Il2 (interleukin 2) - Rat Genome Database

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Gene: Il2 (interleukin 2) Rattus norvegicus
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Symbol: Il2
Name: interleukin 2
RGD ID: 620047
Description: Enables carbohydrate binding activity; glycosphingolipid binding activity; and signaling receptor binding activity. Involved in several processes, including positive regulation of T cell activation; protein kinase C-activating G protein-coupled receptor signaling pathway; and regulation of protein phosphorylation. Located in extracellular space. Used to study cystitis. Biomarker of allergic rhinitis; colorectal carcinoma; and tongue squamous cell carcinoma. Human ortholog(s) of this gene implicated in several diseases, including Takayasu's arteritis; auditory system disease (multiple); autoimmune disease (multiple); carcinoma (multiple); and neurodegenerative disease (multiple). Orthologous to human IL2 (interleukin 2); PARTICIPATES IN interleukin-12 signaling pathway; interleukin-2 signaling pathway; interleukin-23 signaling pathway; INTERACTS WITH (+)-pilocarpine; (R)-lipoic acid; 1,2-dichloroethane.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: IL-2; interleukin-2; T-cell growth factor; TCGF
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
mRatBN7.22120,004,862 - 120,009,566 (-)NCBImRatBN7.2
Rnor_6.0 Ensembl2123,847,150 - 123,851,854 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.02123,847,150 - 123,851,854 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02143,460,866 - 143,465,570 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42123,655,005 - 123,659,709 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12123,599,966 - 123,604,671 (-)NCBI
Celera2114,959,889 - 114,964,593 (-)NCBICelera
Cytogenetic Map2q25NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
acquired immunodeficiency syndrome  (ISO)
Acute Lung Injury  (IEP)
adult T-cell leukemia  (ISO)
aggressive periodontitis  (ISO)
allergic contact dermatitis  (ISO)
allergic disease  (ISO)
allergic rhinitis  (IEP)
alopecia areata  (ISO)
Alzheimer's disease  (ISO)
Amebic Liver Abscess  (ISO)
amnestic disorder  (ISO)
anemia  (ISO)
anogenital venereal wart  (ISO)
Anorexia  (ISO)
Asthenia  (ISO)
asthma  (ISO)
ataxia telangiectasia  (ISO)
atherosclerosis  (ISO)
atopic dermatitis  (ISO)
atrial fibrillation  (ISO)
autistic disorder  (ISO)
autoimmune hepatitis  (ISO)
autoimmune thrombocytopenic purpura  (ISO)
bacterial infectious disease  (ISO)
Behcet's disease  (ISO)
birdshot chorioretinopathy  (ISO)
Brain Injuries  (ISO)
Brain Neoplasms  (ISO)
bullous pemphigoid  (ISO)
Carcinoma, Lewis Lung  (ISO)
cholestasis  (ISO)
cholesteatoma of middle ear  (ISO)
Choroidal Neovascularization  (ISO)
Chronic Hepatitis B  (ISO)
Chronic Hepatitis C  (ISO)
colorectal carcinoma  (IEP)
Coronavirus infectious disease  (ISO)
COVID-19  (ISO)
cystitis  (IDA)
disease of cellular proliferation  (ISO)
drug allergy  (ISO)
Drug Eruptions  (ISO)
Entamoebiasis  (ISO)
Experimental Arthritis  (IDA,IEP)
Experimental Autoimmune Uveoretinitis  (IEP,ISO)
Experimental Colitis  (IEP)
Experimental Diabetes Mellitus  (IEP)
Experimental Melanoma  (ISO)
Experimental Neoplasms  (ISO)
Femoral Fractures  (IEP)
Fever  (ISO)
glioblastoma  (ISO)
glomerulonephritis  (ISO)
Graft vs Host Disease  (ISO)
Graves Ophthalmopathy  (ISO)
Graves' disease  (ISO)
head and neck squamous cell carcinoma  (ISO)
hepatitis B  (ISO)
hepatitis C  (ISO)
hepatocellular carcinoma  (ISO)
herpes zoster  (ISO)
high grade glioma  (ISO)
human immunodeficiency virus infectious disease  (ISO)
Human Influenza  (ISO)
Hyperalgesia  (IDA,IEP,IMP)
Hyperkinesis  (ISO)
Hypotension  (ISO)
inflammatory bowel disease  (ISS)
interstitial lung disease  (ISO)
juvenile rheumatoid arthritis  (ISO)
Kidney Neoplasms  (ISO)
Knee Osteoarthritis  (ISO)
leishmaniasis  (ISO)
leukemia  (ISO)
leukopenia  (ISO)
limited scleroderma  (ISO)
liver cirrhosis  (ISO)
Liver Metastasis  (ISO)
Liver Neoplasms  (ISO)
lung disease  (ISO)
Lung Neoplasms  (ISO)
major depressive disorder  (ISO)
melanoma  (ISO)
Multi-Infarct Dementia  (ISO)
Neoplasm Metastasis  (ISO)
Neoplasm, Residual  (ISO)
nephrotic syndrome  (ISO)
Neurodevelopmental Disorders  (ISO)
Neurogenic Inflammation  (IEP)
open-angle glaucoma  (ISO)
Oral Lichen Planus  (ISO)
oral squamous cell carcinoma  (ISO)
otitis media  (ISO)
Pain  (ISO)
pancreatic cancer  (ISO)
pemphigus  (ISO)
Perennial Allergic Rhinitis  (ISO)
post-traumatic stress disorder  (ISO)
primary immunodeficiency disease  (ISO)
Prostatic Neoplasms  (ISO)
psoriasis  (ISO)
renal cell carcinoma  (ISO)
rheumatoid arthritis  (ISO)
rhinitis  (ISO)
sensorineural hearing loss  (ISO)
severe combined immunodeficiency  (ISO)
sinusitis  (ISO)
Sjogren's syndrome  (ISS)
squamous cell carcinoma  (ISO)
Staphylococcal Infections  (ISO)
systemic lupus erythematosus  (ISO)
systemic scleroderma  (ISO)
Takayasu's arteritis  (ISO)
tongue squamous cell carcinoma  (IEP)
Transplant Rejection  (IMP,ISO)
type 1 diabetes mellitus  (ISO)
urinary bladder cancer  (ISO)
uveitis  (ISO)
Vaginal Neoplasms  (ISO)
viral hepatitis  (ISO)
vitiligo  (ISO)
Zellweger syndrome  (ISO)

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-catechin  (ISO)
(+)-pilocarpine  (EXP)
(-)-epigallocatechin 3-gallate  (ISO)
(R)-lipoic acid  (EXP)
(S)-colchicine  (ISO)
(S)-nicotine  (ISO)
1,2-dichloroethane  (EXP)
1,2-dimethylhydrazine  (EXP)
1,3-benzothiazole-2-thiol  (ISO)
1,4-phenylenediamine  (ISO)
1-chloro-2,4-dinitrobenzene  (ISO)
1-fluoro-2,4-dinitrobenzene  (ISO)
1-methyl-4-phenyl-1,2,3,6-tetrahydropyridine  (ISO)
1-naphthaleneacetic acid  (ISO)
15-acetyldeoxynivalenol  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,2',5,5'-tetrachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4,6-trinitrobenzenesulfonic acid  (ISO)
2,4-D  (ISO)
2,6-di-tert-butyl-4-methylphenol  (ISO)
2-amino-2-deoxy-D-glucopyranose  (ISO)
2-arachidonoylglycerol  (ISO)
2-ethylhexan-1-ol  (ISO)
2-tert-butylhydroquinone  (ISO)
3'-O-(4-Benzoyl)benzoyl ATP  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (ISO)
3,3',5,5'-tetrabromobisphenol A  (ISO)
3,3'-diindolylmethane  (ISO)
3-acetyldeoxynivalenol  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4'-epidoxorubicin  (ISO)
4'-hydroxydiclofenac  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-(ethoxymethylene)-2-phenyloxazol-5-one  (ISO)
4-aminobenzoic acid  (ISO)
4-hydroxynon-2-enal  (ISO)
4-nitroaniline  (ISO)
4-tolyl isocyanate  (ISO)
5'-S-methyl-5'-thioadenosine  (ISO)
5-aza-2'-deoxycytidine  (ISO)
5-azacytidine  (ISO)
7,12-dimethyltetraphene  (ISO)
7,8-dihydroxycoumarin  (EXP)
9-cis-retinoic acid  (ISO)
acetylsalicylic acid  (ISO)
acrolein  (ISO)
actinomycin D  (ISO)
adenosine  (ISO)
alclometasone dipropionate  (ISO)
aldehydo-D-glucosamine  (ISO)
aldicarb  (ISO)
all-trans-retinoic acid  (EXP,ISO)
all-trans-retinol  (ISO)
alpha-hexylcinnamaldehyde  (ISO)
alprazolam  (ISO)
aluminium hydroxide  (ISO)
ammonium chloride  (EXP)
Ammothamnine  (EXP)
amphotericin B  (ISO)
anethole  (ISO)
anthracen-2-amine  (ISO)
arjunolic acid  (EXP)
arotinoid acid  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenic trichloride  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
bathocuproine disulfonic acid  (ISO)
benzamide  (EXP)
benzene  (EXP,ISO)
benzethonium chloride  (ISO)
benzo[a]pyrene  (EXP,ISO)
benzocaine  (ISO)
berberine  (ISO)
beryllium sulfate  (ISO)
beta-D-glucosamine  (ISO)
beta-endorphin  (ISO)
betamethasone valerate  (ISO)
betulin  (ISO)
bifenthrin  (ISO)
bisphenol A  (EXP,ISO)
boric acid  (EXP)
boron atom  (EXP)
bromodichloromethane  (ISO)
buprenorphine  (ISO)
butan-1-ol  (ISO)
C60 fullerene  (ISO)
cadmium dichloride  (EXP,ISO)
Calcimycin  (ISO)
calcitriol  (EXP,ISO)
cannabidiol  (ISO)
Cannabinol  (ISO)
capsaicin  (EXP,ISO)
capsazepine  (ISO)
carbamazepine  (EXP)
carbaryl  (ISO)
carbofuran  (ISO)
carbon nanotube  (ISO)
celecoxib  (EXP)
cerium trichloride  (ISO)
chloromethylisothiazolinone  (ISO)
chloroquine  (ISO)
chlorpromazine  (ISO)
choline  (ISO)
chromium(6+)  (ISO)
ciglitazone  (ISO)
ciprofloxacin  (EXP)
cis-caffeic acid  (ISO)
cisplatin  (ISO)
citral  (ISO)
clonidine  (EXP)
clonidine (amino form)  (EXP)
clonidine (imino form)  (EXP)
cobalt atom  (ISO)
cobalt dichloride  (ISO)
cocaine  (ISO)
coformycin  (ISO)
copper(II) nitrate  (ISO)
cortisol  (ISO)
coumestrol  (ISO)
crotonaldehyde  (ISO)
curcumin  (ISO)
cyclophosphamide  (EXP,ISO)
cyclosporin A  (EXP,ISO)
dapsone  (ISO)
DDT  (ISO)
decabromodiphenyl ether  (EXP)
deoxynivalenol  (ISO)
dexamethasone  (ISO)
dextran sulfate  (ISO)
diarsenic trioxide  (ISO)
diazinon  (ISO)
Dibenzo[a,i]pyrene  (ISO)
dibutyl phthalate  (ISO)
dichloroacetic acid  (ISO)
dichlorvos  (ISO)
diclofenac  (ISO)
dieldrin  (ISO)
diethanolamine  (ISO)
digoxin  (ISO)
diiodine  (EXP)
diisopropyl fluorophosphate  (ISO)
Dimaprit  (ISO)
dimethyl sulfoxide  (ISO)
dimethyl-(phenylmethyl)-[2-[2-[4-(2,4,4-trimethylpentan-2-yl)phenoxy]ethoxy]ethyl]ammonium  (ISO)
diphenylmethane-4,4'-diisocyanate  (ISO)
dipyridamole  (ISO)
doxorubicin  (EXP,ISO)
EC 3.4.15.1 (peptidyl-dipeptidase A) inhibitor  (ISO)
elemental boron  (EXP)
elemental selenium  (EXP)
endosulfan  (ISO)
erlotinib hydrochloride  (ISO)
ethanol  (ISO)
eugenol  (ISO)
famotidine  (ISO)
fenitrothion  (EXP,ISO)
fentanyl  (ISO)
ferric oxide  (ISO)
fluticasone  (ISO)
folic acid  (ISO)
formaldehyde  (EXP,ISO)
fragrance  (ISO)
fructose  (EXP)
fumigaclavine C  (ISO)
fumonisin B1  (ISO)
gamma-linolenic acid  (ISO)
Gastrodin  (ISO)
genistein  (EXP)
geranial  (ISO)
Goe 6976  (ISO)
graphite  (ISO)
heroin  (ISO)
hexachlorobenzene  (EXP)
histamine  (ISO)
hydrogen peroxide  (ISO)
hydroquinone  (ISO)
imidurea  (ISO)
indirubin-3'-monoxime  (ISO)
indole-3-acetic acid  (ISO)
indole-3-methanol  (ISO)
indometacin  (ISO)
ionomycin  (EXP,ISO)
irinotecan  (EXP)
isoeugenol  (ISO)
isoniazide  (ISO)
isophorone diisocyanate  (ISO)
isoprenaline  (EXP)
isotretinoin  (EXP)
lactacystin  (ISO)
lead diacetate  (ISO)
lead nitrate  (ISO)
lead(II) chloride  (ISO)
lenalidomide  (ISO)
levamisole  (ISO)
linoleic acid  (ISO)
lipoic acid  (EXP)
lipopolysaccharide  (EXP,ISO)
lithium atom  (ISO)
lithium carbonate  (ISO)
lithium chloride  (ISO)
lithium hydride  (ISO)
loperamide  (ISO)
LY294002  (ISO)
lycopene  (ISO)
magnesium dihydroxide  (ISO)
malathion  (ISO)
malonaldehyde  (ISO)
mancozeb  (ISO)
manganese atom  (ISO)
manganese(0)  (ISO)
MC1568  (ISO)
medroxyprogesterone acetate  (ISO)
melatonin  (ISO)
mercury atom  (EXP)
mercury dichloride  (EXP,ISO)
mercury(0)  (EXP)
mesalamine  (ISO)
methadone  (ISO)
methanol  (ISO)
methiocarb  (ISO)
methotrexate  (ISO)
methoxychlor  (EXP)
methyl isocyanate  (ISO)
methylmercury chloride  (ISO)
mevinphos  (ISO)
microcystin-LR  (ISO)
mifepristone  (ISO)
minocycline  (ISO)
mitogen  (EXP,ISO)
mitomycin C  (ISO)
monocrotophos  (ISO)
Monocyte locomotion inhibitory factor  (ISO)
monodansylcadaverine  (ISO)
monosodium L-glutamate  (EXP)
morphine  (ISO)
mycophenolic acid  (EXP,ISO)
N,N,N',N'-tetrakis(2-pyridylmethyl)ethylenediamine  (ISO)
N,N-bis(2-hydroxypropyl)nitrosamine  (EXP)
N,N-diethyl-m-toluamide  (ISO)
N-acetyl-L-cysteine  (EXP,ISO)
N-butyl-N-(4-hydroxybutyl)nitrosamine  (EXP)
N-methyl-N-nitrosourea  (EXP,ISO)
N-nitrosodiethylamine  (EXP)
naloxone  (ISO)
naproxen  (EXP)
naringin  (ISO)
neocuproine  (ISO)
nickel atom  (ISO)
nickel dichloride  (ISO)
nickel sulfate  (ISO)
nicotinamide  (ISO)
nicotine  (ISO)
nilotinib  (EXP)
nitrofurazone  (ISO)
Nivalenol  (ISO)
nonanoic acid  (ISO)
notoginsenoside R1  (ISO)
o-anisidine  (ISO)
ochratoxin A  (ISO)
oridonin  (EXP)
oxidopamine  (ISO)
ozone  (ISO)
p-menthan-3-ol  (ISO)
Paeonol  (ISO)
paracetamol  (ISO)
paraoxon  (ISO)
paraquat  (EXP,ISO)
PCB138  (ISO)
PD 0325901  (ISO)
pentamidine  (ISO)
perfluorononanoic acid  (EXP)
perfluorooctane-1-sulfonic acid  (ISO)
permethrin  (EXP)
phenanthridone  (EXP)
phenethyl caffeate  (ISO)
phenyl benzoate  (ISO)
PhIP  (ISO)
phorbol 13-acetate 12-myristate  (EXP,ISO)
phthalic anhydride  (ISO)
piperazine  (ISO)
piperidine  (ISO)
piperine  (ISO)
poly(I:C)  (ISO)
pomalidomide  (ISO)
prednisolone  (ISO)
proanthocyanidin  (EXP)
progesterone  (ISO)
propanil  (ISO)
prostaglandin E2  (ISO)
pyrazoles  (ISO)
Pyridostigmine bromide  (ISO)
pyrimethamine  (ISO)
pyrrolidine dithiocarbamate  (ISO)
quercetin  (ISO)
reactive oxygen species  (ISO)
resveratrol  (ISO)
Rhein  (ISO)
ribavirin  (ISO)
rimexolone  (ISO)
rottlerin  (ISO)
S-adenosyl-L-methioninate  (ISO)
S-adenosyl-L-methionine  (ISO)
SB 203580  (ISO)
selenium atom  (EXP)
serpentine asbestos  (ISO)
silicon dioxide  (ISO)
simvastatin  (ISO)
sirolimus  (EXP,ISO)
sodium acetate trihydrate  (ISO)
sodium arsenite  (ISO)
sodium bromate  (ISO)
sodium dichromate  (ISO)
sodium dodecyl sulfate  (ISO)
sodium fluoride  (EXP)
sodium hexachloroplatinate  (ISO)
spironolactone  (ISO)
SR 144528  (ISO)
streptozocin  (EXP)
sulfasalazine  (ISO)
sulforaphane  (ISO)
sulfur dioxide  (EXP)
sumatriptan  (EXP)
Sunset Yellow FCF  (ISO)
syringic acid  (ISO)
T-2 toxin  (ISO)
tacrolimus hydrate  (EXP,ISO)
tamoxifen  (ISO)
Terfenadine  (ISO)
tert-butanol  (ISO)
tetrachloromethane  (EXP,ISO)
tetrathiomolybdate(2-)  (ISO)
thalidomide  (EXP,ISO)
theophylline  (ISO)
thioacetamide  (ISO)
titanium dioxide  (ISO)
tofacitinib  (ISO)
toluene  (ISO)
toluene 2,4-diisocyanate  (ISO)
trans-anethole  (ISO)
trans-caffeic acid  (ISO)
trans-isoeugenol  (ISO)
Tributyltin oxide  (EXP,ISO)
tributyrin  (ISO)
trichloroacetic acid  (ISO)
trichloroethene  (ISO)
trichostatin A  (ISO)
triethanolamine  (ISO)
trimellitic anhydride  (ISO)
tropisetron  (EXP)
Tungsten carbide  (ISO)
urethane  (ISO)
ursodeoxycholic acid  (ISO)
verrucarin A  (ISO)
vincristine  (EXP)
vitamin E  (EXP)
warfarin  (ISO)
zearalenone  (ISO)
zidovudine  (ISO)
zinc atom  (EXP,ISO)
zinc sulfate  (ISO)
zinc(0)  (EXP,ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
adaptive immune response  (IEA)
extrinsic apoptotic signaling pathway in absence of ligand  (ISO)
G protein-coupled receptor signaling pathway  (IMP)
gene expression  (ISO)
leukocyte activation involved in immune response  (ISO)
negative regulation of B cell apoptotic process  (ISO)
negative regulation of heart contraction  (IDA)
negative regulation of inflammatory response  (ISO)
negative regulation of lymphocyte proliferation  (ISO)
negative regulation of protein phosphorylation  (IDA)
negative regulation of T-helper 17 cell differentiation  (ISO)
positive regulation of activated T cell proliferation  (ISO)
positive regulation of B cell proliferation  (ISO)
positive regulation of cytosolic calcium ion concentration  (IDA)
positive regulation of dendritic spine development  (IDA)
positive regulation of immunoglobulin production  (ISO)
positive regulation of interferon-gamma production  (ISO)
positive regulation of interleukin-17 production  (ISO)
positive regulation of isotype switching to IgG isotypes  (ISO)
positive regulation of plasma cell differentiation  (ISO)
positive regulation of protein phosphorylation  (IDA)
positive regulation of regulatory T cell differentiation  (IDA)
positive regulation of T cell differentiation  (IDA)
positive regulation of T cell proliferation  (IDA,ISO)
positive regulation of transcription by RNA polymerase II  (ISO)
positive regulation of tyrosine phosphorylation of STAT protein  (ISO)
protein kinase C-activating G protein-coupled receptor signaling pathway  (IMP)
regulation of T cell homeostatic proliferation  (ISO)
response to ethanol  (IDA)

Cellular Component

Molecular Function

References

References - curated
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Additional References at PubMed
PMID:1588041   PMID:1830926   PMID:7584142   PMID:7589135   PMID:7688139   PMID:8262055   PMID:8402910   PMID:8612131   PMID:9184696   PMID:9492004   PMID:10072077   PMID:10485657  
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PMID:21668966   PMID:21726905   PMID:22201020   PMID:22659252   PMID:22968459   PMID:23262141   PMID:23395675   PMID:24853588   PMID:25642768   PMID:26927369   PMID:28092075   PMID:28396406  
PMID:29995978  


Genomics

Candidate Gene Status
Il2 is a candidate Gene for QTL Eau5
Il2 is a candidate Gene for QTL Iddm32
Comparative Map Data
Il2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22120,004,862 - 120,009,566 (-)NCBImRatBN7.2
Rnor_6.0 Ensembl2123,847,150 - 123,851,854 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.02123,847,150 - 123,851,854 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02143,460,866 - 143,465,570 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42123,655,005 - 123,659,709 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12123,599,966 - 123,604,671 (-)NCBI
Celera2114,959,889 - 114,964,593 (-)NCBICelera
Cytogenetic Map2q25NCBI
IL2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl4122,451,470 - 122,456,725 (-)EnsemblGRCh38hg38GRCh38
GRCh384122,451,470 - 122,456,725 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh374123,372,625 - 123,377,880 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 364123,592,075 - 123,597,100 (-)NCBINCBI36hg18NCBI36
Build 344123,730,232 - 123,735,485NCBI
Celera4120,756,030 - 120,761,055 (-)NCBI
Cytogenetic Map4q27NCBI
HuRef4119,099,231 - 119,104,256 (-)NCBIHuRef
CHM1_14123,349,113 - 123,354,138 (-)NCBICHM1_1
Il2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39337,174,862 - 37,180,103 (-)NCBIGRCm39mm39
GRCm39 Ensembl337,174,672 - 37,180,108 (-)Ensembl
GRCm38337,120,713 - 37,125,954 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl337,120,523 - 37,125,959 (-)EnsemblGRCm38mm10GRCm38
MGSCv37337,019,635 - 37,024,876 (-)NCBIGRCm37mm9NCBIm37
MGSCv36337,312,271 - 37,317,502 (-)NCBImm8
Celera337,007,247 - 37,012,480 (-)NCBICelera
Cytogenetic Map3BNCBI
cM Map318.3NCBI
Il2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542818,162,467 - 18,168,265 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495542818,163,010 - 18,168,157 (+)NCBIChiLan1.0ChiLan1.0
IL2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.14125,782,563 - 125,787,819 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl4125,782,563 - 125,787,984 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v04114,637,328 - 114,642,586 (-)NCBIMhudiblu_PPA_v0panPan3
IL2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11917,750,780 - 17,756,394 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1917,750,780 - 17,756,394 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1917,968,837 - 17,974,439 (+)NCBI
ROS_Cfam_1.01917,869,103 - 17,874,712 (+)NCBI
UMICH_Zoey_3.11917,821,680 - 17,827,284 (+)NCBI
UNSW_CanFamBas_1.01918,101,949 - 18,107,555 (+)NCBI
UU_Cfam_GSD_1.01918,572,248 - 18,577,858 (+)NCBI
Il2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530165,520,154 - 65,524,908 (+)NCBI
SpeTri2.0NW_0049366621,594,953 - 1,599,625 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
IL2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl8101,640,944 - 101,645,609 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.18101,640,938 - 101,645,683 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.28108,797,437 - 108,802,149 (+)NCBISscrofa10.2Sscrofa10.2susScr3
IL2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1769,729,635 - 69,736,279 (-)NCBI
ChlSab1.1 Ensembl769,730,282 - 69,734,969 (-)Ensembl
Vero_WHO_p1.0NW_02366603748,691,838 - 48,697,094 (-)NCBI
Il2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247772,885,537 - 2,890,453 (-)NCBI

Position Markers
UniSTS:143556  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22120,009,437 - 120,009,507 (+)MAPPERmRatBN7.2
Rnor_6.02123,851,726 - 123,851,795NCBIRnor6.0
Rnor_5.02143,465,442 - 143,465,511UniSTSRnor5.0
RGSC_v3.42123,659,581 - 123,659,650UniSTSRGSC3.4
Celera2114,964,465 - 114,964,534UniSTS
Cytogenetic Map2q25UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1302794Stl27Serum triglyceride level QTL 274.40.0001blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)225413423143657569Rat
1358894Kidm24Kidney mass QTL 244.03kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)225413423157142209Rat
1358899Kidm23Kidney mass QTL 233.88kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)225413423157142209Rat
1358901Cm38Cardiac mass QTL 382heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423157142209Rat
1358904Cm39Cardiac mass QTL 392.26heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423157142209Rat
1358910Kidm27Kidney mass QTL 275.77kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)225413423157142209Rat
1358911Kidm28Kidney mass QTL 285.42kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)225413423157142209Rat
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
1358887Bw50Body weight QTL 502.39body mass (VT:0001259)body weight (CMO:0000012)225413652157142078Rat
1358908Bw49Body weight QTL 493.36body mass (VT:0001259)body weight (CMO:0000012)225413652157142078Rat
1354603Bp243Blood pressure QTL 2433.9arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)226917817127469484Rat
2290453Scl55Serum cholesterol level QTL 552.83blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)226917817136917119Rat
2293835Kiddil5Kidney dilation QTL 53.8kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)242804607157142209Rat
2293843Kiddil6Kidney dilation QTL 63.1kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)242804607182042367Rat
1298074Bp164Blood pressure QTL 1640.003arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)242804607202447032Rat
1298085Bp165Blood pressure QTL 1650.0006arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)242804607202447032Rat
61467Bp14Blood pressure QTL 142.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)243154682202446871Rat
61467Bp14Blood pressure QTL 142.2arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)243154682202446871Rat
2293671Bss44Bone structure and strength QTL 4410.970.0001lumbar vertebra morphology trait (VT:0010494)lumbar vertebra cortical cross-sectional area (CMO:0001690)243162366148478373Rat
1354601Slep1Serum leptin concentration QTL 15.39blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)243171017184114403Rat
631266Bp132Blood pressure QTL 1320.0005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)246123260202447032Rat
1331760Bp206Blood pressure QTL 2063.62454arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)256043031202447032Rat
1558648Smcn1Smooth muscle cell number QTL 10.039blood vessel smooth muscle cell quantity (VT:0010525)aorta smooth muscle cell count per unit vessel length (CMO:0001646)259134147127460910Rat
61438Cia7Collagen induced arthritis QTL 74.60.0001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)259324377141596857Rat
1298080Bp163Blood pressure QTL 1630.02arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)266118275202447032Rat
1354648Bp239Blood pressure QTL 2390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)266118463226797303Rat
1558653Prcr1Prostate cancer resistance QTL 15prostate integrity trait (VT:0010571)area of ventral prostate occupied by tumorous lesions to total ventral prostate area ratio (CMO:0000899)272532993157142209Rat
1354605Rf48Renal function QTL 482.9blood creatinine amount (VT:0005328)plasma creatinine level (CMO:0000537)274786664206665859Rat
631198Cm22Cardiac mass QTL 224.30.0008heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)276539322150540526Rat
61374Edpm2Estrogen-dependent pituitary mass QTL 24.420.86pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)276539322202447032Rat
2299162Iddm32Insulin dependent diabetes mellitus QTL 322.36blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)278665616143657569Rat
1581569Uae32Urinary albumin excretion QTL 320.0001urine protein amount (VT:0005160)urine albumin excretion rate (CMO:0000757)278665619219826953Rat
724534Uae6Urinary albumin excretion QTL 610urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)278665619249053267Rat
61392Bp6Blood pressure QTL 67arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)280270434125270434Rat
1598865Bp296Blood pressure QTL 2962.1arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)281018907126018907Rat
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
1354622Kidm16Kidney mass QTL 163kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)281754530222436696Rat
1354649Kidm17Kidney mass QTL 172.9kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)281754530227146641Rat
1578772Stresp14Stress response QTL 1450.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)282345893130923501Rat
7207808Bmd89Bone mineral density QTL 894.1femur strength trait (VT:0010010)femoral neck ultimate force (CMO:0001703)288862519133862519Rat
2300165Bmd49Bone mineral density QTL 494.80.0001lumbar vertebra mineral mass (VT:0010511)bone mineral density (CMO:0001226)288862519133862519Rat
2300170Bmd45Bone mineral density QTL 4512.10.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)288862519133862519Rat
2300185Bmd46Bone mineral density QTL 468.40.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)288862519133862519Rat
1598862Glom9Glomerulus QTL 93.5kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)292337601137337601Rat
1598863Cm65Cardiac mass QTL 652.3heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)292337601137337601Rat
631566Bp90Blood pressure QTL 900.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2102803808147803808Rat
8662836Vetf8Vascular elastic tissue fragility QTL 80.66thoracic aorta molecular composition trait (VT:0010568)aorta wall extracellular elastin dry weight to aorta wall extracellular collagen weight ratio (CMO:0002003)2104559726149559726Rat
1581552Pur12Proteinuria QTL 125.190.0009total urine protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)2112103657148076632Rat
631507Bp105Blood pressure QTL 1050.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2112456140212696837Rat
634308Sach6Saccharin preference QTL 64.9taste sensitivity trait (VT:0001986)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)2112456140212696837Rat
1354594Despr10Despair related QTL 100.00000249locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)2114654253159654253Rat
1359035Bp276Blood pressure QTL 276arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)2114837527143657569Rat
1359035Bp276Blood pressure QTL 276arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2114837527143657569Rat
1359030Bp277Blood pressure QTL 277arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)2114837527185876470Rat
1359030Bp277Blood pressure QTL 277arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2114837527185876470Rat
1578648Bss11Bone structure and strength QTL 114.7femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)2114837527211674221Rat
1554319Bmd2Bone mineral density QTL 213.40.0001lumbar vertebra area (VT:0010570)lumbar vertebra cross-sectional area (CMO:0001689)2114837675212549332Rat
5135226Leukc2Leukocyte quantity QTL 2eosinophil quantity (VT:0002602)blood eosinophil count (CMO:0000033)2118111229149559726Rat
1582257Gluco21Glucose level QTL 213.10.0035blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)2118111229157142209Rat
738007Anxrr7Anxiety related response QTL 74.4exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)2118189491163189491Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:44
Count of miRNA genes:37
Interacting mature miRNAs:44
Transcripts:ENSRNOT00000023327
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium
Low 1 1 2 2 5
Below cutoff 1 3 12 3 13 3 1 2 5 2 5 8 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000023327   ⟹   ENSRNOP00000023327
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl2123,847,150 - 123,851,854 (-)Ensembl
RefSeq Acc Id: NM_053836   ⟹   NP_446288
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22120,004,862 - 120,009,566 (-)NCBI
Rnor_6.02123,847,150 - 123,851,854 (-)NCBI
Rnor_5.02143,460,866 - 143,465,570 (-)NCBI
RGSC_v3.42123,655,005 - 123,659,709 (-)RGD
Celera2114,959,889 - 114,964,593 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_446288 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAA41427 (Get FASTA)   NCBI Sequence Viewer  
  EDM01295 (Get FASTA)   NCBI Sequence Viewer  
  P17108 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_446288   ⟸   NM_053836
- Peptide Label: precursor
- UniProtKB: P17108 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000023327   ⟸   ENSRNOT00000023327

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 (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 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
BXH3/CubMcwi (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
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)
DA/OlaHsd (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: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (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: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/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
F344/NCrl (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: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
F344/Stm (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: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/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
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
FXLE16/Stm (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: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (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: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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/FarMcwi (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
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
HXB10/IpcvMcwi (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
HXB2/IpcvMcwi (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
HXB20/IpcvMcwi (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
HXB31/IpcvMcwi (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
HXB4/IpcvMcwi (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
LE/Stm (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: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (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
LEW/Crl (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: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (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
LEW/NCrlBR (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
LEXF10A/StmMcwi (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
LEXF11/Stm (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: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (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: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (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: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (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: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (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: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (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: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrc (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
LH/MavRrrcAek (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: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrc (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
LL/MavRrrcAek (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: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrc (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
LN/MavRrrcAek (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: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/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
M520/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
M520/NRrrcMcwi (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
MHS/Gib (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
MNS/Gib (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
MR/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
MR/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
MWF/Hsd (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
PVG/Seac (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: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SBH/Ygl (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: SBH/Ygl sequenced by MCW
SBH/Ygl (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
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
SHR/OlalpcvMcwi (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
SHRSP/A3NCrl (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
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 (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: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (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
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 Atanu