO)
baicalein  (ISO)
belinostat  (ISO)
benzene  (ISO)
benzene-1,2,4-triol  (ISO)
benzo[a]pyrene  (EXP,ISO)
benzo[a]pyrene diol epoxide I  (ISO)
Benzo[a]pyrene-7,8-diol  (EXP,ISO)
benzo[a]pyrene-7,8-dione  (ISO)
benzo[b]fluoranthene  (EXP,ISO)
benzo[c]phenanthrene  (ISO)
benzo[e]pyrene  (ISO)
Benzo[ghi]perylene  (ISO)
Benzo[j]fluoranthene  (ISO)
Benzo[k]fluoranthene  (ISO)
bergomottin  (ISO)
beta-carboline  (ISO)
beta-naphthoflavone  (EXP,ISO)
bexarotene  (EXP)
biochanin A  (ISO)
biotin  (ISO)
biphenyl  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
brefeldin A  (ISO)
bucladesine  (ISO)
butan-1-ol  (ISO)
Butylbenzyl phthalate  (ISO)
Butylparaben  (ISO)
butyric acid  (ISO)
C60 fullerene  (EXP)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
caffeine  (ISO)
calciol  (ISO)
calcium atom  (ISO)
calcium(0)  (ISO)
calyculin a  (ISO)
carbon monoxide  (ISO)
carbon nanotube  (ISO)
carbonyl sulfide  (EXP)
Carnosol  (ISO)
cefaloridine  (EXP)
ceric oxide  (EXP)
chelerythrine  (ISO)
chloroacetaldehyde  (ISO)
chloropicrin  (ISO)
chloroprene  (ISO)
chlorpromazine  (ISO)
chlorpyrifos  (ISO)
choline  (ISO)
Chorionic gonadotropin  (EXP)
chromium atom  (ISO)
chromium(6+)  (ISO)
chrysene  (EXP,ISO)
chrysin  (ISO)
chrysin 5,7-dimethyl ether  (ISO)
chrysophanol  (ISO)
cidofovir anhydrous  (ISO)
cirsiliol  (ISO)
cisplatin  (ISO)
citral  (ISO)
clodronic acid  (ISO)
clothianidin  (ISO)
clozapine  (ISO)
Clozapine N-oxide  (ISO)
cobalt atom  (ISO)
cobalt dichloride  (ISO)
colforsin daropate hydrochloride  (EXP)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
cortisol  (EXP)
coumestrol  (ISO)
curcumin  (ISO)
cycloheximide  (EXP,ISO)
cyclophosphamide  (ISO)
cyclosporin A  (ISO)
cylindrospermopsin  (ISO)
cypermethrin  (ISO)
D-glucose  (ISO)
daidzein  (ISO)
daunorubicin  (ISO)
DDE  (ISO)
DDT  (ISO)
decabromodiphenyl ether  (EXP)
dehydroepiandrosterone  (ISO)
deoxynivalenol  (ISO)
dexamethasone  (EXP,ISO)
dextromethorphan  (ISO)
Diallyl sulfide  (EXP)
diarsenic trioxide  (ISO)
diazinon  (EXP)
Dibenz[a,c]anthracene  (ISO)
dibenz[a,h]anthracene  (EXP,ISO)
Dibenzo[a,e]pyrene  (EXP)
dibenzo[a,l]pyrene  (EXP,ISO)
dibromoacetic acid  (EXP)
dibutyl phthalate  (ISO)
dichloromethane  (ISO)
diclofenac  (ISO)
dieldrin  (EXP)
diethyl phthalate  (ISO)
diethylstilbestrol  (EXP,ISO)
dihydroergotamine  (ISO)
dimethyl sulfoxide  (ISO)
diosmetin  (ISO)
dioxygen  (EXP,ISO)
diuron  (EXP,ISO)
dopamine  (ISO)
dorsomorphin  (ISO)
doxorubicin  (EXP,ISO)
doxycycline  (ISO)
Droloxifene  (ISO)
ellagic acid  (ISO)
ellipticine  (ISO)
emodin  (ISO)
enilconazole  (ISO)
estrone  (ISO)
ethanol  (EXP,ISO)
ethoxyquin  (EXP)
ethylbenzene  (ISO)
ethylisopropylamiloride  (ISO)
eugenol  (ISO)
eupatorin  (ISO)
filipin III  (ISO)
fingolimod hydrochloride  (ISO)
flavanone  (ISO)
flavone  (ISO)
flavonol  (ISO)
fluoranthene  (EXP,ISO)
flutamide  (EXP)
folic acid  (ISO)
formaldehyde  (EXP,ISO)
formononetin  (ISO)
fructose  (ISO)
fulvestrant  (ISO)
fumonisin B1  (ISO)
furan  (EXP)
galangin  (ISO)
gamma-hexachlorocyclohexane  (EXP)
genistein  (EXP,ISO)
genkwanin  (ISO)
gentamycin  (EXP)
geranial  (ISO)
geraniol  (ISO)
glucaric acid  (ISO)
glucoerucin  (EXP)
glucoerucin(1-)  (EXP)
glucoraphanin  (EXP)
glucose  (ISO)
glutathione  (ISO)
hesperetin  (ISO)
hexachlorobenzene  (EXP)
homoeriodictyol  (ISO)
hydrogen peroxide  (ISO)
hydrogen sulfide  (ISO)
hydroquinone  (ISO)
ICI 118551  (ISO)
ifosfamide  (ISO)
imperatorin  (ISO)
Indeno[1,2,3-cd]pyrene  (ISO)
indole-3-acetic acid  (ISO)
indole-3-methanol  (EXP,ISO)
indoles  (ISO)
indometacin  (EXP,ISO)
indoxyl sulfate  (ISO)
isoflavones  (ISO)
isoimperatorin  (ISO)
isoliquiritigenin  (ISO)
isopimpinellin  (ISO)
isoprenaline  (EXP,ISO)
isoproturon  (ISO)
isorhamnetin  (ISO)
ivermectin  (ISO)
kaempferol  (ISO)
ketoconazole  (ISO)
KN-93  (ISO)
kynurenine  (ISO)
L-methionine  (ISO)
L-tryptophan  (ISO)
lansoprazole  (ISO)
laquinimod  (EXP,ISO)
lead diacetate  (EXP)
leflunomide  (EXP,ISO)
Licochalcone A  (ISO)
linuron  (ISO)
lithocholic acid  (ISO)
luteolin  (ISO)
LY294002  (ISO)
lycopene  (ISO)
medroxyprogesterone acetate  (ISO)
MeIQx  (ISO)
melatonin  (ISO)
menadione  (ISO)
mephenytoin  (ISO)
mercury atom  (ISO)
mercury dibromide  (ISO)
mercury dichloride  (ISO)
mercury(0)  (ISO)
metformin  (ISO)
methoxsalen  (ISO)
methoxychlor  (EXP,ISO)
methylmercury chloride  (ISO)
midazolam  (ISO)
mifepristone  (EXP)
mono(2-ethylhexyl) phthalate  (EXP,ISO)
monobenzyl phthalate  (ISO)
monocrotaline  (ISO)
monoethyl phthalate  (ISO)
myricetin  (ISO)
N-[2-(4-bromocinnamylamino)ethyl]isoquinoline-5-sulfonamide  (EXP,ISO)
N-acetyl-L-cysteine  (EXP,ISO)
N-benzyloxycarbonyl-L-leucyl-L-leucyl-L-leucinal  (ISO)
N-desmethylclozapine  (ISO)
N-Desmethyltamoxifen  (ISO)
N-hydroxy-PhIP  (ISO)
N-nitrosodiethylamine  (EXP)
NADP zwitterion  (ISO)
NADP(+)  (ISO)
naphthalene  (ISO)
naphthalenes  (EXP)
naringin  (ISO)
Nicardipine  (ISO)
nickel atom  (EXP,ISO)
nickel dichloride  (ISO)
nickel subsulfide  (ISO)
nickel sulfate  (EXP,ISO)
nifedipine  (ISO)
nimesulide  (ISO)
nobiletin  (ISO)
NS-398  (ISO)
O-methyleugenol  (ISO)
o-xylene  (ISO)
okadaic acid  (ISO)
oltipraz  (ISO)
omeprazole  (ISO)
organoselenium compound  (ISO)
oxaliplatin  (EXP)
ozone  (ISO)
p-chloromercuribenzoic acid  (ISO)
panobinostat  (ISO)
paracetamol  (ISO)
paricalcitol  (ISO)
perfluorononanoic acid  (ISO)
phenanthrene  (ISO)
phenanthrenes  (ISO)
phenobarbital  (EXP)
phenylmercury acetate  (ISO)
phenytoin  (ISO)
PhIP  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
phosphorus atom  (ISO)
phosphorus(.)  (ISO)
piperonyl butoxide  (ISO)
pirinixic acid  (ISO)
potassium chromate  (ISO)
potassium dichromate  (ISO)
pravastatin  (EXP,ISO)
pregnenolone 16alpha-carbonitrile  (ISO)
primaquine  (ISO)
prochloraz  (ISO)
progesterone  (EXP,ISO)
propiconazole  (ISO)
propranolol  (ISO)
prostaglandin E2  (ISO)
protein kinase inhibitor  (ISO)
purpurin  (ISO)
pyrene  (ISO)
quercetin  (EXP,ISO)
quercetin 3-O-beta-D-glucofuranoside  (ISO)
quercetin 3-O-beta-D-glucopyranoside  (ISO)
quercitrin  (ISO)
quinidine  (ISO)
resveratrol  (ISO)
rifampicin  (ISO)
Rutecarpine  (ISO)
rutin  (ISO)
salicylamide  (ISO)
sanguinarine  (ISO)
SB 431542  (ISO)
scutellarein  (ISO)
senecionine  (ISO)
silicon dioxide  (ISO)
sinensetin  (ISO)
skatole  (ISO)
sodium acetate trihydrate  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sodium dichromate  (ISO)
sodium propionate  (ISO)
steviol  (ISO)
stevioside  (ISO)
stilbenoid  (ISO)
Sudan I  (ISO)
sulforaphane  (EXP,ISO)
sulindac  (EXP,ISO)
sulindac sulfide  (ISO)
sunitinib  (EXP,ISO)
suramin  (ISO)
tamoxifen  (ISO)
tangeretin  (ISO)
temozolomide  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone  (EXP,ISO)
tetrachloromethane  (ISO)
tetrahydrocurcumin  (ISO)
tetraphene  (EXP,ISO)
thapsigargin  (ISO)
titanium dioxide  (ISO)
toluene  (ISO)
topotecan  (EXP)
tranilast  (ISO)
triadimefon  (ISO)
trichloroethene  (EXP,ISO)
trichostatin A  (ISO)
triclocarban  (EXP,ISO)
triclosan  (EXP,ISO)
trimethylarsine oxide  (ISO)
troglitazone  (ISO)
Tungsten carbide  (ISO)
undecane  (EXP)
urethane  (ISO)
valproic acid  (ISO)
vanadium atom  (ISO)
vanadium(0)  (ISO)
vancomycin  (ISO)
verapamil  (ISO)
vinclozolin  (EXP)
vorinostat  (ISO)
wortmannin  (EXP,ISO)
Yessotoxin  (ISO)
zaragozic acid A  (EXP,ISO)
zearalenone  (ISO)
zidovudine  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
adrenal gland development  (IEP)
angiogenesis  (IEA,ISO)
arachidonic acid metabolic process  (IEA,ISO,ISS)
benzene-containing compound metabolic process  (IDA,IMP)
blood vessel morphogenesis  (ISO,ISS)
cell adhesion  (ISO,ISS)
cellular aromatic compound metabolic process  (IDA,IEA,ISO)
cellular response to cAMP  (IEP)
cellular response to cortisol stimulus  (IEP)
cellular response to hydrogen peroxide  (IEA,ISO,ISS)
cellular response to luteinizing hormone stimulus  (IEP)
cellular response to organic cyclic compound  (IEA,ISO)
cellular response to progesterone stimulus  (IEP)
cellular response to tumor necrosis factor  (IEP)
collagen fibril organization  (IEA,ISO,ISS)
dibenzo-p-dioxin metabolic process  (ISO)
DNA modification  (IMP)
endothelial cell migration  (IEA,ISO,ISS)
endothelial cell-cell adhesion  (IEA,ISO)
estrogen metabolic process  (IDA,IEA,IMP,ISO)
estrous cycle  (IEP)
ganglion development  (IEP)
intrinsic apoptotic signaling pathway in response to oxidative stress  (IEA,ISO,ISS)
male gonad development  (IEP)
membrane lipid catabolic process  (IEA,ISO,ISS)
negative regulation of cell adhesion mediated by integrin  (IEA,ISO,ISS)
negative regulation of cell migration  (IEA,ISO,ISS)
negative regulation of cell population proliferation  (IEA,ISO,ISS)
negative regulation of NF-kappaB transcription factor activity  (IEA,ISO,ISS)
nitric oxide biosynthetic process  (IEA,ISO,ISS)
positive regulation of angiogenesis  (IEA,ISO,ISS)
positive regulation of apoptotic process  (IEA,IEP,ISO)
positive regulation of DNA biosynthetic process  (IMP)
positive regulation of reactive oxygen species metabolic process  (IMP)
positive regulation of receptor signaling pathway via JAK-STAT  (IEA,ISO,ISS)
positive regulation of smooth muscle cell migration  (IMP)
positive regulation of translation  (IMP)
positive regulation of vascular endothelial growth factor production  (IEA,ISO,ISS)
regulation of reactive oxygen species metabolic process  (IEA,ISO,ISS)
response to arsenic-containing substance  (IEP)
response to dexamethasone  (IEP)
response to estradiol  (IEP)
response to follicle-stimulating hormone  (IEP)
response to indole-3-methanol  (IEP)
response to nutrient  (IEP)
response to organic cyclic compound  (IEP)
response to organic substance  (IEP)
response to steroid hormone  (IEP)
response to toxic substance  (IEA,IEP,ISO)
retina vasculature development in camera-type eye  (ISO)
retinal blood vessel morphogenesis  (IEA,ISO,ISS)
retinal metabolic process  (IEA,ISO,ISS)
retinol metabolic process  (IEA,ISO,ISS)
steroid metabolic process  (IEA,ISO,ISS)
toxin metabolic process  (IEA,ISO)
trabecular meshwork development  (IEA,ISO,ISS)
xenobiotic metabolic process  (IEA,ISO,ISS)

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
1. Alfadhli S, etal., Am J Ophthalmol. 2006 Mar;141(3):512-6.
2. Bar-Yosef U, etal., J Glaucoma. 2010 Jan;19(1):35-8. doi: 10.1097/IJG.0b013e3181a98b6f.
3. Bhattacharjee A, etal., Mol Vis. 2008 May 8;14:841-50.
4. Bhattacharyya KK, etal., J Biol Chem 1995 May 12;270(19):11595-602.
5. Brake PB, etal., Endocrinology. 1999 Apr;140(4):1672-80.
6. Brake PB, etal., Mol Pharmacol. 1998 Nov;54(5):825-33.
7. Chakrabarti S, etal., Invest Ophthalmol Vis Sci. 2007 Dec;48(12):5439-44.
8. Choudhary D, etal., Drug Metab Dispos. 2004 Aug;32(8):840-7.
9. Christou M, etal., Mol Cell Endocrinol. 1995 Nov 30;115(1):41-50.
10. Ciolino H, etal., Int J Cancer. 2003 Jun 20;105(3):321-5.
11. Dasmahapatra AK, etal., Comp Biochem Physiol B Biochem Mol Biol. 2002 Sep;133(1):127-34.
12. De Vivo I, etal., Cancer Epidemiol Biomarkers Prev 2002 May;11(5):489-92.
13. Deb S and Bandiera SM, Biol Reprod. 2011 Jul;85(1):89-96. doi: 10.1095/biolreprod.110.088971. Epub 2011 Mar 9.
14. Devlin AH, etal., Mol Carcinog. 2009 Feb;48(2):110-7. doi: 10.1002/mc.20459.
15. Edward D, etal., Ophthalmic Genet. 2004 Dec;25(4):257-70.
16. El-Gayar S, etal., Mol Vis. 2009 Jul 8;15:1325-31.
17. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
18. GOA data from the GO Consortium
19. Hilal L, etal., Mol Vis. 2010 Jul 2;16:1215-26.
20. Jennings BL, etal., Hypertension. 2010 Oct;56(4):667-74. doi: 10.1161/HYPERTENSIONAHA.110.154518. Epub 2010 Aug 30.
21. KEGG
22. Kim JH, etal., Carcinogenesis. 1998 Oct;19(10):1847-53.
23. Kumar A, etal., Mol Vis. 2007 Apr 30;13:667-76.
24. Lai KP, etal., Toxicology. 2006 Sep 21;226(2-3):188-96. Epub 2006 Jul 4.
25. Larsen-Su SA and Williams DE, Toxicol Sci. 2001 Dec;64(2):162-8.
26. Leung GS, etal., Drug Metab Dispos. 2009 Mar;37(3):523-8. doi: 10.1124/dmd.108.025635. Epub 2008 Dec 15.
27. Libby RT, etal., Science 2003 Mar 7;299(5612):1578-81.
28. Melki R, etal., Mol Vis. 2005 Nov 23;11:1012-7.
29. MGD data from the GO Consortium
30. Milla E, etal., Mol Vis. 2013 Aug 4;19:1707-22. Print 2013.
31. Muskhelishvili L, etal., Toxicol Pathol. 2002 May-Jun;30(3):400-2.
32. NCBI rat LocusLink and RefSeq merged data July 26, 2002
33. Nishida CR, etal., Mol Pharmacol. 2013 Sep;84(3):451-8. doi: 10.1124/mol.113.087700. Epub 2013 Jul 2.
34. OMIM Disease Annotation Pipeline
35. Pipeline to import KEGG annotations from KEGG into RGD
36. Piscaglia F, etal., Biochem Pharmacol. 1999 Jul 1;58(1):157-65.
37. Plasilova M, etal., J Med Genet. 1999 Apr;36(4):290-4.
38. Putluri N, etal., Cancer Res. 2011 Dec 15;71(24):7376-86. doi: 10.1158/0008-5472.CAN-11-1154. Epub 2011 Oct 11.
39. Rahman M, etal., Toxicol Appl Pharmacol. 2006 Nov 1;216(3):469-78. Epub 2006 Jun 15.
40. RGD automated data pipeline
41. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
42. RGD automated import pipeline for gene-chemical interactions
43. Rowlands JC, etal., J Nutr. 2001 Dec;131(12):3281-7.
44. Smerdova L, etal., Toxicology. 2013 Dec 6;314(1):30-8. doi: 10.1016/j.tox.2013.09.001. Epub 2013 Sep 8.
45. Soley GC, etal., J Glaucoma. 2003 Feb;12(1):27-30.
46. Stoilov I, etal., Hum Mol Genet. 1997 Apr;6(4):641-7.
47. Trombino AF, etal., Breast Cancer Res Treat. 2000 Sep;63(2):117-31.
48. Umannova L, etal., Mutat Res. 2008 Apr 2;640(1-2):162-9. doi: 10.1016/j.mrfmmm.2008.02.001. Epub 2008 Feb 9.
49. Walker NJ, etal., Carcinogenesis 1995 Jun;16(6):1319-27.
50. Wang JT, etal., J Neurosci. 2007 Aug 8;27(32):8593-603.
51. Watanabe J, etal., Pharmacogenetics. 2000 Feb;10(1):25-33.
52. Wei M, etal., Toxicol Appl Pharmacol. 2013 Nov 15;273(1):1-9. doi: 10.1016/j.taap.2013.08.022. Epub 2013 Aug 30.
53. Yaghini FA, etal., Hypertension. 2010 Jun;55(6):1461-7. doi: 10.1161/HYPERTENSIONAHA.110.150029. Epub 2010 May 3.
54. Yang M, etal., Mol Vis. 2009;15:432-7. Epub 2009 Feb 27.
Additional References at PubMed
PMID:1910294   PMID:9367523   PMID:9377560   PMID:10051580   PMID:10681376   PMID:10871058   PMID:11555828   PMID:12859982   PMID:12865317   PMID:16377763   PMID:16636061   PMID:17166882  
PMID:18059014   PMID:19005183   PMID:20032512   PMID:20852048   PMID:21147782   PMID:22888116   PMID:23275542   PMID:23568032   PMID:23692925   PMID:23979599   PMID:24477449   PMID:24557852  
PMID:25164943   PMID:29115507   PMID:31563143   PMID:33170892   PMID:33766215  


Genomics

Comparative Map Data
Cyp1b1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2615,342,312 - 15,350,886 (+)NCBImRatBN7.2
Rnor_6.0 Ensembl62,307,808 - 2,316,722 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.062,308,179 - 2,316,739 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.062,294,952 - 2,300,644 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.462,548,224 - 2,553,767 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.162,545,648 - 2,553,767 (-)NCBI
Celera615,009,941 - 15,015,671 (+)NCBICelera
Cytogenetic Map6q11NCBI
CYP1B1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl238,066,973 - 38,109,902 (-)EnsemblGRCh38hg38GRCh38
GRCh38238,067,509 - 38,076,151 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37238,294,652 - 38,303,293 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36238,148,250 - 38,156,796 (-)NCBINCBI36hg18NCBI36
Build 34238,206,396 - 38,214,943NCBI
Celera238,135,623 - 38,144,201 (-)NCBI
Cytogenetic Map2p22.2NCBI
HuRef238,034,680 - 38,043,258 (-)NCBIHuRef
CHM1_1238,224,106 - 38,232,684 (-)NCBICHM1_1
Cyp1b1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391780,014,369 - 80,022,490 (-)NCBIGRCm39mm39
GRCm39 Ensembl1780,008,966 - 80,022,490 (-)Ensembl
GRCm381779,706,940 - 79,715,061 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1779,701,537 - 79,715,061 (-)EnsemblGRCm38mm10GRCm38
MGSCv371780,106,293 - 80,114,381 (-)NCBIGRCm37mm9NCBIm37
MGSCv361779,615,279 - 79,623,367 (-)NCBImm8
Celera1784,018,414 - 84,026,502 (-)NCBICelera
Cytogenetic Map17E3NCBI
LOC102009223
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554415,803,032 - 5,812,131 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554415,803,397 - 5,812,131 (-)NCBIChiLan1.0ChiLan1.0
CYP1B1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12A38,851,000 - 38,859,883 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2A38,851,000 - 38,859,824 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02A38,087,863 - 38,096,529 (-)NCBIMhudiblu_PPA_v0panPan3
CYP1B1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11730,273,281 - 30,278,554 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1730,272,749 - 30,278,554 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1730,086,594 - 30,091,868 (-)NCBI
ROS_Cfam_1.01730,923,029 - 30,928,301 (-)NCBI
UMICH_Zoey_3.11730,148,312 - 30,153,581 (-)NCBI
UNSW_CanFamBas_1.01730,216,274 - 30,221,549 (-)NCBI
UU_Cfam_GSD_1.01730,431,572 - 30,436,860 (-)NCBI
LOC101970101
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440629241,681,103 - 41,689,696 (+)NCBI
SpeTri2.0NW_004936663345,021 - 355,188 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CYP1B1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl3102,195,741 - 102,206,750 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.13102,195,743 - 102,205,687 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
CYP1B1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11469,318,713 - 69,327,277 (+)NCBI
ChlSab1.1 Ensembl1469,319,495 - 69,324,157 (+)Ensembl
Vero_WHO_p1.0NW_02366604542,635,474 - 42,644,623 (-)NCBI
LOC101701066
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473819,639,215 - 19,647,807 (-)NCBI

Position Markers
RH139891  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2615,350,234 - 15,350,432 (-)MAPPERmRatBN7.2
Rnor_6.062,308,633 - 2,308,830NCBIRnor6.0
Rnor_5.062,292,597 - 2,292,794UniSTSRnor5.0
RGSC_v3.462,545,869 - 2,546,066UniSTSRGSC3.4
Celera615,017,829 - 15,018,026UniSTS
RH 3.4 Map647.0UniSTS
Cytogenetic Map6q11UniSTS
Cyp1b1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2615,343,145 - 15,343,993 (-)MAPPERmRatBN7.2
Rnor_6.062,315,089 - 2,315,936NCBIRnor6.0
Rnor_5.062,299,011 - 2,299,858UniSTSRnor5.0
RGSC_v3.462,552,134 - 2,552,981UniSTSRGSC3.4
Celera615,010,727 - 15,011,574UniSTS
Cytogenetic Map6q11UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2293709Bss23Bone structure and strength QTL 235.180.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)6142487980Rat
1331743Uae28Urinary albumin excretion QTL 284.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)6134235784Rat
738023Alc17Alcohol consumption QTL 173.10.003consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)6127574569Rat
738024Sach5Saccharine consumption QTL 53.90.00039consumption behavior trait (VT:0002069)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)6143394190Rat
1300164Rf15Renal function QTL 153.12renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)6507449754641141Rat
1598843Cm63Cardiac mass QTL 632.6heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)6139036266Rat
2300176Bmd51Bone mineral density QTL 5111.70.0001femur mineral mass (VT:0010011)bone mineral density (CMO:0001226)6127574569Rat
2300190Bmd52Bone mineral density QTL 5211.20.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)6127574569Rat
2293650Bss31Bone structure and strength QTL 315.050.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)6142487980Rat
2293656Bss28Bone structure and strength QTL 286.790.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)6142487980Rat
1576309Emca7Estrogen-induced mammary cancer QTL 74mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)615107216107351382Rat
1578758Tcas9Tongue tumor susceptibility QTL 93.29tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)6137618905Rat
1578665Bss16Bone structure and strength QTL 164.4femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)61173566972593685Rat
1578668Bmd14Bone mineral density QTL 143.8femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)61173566972593685Rat
1300128Rf16Renal function QTL 163.89renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)6507449734434305Rat
1354616Despr12Despair related QTL 120.0012locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)6127574569Rat
2293706Bmd20Bone mineral density QTL 204.30.0002femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)6507449719988050Rat
2301972Bp325Blood pressure QTL 3254.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)6172227641Rat
1549905Stresp10Stress response QTL 106.830.0066stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)6127574569Rat
1358190Ept1Estrogen-induced pituitary tumorigenesis QTL 14.4pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)6984331220338915Rat
2292616Ept15Estrogen-induced pituitary tumorigenesis QTL 154.4pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)6984331220338915Rat
7411603Foco13Food consumption QTL 135.50.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)6141223769Rat
7411584Foco4Food consumption QTL 44.30.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)6142838846Rat
8552962Pigfal16Plasma insulin-like growth factor 1 level QTL 169.4blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)6141223769Rat
7411542Bw127Body weight QTL 1275.50.001body mass (VT:0001259)body weight gain (CMO:0000420)6141223769Rat
9589129Insul24Insulin level QTL 2419.060.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)6141223769Rat
9589048Scfw3Subcutaneous fat weight QTL 34.570.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)6141223769Rat
10401812Kidm54Kidney mass QTL 54kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)61436878859368788Rat
10401800Kidm49Kidney mass QTL 49kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)61436878859368788Rat
4145119Mcs25Mammary carcinoma susceptibility QTL 250.0001mammary gland integrity trait (VT:0010552)ratio of deaths to total study population during a period of time (CMO:0001023)610894415110548006Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:49
Count of miRNA genes:48
Interacting mature miRNAs:49
Transcripts:ENSRNOT00000066363
Prediction methods:Miranda, Rnahybrid
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 12
Medium 6 15 33 20 34 2
Low 2 43 18 14 4 14 8 10 41 15 7 9 8
Below cutoff 1 23 23 23 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000066363   ⟹   ENSRNOP00000061222
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl62,314,928 - 2,316,722 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000082017   ⟹   ENSRNOP00000071724
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl62,310,988 - 2,316,717 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000084171   ⟹   ENSRNOP00000075074
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl62,307,808 - 2,311,781 (-)Ensembl
RefSeq Acc Id: NM_012940   ⟹   NP_037072
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2615,342,360 - 15,348,077 (+)NCBI
Rnor_6.062,310,988 - 2,316,722 (-)NCBI
Rnor_5.062,294,952 - 2,300,644 (-)NCBI
RGSC_v3.462,548,224 - 2,553,767 (-)RGD
Celera615,009,941 - 15,015,671 (+)RGD
Sequence:
RefSeq Acc Id: XM_017594046   ⟹   XP_017449535
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2615,342,313 - 15,350,886 (+)NCBI
Rnor_6.062,308,179 - 2,316,279 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039111803   ⟹   XP_038967731
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2615,342,313 - 15,350,886 (+)NCBI
RefSeq Acc Id: XM_039111804   ⟹   XP_038967732
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2615,342,312 - 15,350,886 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_037072   ⟸   NM_012940
- UniProtKB: Q64678 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_017449535   ⟸   XM_017594046
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000071724   ⟸   ENSRNOT00000082017
RefSeq Acc Id: ENSRNOP00000061222   ⟸   ENSRNOT00000066363
RefSeq Acc Id: ENSRNOP00000075074   ⟸   ENSRNOT00000084171
RefSeq Acc Id: XP_038967732   ⟸   XM_039111804
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038967731   ⟸   XM_039111803
- Peptide Label: isoform X1

Transcriptome

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

Promoters
RGD ID:13694374
Promoter ID:EPDNEW_R4886
Type:multiple initiation site
Name:Cyp1b1_1
Description:cytochrome P450, family 1, subfamily b, polypeptide 1
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_6.062,316,735 - 2,316,795EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
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/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 (2020)
Visual CSV TAB Printer
Sequenced By: MCW
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
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-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
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
Sequenced By: MCW
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
Sequenced By: MCW
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
Sequenced By: MCW
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/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 (2020)
Visual CSV TAB Printer
Sequenced By: MCW
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)
Visual CSV