Gstm1 (glutathione S-transferase mu 1) - Rat Genome Database

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Gene: Gstm1 (glutathione S-transferase mu 1) Rattus norvegicus
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Symbol: Gstm1
Name: glutathione S-transferase mu 1
RGD ID: 2755
Description: Enables several functions, including glutathione binding activity; glutathione transferase activity; and nickel cation binding activity. Involved in several processes, including response to ethanol; response to lead ion; and response to lithium ion. Located in cytosol and extracellular region. Part of protein-containing complex. Used to study cholestasis. Biomarker of hypertension and liver cirrhosis. Human ortholog(s) of this gene implicated in several diseases, including autoimmune disease (multiple); eye disease (multiple); gastrointestinal system cancer (multiple); hematologic cancer (multiple); and lung disease (multiple). Orthologous to human GSTM1 (glutathione S-transferase mu 1); PARTICIPATES IN cyclophosphamide pharmacodynamics pathway; cyclophosphamide pharmacokinetics pathway; glutathione conjugation pathway; INTERACTS WITH (+)-schisandrin B; (R)-lipoic acid; (R,R,R)-alpha-tocopherol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: glutathione S-transferase M1; glutathione S-transferase Yb-1 subunit; glutathione S-transferase, mu 1; glutathione-S-transferase mu type 1 (Yb1); Glutathione-S-transferase, mu type 1 (Yb1); GST 3-3; GST Yb1; GSTA3; GSTM1-1
RGD Orthologs
Human
Mouse
Bonobo
Green Monkey
Alliance Genes
More Info more info ...
Is Marker For: Strains:   SHRSP.WKY-(D2Wox9-D2Mgh12)/Gcrc   SHRSP.WKY-(D2Rat13-D2Rat157)/Gcrc   SHRSP.WKY-(D2Mit21-D2Rat157)/Gcrc  
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22195,649,845 - 195,655,402 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl2195,649,845 - 195,655,411 (-)Ensembl
Rnor_6.02210,803,869 - 210,809,461 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2210,803,869 - 210,809,306 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02230,272,740 - 230,278,278 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42203,575,444 - 203,580,821 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12203,538,197 - 203,543,575 (-)NCBI
Celera2188,295,244 - 188,300,621 (-)NCBICelera
Cytogenetic Map2q34NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
acute chest syndrome  (ISO)
acute lymphoblastic leukemia  (ISO)
acute myeloid leukemia  (ISO)
adenocarcinoma  (ISO)
aggressive periodontitis  (ISO)
Alcoholic Liver Diseases  (ISO)
allergic disease  (ISO)
amphetamine abuse  (ISO)
angle-closure glaucoma  (ISO)
aplastic anemia  (ISO)
asbestosis  (ISO)
asphyxia neonatorum  (ISO)
asthma  (ISO)
atherosclerosis  (ISO)
atopic dermatitis  (ISO)
autism spectrum disorder  (ISS)
autistic disorder  (ISO)
breast cancer  (ISO)
Breast Neoplasms  (ISO)
Bronchopulmonary Dysplasia  (ISO)
cataract  (ISO)
cervical cancer  (ISO)
cervix carcinoma  (ISO)
Chemical and Drug Induced Liver Injury  (IEP,ISO)
Chloracne  (ISO)
cholangiocarcinoma  (ISO)
cholestasis  (IDA)
Chromosome Aberrations  (ISO)
Chromosome Breakage  (ISO)
Chronic Bronchitis  (ISO)
Chronic Hepatitis C  (ISO)
chronic obstructive pulmonary disease  (ISO)
Chronic Periodontitis  (ISO)
colorectal adenocarcinoma  (ISO)
colorectal adenoma  (ISO)
colorectal cancer  (ISO)
colorectal carcinoma  (ISO)
Colorectal Neoplasms  (ISO)
Congenital Abnormalities  (ISO)
congenital heart disease  (ISO)
coronary artery disease  (ISO)
COVID-19  (ISO)
Crohn's disease  (ISO)
cystic fibrosis  (ISO)
diabetes mellitus  (ISO)
Diabetic Nephropathies  (ISO)
diabetic retinopathy  (ISO)
diffuse large B-cell lymphoma  (ISO)
Disease Susceptibility  (ISO)
drug allergy  (ISO)
Drug-induced Anemia  (ISO)
Drug-Induced Immune Thrombocytopenia  (ISO)
end stage renal disease  (ISO)
erythema nodosum  (ISO)
esophageal atresia  (ISO)
esophageal cancer  (ISO)
esophagus adenocarcinoma  (ISO)
esophagus squamous cell carcinoma  (ISO)
exfoliation syndrome  (ISO)
Experimental Liver Cirrhosis  (ISO)
Fanconi anemia  (ISO)
Female Infertility  (ISO)
Femur Head Necrosis  (ISO)
Fetal Growth Retardation  (ISO)
gallbladder cancer  (ISO)
gastritis  (ISO)
Genetic Predisposition to Disease  (ISO)
Graft vs Host Disease  (ISO)
head and neck cancer  (ISO)
Hearing Loss, Noise-Induced  (ISO)
Hematologic Neoplasms  (ISO)
hepatic veno-occlusive disease  (ISO)
hepatocellular carcinoma  (ISO)
high grade glioma  (ISO)
Hirschsprung's disease  (ISO)
Hodgkin's lymphoma  (ISO)
hypertension  (IEP)
Hypertension Resistant to Conventional Therapy  (ISO)
hypospadias  (ISO)
Hypotension  (IEP)
infectious mononucleosis  (ISO)
inflammatory bowel disease  (ISO)
Iron Overload  (ISO)
keratosis  (ISO)
Kidney Neoplasms  (ISO)
Kuhnt-Junius degeneration  (ISO)
larynx cancer  (ISO)
leukemia  (ISO)
leukopenia  (ISO)
Leukoplakia  (ISO)
liver cirrhosis  (IEP,ISO)
Liver Neoplasms  (ISO)
Liver Reperfusion Injury  (IEP)
lung cancer  (ISO)
lung disease  (ISO)
Lung Neoplasms  (ISO)
lymphoid leukemia  (ISO)
Lynch syndrome  (ISO)
macular degeneration  (ISO)
malignant astrocytoma  (ISO)
malignant mesothelioma  (ISO)
medulloblastoma  (ISO)
Mesothelioma  (ISO)
Metabolic Syndrome  (ISO)
methemoglobinemia  (ISO)
Micronuclei, Chromosome-Defective  (ISO)
Mouth Abnormalities  (ISO)
movement disease  (ISO)
multiple myeloma  (IAGP,ISO)
multiple sclerosis  (ISO)
myelodysplastic syndrome  (ISO)
myeloid leukemia  (ISO)
Nasal Polyps  (ISO)
nasopharynx carcinoma  (ISO)
Neoplasms, Second Primary  (ISO)
neurodegenerative disease  (ISO)
non-alcoholic fatty liver disease  (ISO)
optic neuritis  (ISO)
oral cavity cancer  (ISO)
oral mucosa leukoplakia  (ISO)
oral squamous cell carcinoma  (ISO)
oral submucous fibrosis  (ISO)
orofacial cleft  (ISO)
ovary epithelial cancer  (ISO)
papillomavirus infectious disease  (ISO)
Parkinson's disease  (ISO)
periodontitis  (ISO)
polycythemia vera  (ISO)
porphyria cutanea tarda  (ISO)
pre-malignant neoplasm  (ISO)
Premature Birth  (ISO)
Presbycusis  (ISO)
primary open angle glaucoma  (ISO)
prostate cancer  (ISO)
Prostatic Neoplasms  (ISO)
pterygium  (ISO)
pulmonary emphysema  (ISO)
pulmonary tuberculosis  (ISO)
Raynaud disease  (ISO)
renal cell carcinoma  (ISO)
rheumatoid arthritis  (ISO)
schizophrenia  (ISO)
senile cataract  (ISO)
Sjögren-Mikulicz Syndrome  (ISO)
skin disease  (ISO)
skin melanoma  (ISO)
small intestine adenocarcinoma  (ISO)
squamous cell carcinoma  (ISO)
Stevens-Johnson syndrome  (ISO)
stomach cancer  (ISO)
Stroke  (ISO)
systemic lupus erythematosus  (ISO)
systemic scleroderma  (ISO)
Temporomandibular Joint Disorders  (ISO)
Testicular Neoplasms  (ISO)
thalassemia  (ISO)
toxic encephalopathy  (ISO)
transitional cell carcinoma  (ISO)
type 1 diabetes mellitus  (ISO)
type 2 diabetes mellitus  (ISO)
Ulcer  (ISO)
ulcerative colitis  (ISO)
urinary bladder cancer  (ISO)
urticaria  (ISO)
Vaso-occlusive Crisis  (ISO)

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-schisandrin B  (EXP)
(+)-taxifolin  (ISO)
(-)-epigallocatechin 3-gallate  (ISO)
(R)-lipoic acid  (EXP,ISO)
(R,R,R)-alpha-tocopherol  (EXP)
1,1-dichloroethene  (ISO)
1,2-dimethylhydrazine  (ISO)
1,4-dichlorobenzene  (ISO)
1-benzofuran  (ISO)
1-chloro-2,4-dinitrobenzene  (EXP,ISO)
1-Hydroxypyrene  (ISO)
1-naphthyl isothiocyanate  (EXP)
1-nitropropane  (EXP)
15-deoxy-Delta(12,14)-prostaglandin J2  (ISO)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (EXP)
1H-imidazole  (EXP)
1H-pyrazole  (ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP,ISO)
2,4,6-trinitrotoluene  (EXP)
2,4-diaminotoluene  (EXP)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
2,4-dinitrotoluene  (EXP)
2,6-diaminotoluene  (EXP)
2,6-dinitrotoluene  (EXP)
2-acetamidofluorene  (EXP)
2-allylphenol  (EXP,ISO)
2-amino-4,6-dinitrotoluene  (EXP)
2-amino-7-methyl-1,7-dihydro-6H-purin-6-one  (ISO)
2-nitro-p-phenylenediamine  (EXP)
2-nitropropane  (EXP)
2-phenylpropanal  (ISO)
2-tert-butylhydroquinone  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (EXP,ISO)
3,3'-diindolylmethane  (ISO)
3,4-dihydroxyphenylacetaldehyde  (EXP)
3,7-dihydropurine-6-thione  (ISO)
3-chloropropane-1,2-diol  (EXP)
3-methylcholanthrene  (EXP)
3-methylpyridine  (ISO)
3-phenylprop-2-enal  (ISO)
3H-1,2-dithiole-3-thione  (EXP,ISO)
4,4'-diaminodiphenylmethane  (EXP,ISO)
4-(ethoxymethylene)-2-phenyloxazol-5-one  (ISO)
4-acetylaminofluorene  (EXP)
4-amino-2,6-dinitrotoluene  (EXP)
4-Chloronitrobenzene  (EXP)
4-hydroxynon-2-enal  (EXP,ISO)
4-hydroxyphenyl retinamide  (ISO)
4-nitro-1,2-phenylenediamine  (EXP)
4-Propylphenol  (EXP,ISO)
5-fluorouracil  (ISO)
5-Hydroxythalidomide  (ISO)
9-cis-retinoic acid  (ISO)
acetamide  (EXP)
acetylsalicylic acid  (ISO)
acrylamide  (EXP,ISO)
aflatoxin B1  (EXP,ISO)
aflatoxin B1 exo-8,9-epoxide  (EXP)
all-trans-4-oxoretinoic acid  (ISO)
all-trans-retinoic acid  (ISO)
allyl isothiocyanate  (ISO)
alpha-methyl-L-dopa  (ISO)
alpha-tocotrienol  (ISO)
ametryn  (EXP)
aminoguanidine  (ISO)
ammonium chloride  (EXP)
angelica lactone  (ISO)
aristolochic acid  (EXP)
Aroclor 1254  (EXP)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
asbestos  (ISO)
atrazine  (EXP,ISO)
azathioprine  (ISO)
benzene  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
Benzo[a]pyrene-7,8-diol  (ISO)
benzo[b]fluoranthene  (ISO)
Benzo[k]fluoranthene  (ISO)
benzothiazole  (EXP)
benzotriazole  (EXP)
benzyl isothiocyanate  (ISO)
beta-hexachlorocyclohexane  (ISO)
beta-naphthoflavone  (EXP,ISO)
beta-tocopherol  (EXP)
bifenthrin  (ISO)
bilirubin IXalpha  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bleomycin A2  (EXP)
bromobenzene  (EXP)
busulfan  (ISO)
buta-1,3-diene  (ISO)
butanal  (ISO)
butylated hydroxyanisole  (ISO)
butyric acid  (EXP)
cadmium atom  (ISO)
cadmium dichloride  (EXP,ISO)
cafestol  (ISO)
calcitriol  (ISO)
cannabidiol  (ISO)
carbamazepine  (EXP,ISO)
carbon atom  (ISO)
carbon disulfide  (ISO)
carbon nanotube  (ISO)
carmustine  (ISO)
cefaloridine  (EXP)
chenodeoxycholic acid  (EXP,ISO)
chlorambucil  (ISO)
chlordecone  (ISO)
chloroethene  (ISO)
chlorohydrocarbon  (ISO)
chloroprene  (ISO)
chlorpyrifos  (EXP,ISO)
cholic acid  (EXP)
chromium atom  (ISO)
chromium(6+)  (EXP)
chrysene  (ISO)
ciprofibrate  (EXP)
cis-caffeic acid  (EXP)
cisplatin  (ISO)
clofibrate  (EXP,ISO)
clozapine  (EXP,ISO)
copper atom  (EXP,ISO)
copper(0)  (EXP,ISO)
Cuprizon  (EXP)
cyclophosphamide  (ISO)
cyclosporin A  (ISO)
cyproconazole  (EXP,ISO)
cytarabine  (ISO)
daunorubicin  (ISO)
decabromodiphenyl ether  (ISO)
delta-tocopherol  (EXP)
deoxycholic acid  (ISO)
dexamethasone  (EXP,ISO)
Diallyl sulfide  (EXP,ISO)
diarsenic trioxide  (ISO)
diazinon  (EXP)
Dibenz[a,c]anthracene  (ISO)
dibenz[a,h]anthracene  (ISO)
dibenzo[a,l]pyrene  (ISO)
dibenzoylmethane  (ISO)
dichloroacetic acid  (ISO)
diclofenac  (ISO)
diethyl maleate  (EXP)
diethyldithiocarbamic acid  (EXP)
diethylstilbestrol  (ISO)
dimethyl sulfoxide  (EXP)
dimethylarsinic acid  (EXP,ISO)
dinophysistoxin 1  (ISO)
dioxygen  (ISO)
diphenylmethane-4,4'-diisocyanate  (ISO)
diquat  (EXP)
diuron  (EXP)
dopamine  (ISO)
doxorubicin  (EXP,ISO)
ebselen  (EXP)
elemental carbon  (ISO)
endosulfan  (EXP,ISO)
epichlorohydrin  (ISO)
epoxiconazole  (EXP,ISO)
etacrynic acid  (ISO)
ethanol  (EXP,ISO)
ethoxyquin  (EXP,ISO)
etoposide  (ISO)
eugenol  (EXP,ISO)
felbamate  (EXP)
fenamidone  (ISO)
finasteride  (EXP)
fipronil  (EXP)
fluconazole  (ISO)
flutamide  (EXP)
folic acid  (ISO)
fumonisin B1  (ISO)
furan  (EXP,ISO)
gabapentin  (EXP)
gamma-tocopherol  (EXP,ISO)
Geniposide  (EXP)
gentamycin  (EXP)
glutathione  (EXP,ISO)
glycochenodeoxycholic acid  (ISO)
glycocholic acid  (ISO)
glycodeoxycholic acid  (ISO)
glyphosate  (ISO)
GW 4064  (ISO)
haloperidol  (EXP)
herbicide  (EXP)
Hexachloro-1,3-butadiene  (EXP)
hexachlorobenzene  (EXP)
hexamethylene diisocyanate  (ISO)
hydrazine  (ISO)
hydrogen chloride  (ISO)
hydrogen peroxide  (ISO)
hydroquinone  (ISO)
indole-3-methanol  (EXP,ISO)
indometacin  (EXP)
iron atom  (ISO)
iron dextran  (ISO)
iron(0)  (ISO)
isomethyleugenol  (EXP,ISO)
isoniazide  (ISO)
isotretinoin  (ISO)
ivermectin  (ISO)
kahweol  (ISO)
ketoconazole  (ISO)
kojic acid  (EXP)
L-ascorbic acid  (EXP,ISO)
L-cysteine  (EXP)
L-methionine  (EXP)
lead diacetate  (EXP)
lead(0)  (ISO)
lead(2+)  (ISO)
lead(II) chloride  (ISO)
lignan  (ISO)
limonene  (EXP)
lipoic acid  (EXP,ISO)
lipopolysaccharide  (ISO)
lithium atom  (EXP)
lithium hydride  (EXP)
lithocholic acid  (EXP,ISO)
lithocholic acid sulfate  (EXP)
LY294002  (EXP)
mefenamic acid  (ISO)
MeIQx  (ISO)
melatonin  (EXP)
melphalan  (ISO)
menadione  (ISO)
mercaptopurine  (ISO)
mercury atom  (ISO)
mercury dichloride  (ISO)
mercury(0)  (ISO)
methamphetamine  (ISO)
methotrexate  (ISO)
methylarsonic acid  (EXP)
methylmercury chloride  (ISO)
metiram  (ISO)
microcystin  (EXP)
microcystin RR  (ISO)
microcystin-LR  (ISO)
mono(2-ethylhexyl) phthalate  (ISO)
monocrotaline  (ISO)
muconic acid  (ISO)
N-acetyl-L-cysteine  (EXP,ISO)
N-Acetyl-S-(2-carbamoylethyl)-cysteine  (ISO)
N-benzyloxycarbonyl-L-leucyl-L-leucyl-L-leucinal  (ISO)
N-butyl-N-(4-hydroxybutyl)nitrosamine  (ISO)
N-hydroxy-PhIP  (EXP)
N-methyl-4-phenylpyridinium  (EXP,ISO)
N-nitrosodiethylamine  (EXP,ISO)
naphthalene  (ISO)
naphthalene-1,5-diamine  (ISO)
nefazodone  (EXP,ISO)
nevirapine  (ISO)
nickel atom  (ISO)
nimesulide  (EXP)
nitric oxide  (ISO)
nitrofen  (EXP)
nitrogen dioxide  (ISO)
O-methyleugenol  (EXP,ISO)
ochratoxin A  (EXP,ISO)
Octachlorostyrene  (ISO)
okadaic acid  (ISO)
oltipraz  (EXP,ISO)
oxfendazole  (EXP)
oxybenzone  (EXP)
ozone  (ISO)
p-toluidine  (EXP)
paclitaxel  (ISO)
paracetamol  (EXP,ISO)
paraquat  (ISO)
pentachlorophenol  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (ISO)
permethrin  (ISO)
phenanthrene  (ISO)
phenethyl isothiocyanate  (ISO)
phenobarbital  (EXP,ISO)
phenytoin  (EXP,ISO)
PhIP  (ISO)
phlorizin  (ISO)
piperonyl butoxide  (EXP)
pirinixic acid  (ISO)
potassium dichromate  (EXP)
prednisone  (ISO)
pregnenolone 16alpha-carbonitrile  (EXP,ISO)
propiconazole  (EXP,ISO)
prostaglandin A2  (ISO)
prostaglandin J2  (ISO)
purine-6-thiol  (ISO)
pyrazinecarboxamide  (EXP)
pyrazines  (ISO)
pyrene  (ISO)
quercetin 3-O-beta-D-glucofuranoside  (EXP)
quercetin 3-O-beta-D-glucopyranoside  (EXP)
quinidine  (ISO)
quinine  (ISO)
rac-1,2-dichloropropane  (ISO)
resveratrol  (EXP)
riddelliine  (EXP)
rifampicin  (ISO)
rifamycins  (ISO)
rotenone  (ISO)
S-butyl-DL-homocysteine (S,R)-sulfoximine  (ISO)
silicon dioxide  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenite  (EXP,ISO)
sodium fluoride  (EXP)
Soman  (EXP)
spermidine  (ISO)
spironolactone  (ISO)
styrene  (ISO)
styrene oxide  (EXP,ISO)
sulfinpyrazone  (ISO)
sulforaphane  (EXP,ISO)
tamibarotene  (ISO)
tamoxifen  (ISO)
tebufenpyrad  (ISO)
temozolomide  (ISO)
testosterone  (ISO)
testosterone enanthate  (ISO)
tetrachloromethane  (EXP,ISO)
thiazoles  (EXP)
thimerosal  (ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
toluene  (ISO)
toluene 2,4-diisocyanate  (ISO)
trans-caffeic acid  (EXP)
triadimefon  (EXP)
triazoles  (EXP)
trimellitic anhydride  (ISO)
trimethylarsine oxide  (EXP)
troglitazone  (ISO)
valproic acid  (EXP,ISO)
vinclozolin  (EXP)
vincristine  (ISO)

References

References - curated
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Additional References at PubMed
PMID:1416995   PMID:1420139   PMID:1883338   PMID:2226415   PMID:2669745   PMID:2689439   PMID:2875437   PMID:3011803   PMID:3864155   PMID:8110735   PMID:8373352   PMID:8503873  
PMID:8512323   PMID:9084911   PMID:12826697   PMID:15009649   PMID:15299462   PMID:15489334   PMID:16475815   PMID:16672236   PMID:16800819   PMID:17634366   PMID:20387083   PMID:20517701  
PMID:21046276   PMID:25931508   PMID:30053369   PMID:30308595  


Genomics

Comparative Map Data
Gstm1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22195,649,845 - 195,655,402 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl2195,649,845 - 195,655,411 (-)Ensembl
Rnor_6.02210,803,869 - 210,809,461 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2210,803,869 - 210,809,306 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02230,272,740 - 230,278,278 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42203,575,444 - 203,580,821 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12203,538,197 - 203,543,575 (-)NCBI
Celera2188,295,244 - 188,300,621 (-)NCBICelera
Cytogenetic Map2q34NCBI
GSTM1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1109,687,814 - 109,709,039 (+)EnsemblGRCh38hg38GRCh38
GRCh381109,687,817 - 109,693,745 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371110,230,439 - 110,236,367 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361110,031,965 - 110,037,890 (+)NCBINCBI36hg18NCBI36
Build 341109,942,483 - 109,948,409NCBI
Cytogenetic Map1p13.3NCBI
Gstm1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm393107,919,566 - 107,925,289 (-)NCBIGRCm39mm39
GRCm39 Ensembl3107,919,571 - 107,925,289 (-)Ensembl
GRCm383108,012,250 - 108,017,973 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl3108,012,255 - 108,017,973 (-)EnsemblGRCm38mm10GRCm38
MGSCv373107,815,168 - 107,820,891 (-)NCBIGRCm37mm9NCBIm37
MGSCv363108,140,314 - 108,146,029 (-)NCBImm8
Celera3110,345,820 - 110,351,544 (-)NCBICelera
Cytogenetic Map3F2.3NCBI
GSTM1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11128,003,736 - 128,009,696 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1127,979,238 - 128,010,411 (-)Ensemblpanpan1.1panPan2
LOC103224275
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12023,854,969 - 23,861,634 (-)NCBI
Vero_WHO_p1.0NW_023670255134 - 1,611 (+)NCBI

Position Markers
D2Got198  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22195,650,753 - 195,650,901 (+)MAPPERmRatBN7.2
Rnor_6.02210,804,777 - 210,804,922NCBIRnor6.0
Rnor_5.02230,273,648 - 230,273,793UniSTSRnor5.0
RGSC_v3.42203,576,351 - 203,576,496RGDRGSC3.4
RGSC_v3.42203,576,352 - 203,576,497UniSTSRGSC3.4
RGSC_v3.12203,539,105 - 203,539,250RGD
Celera2188,296,152 - 188,296,297UniSTS
RH 3.4 Map21377.1RGD
RH 3.4 Map21377.1UniSTS
Cytogenetic Map2q34UniSTS
BI281611  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22195,650,110 - 195,650,263 (+)MAPPERmRatBN7.2
Rnor_6.02210,804,134 - 210,804,286NCBIRnor6.0
Rnor_5.02230,273,005 - 230,273,157UniSTSRnor5.0
RGSC_v3.42203,575,709 - 203,575,861UniSTSRGSC3.4
Celera2188,295,509 - 188,295,661UniSTS
RH 3.4 Map21390.1UniSTS
Cytogenetic Map2q34UniSTS
Gstm1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22195,652,603 - 195,653,848 (+)MAPPERmRatBN7.2
Rnor_6.02210,806,625 - 210,807,869NCBIRnor6.0
Rnor_5.02230,275,496 - 230,276,740UniSTSRnor5.0
RGSC_v3.42203,578,200 - 203,579,444UniSTSRGSC3.4
Celera2188,298,000 - 188,299,244UniSTS
Cytogenetic Map2q34UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)2135552573202446871Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2135552573202446871Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2135552573202446871Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)2135552573202446871Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)2135552573202446871Rat
71113Cari2Carrageenan-induced inflammation QTL 22.70.009hypodermis integrity trait (VT:0010550)inflammatory exudate volume (CMO:0001429)2141596551202447032Rat
631266Bp132Blood pressure QTL 1320.0005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)246123260202447032Rat
61458Bp10Blood pressure QTL 103.42arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2189020722215287351Rat
61467Bp14Blood pressure QTL 142.2arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)243154682202446871Rat
61467Bp14Blood pressure QTL 142.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)243154682202446871Rat
61469Bp16Blood pressure QTL 165.64arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)2169745596214745596Rat
70162Bp63Blood pressure QTL 635.64arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)2169745596214745596Rat
724534Uae6Urinary albumin excretion QTL 610urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)278665619249053267Rat
724568Uae13Urinary albumin excretion QTL 134.4urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)2143157029210020885Rat
1331734Bp204Blood pressure QTL 2043.61192arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2168358098223265385Rat
1331745Bp203Blood pressure QTL 2034.377arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2189599258218414891Rat
1331760Bp206Blood pressure QTL 2063.62454arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)256043031202447032Rat
1298074Bp164Blood pressure QTL 1640.003arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)242804607202447032Rat
1298076Bp166Blood pressure QTL 1660.0009arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2136445150202447032Rat
1298080Bp163Blood pressure QTL 1630.02arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)266118275202447032Rat
1298083Bp158Blood pressure QTL 1582.62arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2189020722215287351Rat
1298085Bp165Blood pressure QTL 1650.0006arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)242804607202447032Rat
1331794Bp202Blood pressure QTL 2023.66819arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2141194931223265385Rat
1331805Cm29Cardiac mass QTL 293.50746heart mass (VT:0007028)heart wet weight (CMO:0000069)2141194931223265385Rat
2307174Activ3Activity QTL 34.830.000058locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)2168594495213594495Rat
1581499Esta2Estrogen-induced thymic atrophy QTL 2thymus mass (VT:0004954)thymus wet weight (CMO:0000855)2189599258226936289Rat
738013Alc15Alcohol consumption QTL 154.10.00022consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)2184165752229165752Rat
631501Bp101Blood pressure QTL 1012.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2150341684202446871Rat
631507Bp105Blood pressure QTL 1050.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2112456140212696837Rat
1302793Bw16Body weight QTL 1650.0001body mass (VT:0001259)body weight (CMO:0000012)2157142209202446871Rat
1641891Alcrsp17Alcohol response QTL 17response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2149559561249053267Rat
1641925Alcrsp2Alcohol response QTL 2response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2149559561221167075Rat
1581569Uae32Urinary albumin excretion QTL 320.0001urine protein amount (VT:0005160)urine albumin excretion rate (CMO:0000757)278665619219826953Rat
1598838Bp290Blood pressure QTL 2901.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2166539266211539266Rat
2301408Kidm36Kidney mass QTL 360.002kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)2190613715226808892Rat
2300189Bmd48Bone mineral density QTL 485.80.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)2179335906224335906Rat
634308Sach6Saccharin preference QTL 64.9taste sensitivity trait (VT:0001986)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)2112456140212696837Rat
1358356Srcrt1Stress Responsive Cort QTL13.66blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)2161699179222436696Rat
1578648Bss11Bone structure and strength QTL 114.7femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)2114837527211674221Rat
1300165Rf9Renal function QTL 93.28kidney glomerulus integrity trait (VT:0010546)index of glomerular damage (CMO:0001135)2133914684202447032Rat
1354605Rf48Renal function QTL 482.9blood creatinine amount (VT:0005328)plasma creatinine level (CMO:0000537)274786664206665859Rat
1354609Niddm62Non-insulin dependent diabetes mellitus QTL 624.720.000006insulin secretion trait (VT:0003564)plasma insulin level (CMO:0000342)2150540301202447032Rat
1354622Kidm16Kidney mass QTL 163kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)281754530222436696Rat
1354648Bp239Blood pressure QTL 2390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)266118463226797303Rat
1354649Kidm17Kidney mass QTL 172.9kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)281754530227146641Rat
2301966Bp322Blood pressure QTL 3223.58arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2150540301202447032Rat
1359022Ppulsi1Prepulse inhibition QTL 13.63prepulse inhibition trait (VT:0003088)acoustic startle response measurement (CMO:0001519)2136916935213594495Rat
1554319Bmd2Bone mineral density QTL 213.40.0001lumbar vertebra area (VT:0010570)lumbar vertebra cross-sectional area (CMO:0001689)2114837675212549332Rat
2306901Bp337Blood pressure QTL 3370.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2164073756227146641Rat
1358900Bw48Body weight QTL 484.88body mass (VT:0001259)body weight (CMO:0000012)2157142078211086598Rat
1358913Cm41Cardiac mass QTL 412.73heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423203928301Rat
1358917Cm42Cardiac mass QTL 422.82heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423203928301Rat
1359031Bp275Blood pressure QTL 275arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2185876309219753474Rat
1359031Bp275Blood pressure QTL 275arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)2185876309219753474Rat
2317752Glom23Glomerulus QTL 233.6urine protein amount (VT:0005160)urine protein level (CMO:0000591)2193452645245889826Rat
2293084Iddm26Insulin dependent diabetes mellitus QTL 262.9blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)2174930955213594495Rat
61366Iddm3Insulin dependent diabetes mellitus QTL 34.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)2189599258234599258Rat
61374Edpm2Estrogen-dependent pituitary mass QTL 24.420.86pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)276539322202447032Rat
61398Bp50Blood pressure QTL 504.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2189599258234599258Rat
61417Cia10Collagen induced arthritis QTL 103.4joint integrity trait (VT:0010548)experimental arthritis severity measurement (CMO:0001459)2179946951224946951Rat
4889834Pur24Proteinuria QTL 245.80.014total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)2184114274202447032Rat
8694435Bw166Body weight QTL 16614.080.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)2182171407227171407Rat
9589044Scfw1Subcutaneous fat weight QTL 15.80.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)2182171407227171407Rat
8694383Bw158Body weight QTL 1587.690.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)2182171407227171407Rat
7488925Bp364Blood pressure QTL 3640.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2160564068205564068Rat
7488927Bp365Blood pressure QTL 3650.008arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2162765032207765032Rat
8662843Vetf9Vascular elastic tissue fragility QTL 92.05thoracic aorta molecular composition trait (VT:0010568)aorta wall extracellular elastin dry weight to aorta wall extracellular collagen weight ratio (CMO:0002003)2157142078226277316Rat
8662832Vetf7Vascular elastic tissue fragility QTL 73.5aorta elastin amount (VT:0003905)aorta wall extracellular elastin dry weight to aorta wall dry weight ratio (CMO:0002002)281689826221035911Rat
8694194Abfw1Abdominal fat weight QTL 111.70.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)2182171407227171407Rat


Related Rat Strains
The following Strains have been annotated to Gstm1

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:265
Count of miRNA genes:163
Interacting mature miRNAs:177
Transcripts:ENSRNOT00000047139
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 7 7 7 1
Medium 3 35 50 34 19 34 2 74 35 40 11
Low 8 8 9 8
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_017014 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017590626 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039101714 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039101715 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005500238 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC097845 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC063172 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FJ179401 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ210611 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ211067 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ212742 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ212747 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ213204 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ213562 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ213696 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ214055 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ217092 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ218381 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ218789 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ218795 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229836 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229941 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  J02810 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000077 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M11719 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M28241 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X04229 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000047139   ⟹   ENSRNOP00000039050
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2195,649,848 - 195,655,411 (-)Ensembl
Rnor_6.0 Ensembl2210,803,869 - 210,809,306 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000104497   ⟹   ENSRNOP00000083172
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2195,649,845 - 195,655,411 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000109885   ⟹   ENSRNOP00000092984
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2195,649,845 - 195,655,411 (-)Ensembl
RefSeq Acc Id: NM_017014   ⟹   NP_058710
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22195,649,846 - 195,655,225 (-)NCBI
Rnor_6.02210,803,869 - 210,809,246 (-)NCBI
Rnor_5.02230,272,740 - 230,278,278 (-)NCBI
RGSC_v3.42203,575,444 - 203,580,821 (-)RGD
Celera2188,295,244 - 188,300,621 (-)RGD
Sequence:
RefSeq Acc Id: XM_039101714   ⟹   XP_038957642
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22195,649,845 - 195,655,402 (-)NCBI
RefSeq Acc Id: XM_039101715   ⟹   XP_038957643
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22195,649,845 - 195,655,382 (-)NCBI
RefSeq Acc Id: XR_005500238
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22195,649,845 - 195,655,391 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_058710   ⟸   NM_017014
- Sequence:
RefSeq Acc Id: ENSRNOP00000039050   ⟸   ENSRNOT00000047139
RefSeq Acc Id: XP_038957642   ⟸   XM_039101714
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038957643   ⟸   XM_039101715
- Peptide Label: isoform X2
RefSeq Acc Id: ENSRNOP00000083172   ⟸   ENSRNOT00000104497
RefSeq Acc Id: ENSRNOP00000092984   ⟸   ENSRNOT00000109885
Protein Domains
GST C-terminal   GST N-terminal

Transcriptome

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

Promoters
RGD ID:13691669
Promoter ID:EPDNEW_R2194
Type:multiple initiation site
Name:Gstm1_1
Description:glutathione S-transferase mu 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_6.02210,809,281 - 210,809,341EPDNEW

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)
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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)
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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
BXH3/CubMcwi (2020)
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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
Buf/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
COP/CrCrl (MCW & UW)
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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)
DA/OlaHsd (2019)
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Sequenced By: MCW
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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Sequenced By: MCW
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)
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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
F344/NCrl (2019)
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Sequenced By: MCW
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/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
F344/NRrrc (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
F344/Stm (2019)
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Sequenced By: MCW
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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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
FHH/EurMcwi (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)
FHH/EurMcwi (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
FHL/EurMcwi (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)
FHL/EurMcwi (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
FXLE16/Stm (2020)
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Sequenced By: MCW
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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Sequenced By: MCW
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
GH/OmrMcwi (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)
GK/FarMcwi (2019)
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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
GK/Ox (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
HXB10/IpcvMcwi (2019)
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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
HXB2/IpcvMcwi (2019)
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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
HXB20/IpcvMcwi (2020)
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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
HXB31/IpcvMcwi (2019)
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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
HXB4/IpcvMcwi (2020)
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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
LE/Stm (2019)
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Sequenced By: MCW
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
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 (2019)
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Sequenced By: MCW
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
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
LEXF10A/StmMcwi (2020)
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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
LEXF11/Stm (2020)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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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Sequenced By: MCW
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)
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Sequenced By: MCW
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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Sequenced By: MCW
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/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
LH/MavRrrcAek (2020)
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Sequenced By: MCW
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/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/MavRrrcAek (2020)
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Sequenced By: MCW
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/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/MavRrrcAek (2020)
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Sequenced By: MCW
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)
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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
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
M520/NRrrcMcwi (2019)
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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
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