Igf1r (insulin-like growth factor 1 receptor) - Rat Genome Database

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Gene: Igf1r (insulin-like growth factor 1 receptor) Rattus norvegicus
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Symbol: Igf1r
Name: insulin-like growth factor 1 receptor
RGD ID: 2869
Description: Enables G-protein alpha-subunit binding activity; insulin receptor substrate binding activity; and insulin-like growth factor-activated receptor activity. Involved in several processes, including cellular response to hormone stimulus; negative regulation of apoptotic process; and nervous system development. Located in several cellular components, including T-tubule; caveola; and neuronal cell body. Used to study Alzheimer's disease; Parkinson's disease; and prostate adenocarcinoma. Biomarker of several diseases, including alcoholic neuropathy; artery disease (multiple); cryptorchidism; diabetes mellitus (multiple); and neurodegenerative disease (multiple). Human ortholog(s) of this gene implicated in several diseases, including IgA glomerulonephritis; dementia (multiple); kidney cancer (multiple); liver disease (multiple); and nervous system cancer (multiple). Orthologous to human IGF1R (insulin like growth factor 1 receptor); PARTICIPATES IN insulin-like growth factor signaling pathway; E-cadherin signaling pathway; endocytosis pathway; INTERACTS WITH (-)-epigallocatechin 3-gallate; (S)-nicotine; 1,2-dimethylhydrazine.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: IGF-1 receptor; IGF-I receptor; IGFIRC; Igfr1; insulin-like growth factor I receptor; JTK13; type-I IGF receptor
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Is Marker For: Strains:   SHRSP.WKY-(Igf1r-D1Rat36)/IzmTkyo  
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21121,549,839 - 121,838,545 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1121,550,743 - 121,831,777 (+)Ensembl
Rnor_6.01128,924,921 - 129,213,816 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1128,924,966 - 129,206,516 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01129,985,761 - 130,272,589 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41122,704,976 - 122,990,007 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11122,783,318 - 123,068,350 (+)NCBI
Celera1113,751,636 - 114,029,884 (+)NCBICelera
Cytogenetic Map1q22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
acute kidney failure  (IEP)
adrenocortical carcinoma  (ISO)
alcoholic neuropathy  (IEP)
Alzheimer's disease  (IEP,IMP,ISO)
amyotrophic lateral sclerosis  (IEP)
atrial fibrillation  (ISO)
breast cancer  (ISO)
Breast Neoplasms  (ISO)
Burns  (IEP)
Cardiomegaly  (ISO)
cardiomyopathy  (IEP)
Carotid Artery Injuries  (IEP)
Choroidal Neovascularization  (ISO)
chromosome 15q26-qter deletion syndrome  (ISO)
clear cell renal cell carcinoma  (ISO)
congenital diaphragmatic hernia  (ISO)
coronary stenosis  (IEP)
Craniosynostosis Syndrome, Autosomal Recessive  (ISO)
cryptorchidism  (IEP)
dementia  (ISO)
diabetes mellitus  (ISO)
Diabetic Nephropathies  (IEP)
diabetic retinopathy  (IEP)
Endometrial Neoplasms  (ISO)
Experimental Diabetes Mellitus  (IEP,ISO)
Experimental Liver Cirrhosis  (IEP)
fetal alcohol spectrum disorder  (IEP)
Fetal Growth Retardation  (IEP,ISO)
gastrinoma  (ISO)
gastroschisis  (IEP)
genetic disease  (ISO)
gestational diabetes  (IEP)
Graves' disease  (ISO)
Growth Disorders  (ISO)
hepatocellular carcinoma  (ISO)
high grade glioma  (ISO)
Huntington's disease  (ISO)
Hyperphagia  (IMP)
hypertension  (IEP)
hyperthyroidism  (IEP)
hypertrophic cardiomyopathy  (ISO)
IgA glomerulonephritis  (ISO)
Insulin-Like Growth Factor I, Resistance To  (ISO)
intellectual disability  (ISO)
juvenile rheumatoid arthritis  (ISO)
Kidney Reperfusion Injury  (IEP)
Knee Osteoarthritis  (ISO)
Kuhnt-Junius degeneration  (ISO)
Lewy body dementia  (ISO)
liver cirrhosis  (ISO)
lung disease  (ISO)
Malocclusion  (IEP)
Metabolic Bone Diseases  (IEP)
myocardial infarction  (IEP)
NATURAL KILLER CELL ENTEROPATHY  (ISO)
Neoplasm Metastasis  (ISO)
Neoplastic Cell Transformation  (ISO)
nephroblastoma  (ISO)
neuroblastoma  (ISO)
Neurodevelopmental Disorders  (ISO)
non-alcoholic fatty liver disease  (IEP)
obesity  (IEP)
Optic Nerve Injuries  (IEP,IMP)
osteoarthritis  (ISO)
osteoporosis  (ISO)
pancreatic cancer  (ISO)
pancreatic ductal carcinoma  (ISO)
Parkinson's disease  (IMP,ISO)
peripheral nervous system disease  (ISO)
portal vein thrombosis  (ISO)
Premature Aging  (ISO)
prostate adenocarcinoma  (IMP,ISO)
prostate cancer  (ISO)
prostate carcinoma  (IEP)
prostatic hypertrophy  (ISO)
renal cell carcinoma  (IEP)
respiratory failure  (ISO)
Right Ventricular Hypertrophy  (IDA)
Skin Neoplasms  (ISO)
Stroke  (ISO)
toxic encephalopathy  (ISO)
type 2 diabetes mellitus  (IEP)
ulcerative colitis  (ISO)
vascular dementia  (ISO)
vesicoureteral reflux  (ISO)
Zollinger-Ellison syndrome  (ISO)

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-epigallocatechin 3-gallate  (EXP,ISO)
(S)-nicotine  (EXP)
(Z)-ligustilide  (ISO)
1,1,1-trichloro-2,2-bis(4-hydroxyphenyl)ethane  (ISO)
1,2-dimethylhydrazine  (EXP,ISO)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (EXP,ISO)
17beta-estradiol 17-glucosiduronic acid  (EXP)
17beta-hydroxy-17-methylestra-4,9,11-trien-3-one  (ISO)
17beta-hydroxy-5alpha-androstan-3-one  (EXP,ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,2',5,5'-tetrachlorobiphenyl  (ISO)
2,3',4,4',5-Pentachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
2,4-dinitrobenzenesulfonic acid  (ISO)
2-deoxy-D-glucose  (ISO)
2-hydroxypropanoic acid  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3-chloropropane-1,2-diol  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-diaminodiphenylmethane  (ISO)
4-hydroxy-17beta-estradiol  (ISO)
4-hydroxynon-2-enal  (ISO)
4-hydroxyphenyl retinamide  (ISO)
4-vinylcyclohexene dioxide  (ISO)
5,6,7,8-tetrahydrofolic acid  (ISO)
5-fluorouracil  (ISO)
7,9-dihydro-1H-purine-2,6,8(3H)-trione  (ISO)
acetamide  (EXP)
acetazolamide  (ISO)
afimoxifene  (ISO)
aflatoxin B1  (EXP,ISO)
aldehydo-D-glucose  (ISO)
all-trans-retinoic acid  (EXP)
amino acid  (ISO)
ammonium chloride  (EXP)
androgen antagonist  (EXP)
AP20187  (ISO)
aristolochic acid  (ISO)
Aroclor 1254  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
azathioprine  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
berberine  (ISO)
beta-hexachlorocyclohexane  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
Bisphenol B  (ISO)
BMS-754807  (ISO)
bortezomib  (ISO)
butan-1-ol  (ISO)
Butylparaben  (EXP)
cadmium atom  (ISO)
cadmium dichloride  (EXP,ISO)
caffeine  (EXP)
calcitriol  (ISO)
capsaicin  (ISO)
captan  (ISO)
carbamazepine  (ISO)
carbon nanotube  (ISO)
Chimaphylin  (ISO)
chitin  (ISO)
chloropicrin  (ISO)
chromium(6+)  (ISO)
chrysin  (EXP)
cisplatin  (ISO)
clodronic acid  (ISO)
cocaine  (EXP)
copper atom  (EXP,ISO)
copper(0)  (EXP,ISO)
corosolic acid  (ISO)
corticosterone  (EXP)
cortisol  (ISO)
crocidolite asbestos  (ISO)
Cuprizon  (EXP)
curcumin  (ISO)
cyclosporin A  (ISO)
cypermethrin  (ISO)
D-glucose  (ISO)
daidzein  (ISO)
dapsone  (ISO)
DDE  (ISO)
deguelin  (ISO)
dexamethasone  (EXP,ISO)
diarsenic trioxide  (ISO)
dibenz[a,h]anthracene  (ISO)
dibutyl phthalate  (EXP,ISO)
diclofenac  (ISO)
dicrotophos  (ISO)
diethylstilbestrol  (ISO)
dihydrofolic acid  (ISO)
dimethylarsinic acid  (EXP)
dioxygen  (EXP)
diquat  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
enzacamene  (EXP)
enzalutamide  (ISO)
equol  (ISO)
ethanol  (EXP,ISO)
ethyl methanesulfonate  (ISO)
etoposide  (ISO)
everolimus  (ISO)
fenpyroximate  (ISO)
fenvalerate  (EXP)
folic acid  (ISO)
folpet  (ISO)
formaldehyde  (ISO)
fulvestrant  (EXP,ISO)
gallic acid  (ISO)
gefitinib  (ISO)
gemcitabine  (ISO)
genistein  (EXP,ISO)
gentamycin  (EXP)
Ginkgoic acid  (ISO)
glucose  (ISO)
gold atom  (ISO)
gold(0)  (ISO)
herbicide  (EXP)
hexachlorobenzene  (EXP,ISO)
hydrogen peroxide  (ISO)
Indeno[1,2,3-cd]pyrene  (ISO)
indometacin  (EXP)
isoflurane  (EXP)
isoprenaline  (ISO)
L-ascorbic acid  (ISO)
leuprolide  (ISO)
linuron  (EXP)
lipopolysaccharide  (EXP)
lovastatin  (EXP)
lycopene  (ISO)
manganese(II) chloride  (EXP)
maslinic acid  (ISO)
masoprocol  (ISO)
menadione  (ISO)
metformin  (EXP,ISO)
methcathinone  (ISO)
methimazole  (ISO)
methoxychlor  (EXP)
methyl methanesulfonate  (ISO)
methylarsonic acid  (EXP)
methylmercury chloride  (EXP,ISO)
mifepristone  (ISO)
mitoxantrone  (ISO)
monosodium L-glutamate  (EXP,ISO)
N,N,N',N'-tetrakis(2-pyridylmethyl)ethylenediamine  (EXP)
N,N-diethyl-m-toluamide  (EXP)
N-acetyl-L-cysteine  (EXP)
N-benzyloxycarbonyl-L-leucyl-L-leucyl-L-leucinal  (ISO)
N-ethyl-N-nitrosourea  (ISO)
N-methyl-4-phenylpyridinium  (ISO)
N-methyl-N-nitrosourea  (EXP)
N-nitrosodiethylamine  (EXP)
N-nitrosomorpholine  (EXP)
nickel atom  (ISO)
nickel subsulfide  (EXP)
niclosamide  (ISO)
nicotine  (EXP)
nilutamide  (EXP)
nitrofen  (EXP)
nitrogen mustard  (ISO)
ochratoxin A  (EXP)
ozone  (EXP)
p-menthan-3-ol  (ISO)
palbociclib  (ISO)
paracetamol  (EXP,ISO)
paraquat  (ISO)
perfluorododecanoic acid  (EXP)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (ISO)
permethrin  (EXP)
phenobarbital  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
picolinic acid  (EXP)
picoxystrobin  (ISO)
picropodophyllotoxin  (ISO)
piperine  (ISO)
platycodin D  (ISO)
potassium chromate  (ISO)
progesterone  (EXP,ISO)
pyrimidifen  (ISO)
quercetin  (ISO)
quercitrin  (ISO)
rac-lactic acid  (ISO)
resveratrol  (EXP,ISO)
RU 58668  (ISO)
rutin  (ISO)
SB 431542  (ISO)
Se-methyl-L-selenocysteine  (ISO)
Se-methylselenocysteine  (ISO)
simvastatin  (ISO)
sirolimus  (ISO)
sirtinol  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sodium dichromate  (ISO)
sophoraflavanone B  (EXP)
sorafenib  (ISO)
streptozocin  (EXP,ISO)
succimer  (ISO)
sunitinib  (ISO)
tamoxifen  (ISO)
tanespimycin  (EXP,ISO)
tebufenpyrad  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone  (EXP,ISO)
testosterone enanthate  (EXP)
tetrachloromethane  (EXP)
tetrathiomolybdate(2-)  (ISO)
thyroxine  (EXP)
trichostatin A  (ISO)
triclosan  (EXP)
triphenyl phosphate  (ISO)
tunicamycin  (ISO)
valproic acid  (EXP,ISO)
vinclozolin  (EXP)
vitamin E  (EXP,ISO)
zinc atom  (EXP,ISO)
zinc sulfate  (ISO)
zinc(0)  (EXP,ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
adrenal gland development  (ISO)
aging  (IEP)
amyloid-beta clearance  (IEA,ISO)
animal organ morphogenesis  (ISO)
axonogenesis  (IMP)
brain development  (ISO)
cardiac atrium development  (IEP)
cellular response to aldosterone  (IEP)
cellular response to amyloid-beta  (IEA,ISO)
cellular response to angiotensin  (IEP)
cellular response to dexamethasone stimulus  (IEP)
cellular response to estradiol stimulus  (IEP)
cellular response to glucose stimulus  (IBA,IEP,ISO)
cellular response to insulin stimulus  (IEP,ISO)
cellular response to insulin-like growth factor stimulus  (IEP,IPI)
cellular response to mechanical stimulus  (IEP)
cellular response to progesterone stimulus  (IEP)
cellular response to testosterone stimulus  (IEP)
cellular response to transforming growth factor beta stimulus  (IPI)
cellular senescence  (IEP)
cerebellum development  (IEP,IMP)
dendritic spine maintenance  (IGI)
epidermis development  (ISO)
establishment of cell polarity  (IMP)
estrous cycle  (IMP)
exocrine pancreas development  (ISO)
glucose homeostasis  (IBA)
hippocampus development  (IEP)
immune response  (IEA,ISO)
insulin receptor signaling pathway  (IMP)
insulin-like growth factor receptor signaling pathway  (IBA,IEA,ISO,ISS)
male sex determination  (ISO)
mammary gland development  (ISO)
negative regulation of apoptotic process  (IEA,ISO,ISS)
negative regulation of cholangiocyte apoptotic process  (IMP)
negative regulation of DNA-binding transcription factor activity  (ISO)
negative regulation of hepatocyte apoptotic process  (IMP)
negative regulation of MAPK cascade  (IEA,ISO,ISS)
negative regulation of muscle cell apoptotic process  (IMP)
negative regulation of protein kinase B signaling  (ISO)
neuron projection development  (IDA)
peptidyl-tyrosine autophosphorylation  (IEA,ISO)
phosphatidylinositol-mediated signaling  (IEA,ISO)
positive regulation of axon regeneration  (IMP)
positive regulation of cell migration  (IEA,ISO)
positive regulation of cell population proliferation  (IEA,ISO)
positive regulation of cold-induced thermogenesis  (ISO,ISS)
positive regulation of cytokinesis  (IMP)
positive regulation of developmental growth  (ISO)
positive regulation of DNA metabolic process  (IMP)
positive regulation of kinase activity  (IBA)
positive regulation of MAPK cascade  (IBA,ISO)
positive regulation of meiotic cell cycle  (ISO)
positive regulation of mitotic nuclear division  (ISO)
positive regulation of osteoblast proliferation  (IMP)
positive regulation of phosphatidylinositol 3-kinase signaling  (IBA,IMP)
positive regulation of protein kinase B signaling  (IBA,ISO)
positive regulation of protein-containing complex disassembly  (IGI)
positive regulation of smooth muscle cell proliferation  (IMP)
positive regulation of steroid hormone biosynthetic process  (IMP)
positive regulation of transcription, DNA-templated  (ISO)
prostate gland epithelium morphogenesis  (ISO)
protein autophosphorylation  (ISO,ISS)
protein phosphorylation  (ISO)
regulation of JNK cascade  (IBA,IEA,ISO,ISS)
response to ethanol  (IDA,IEP)
response to insulin  (IEP)
response to L-glutamate  (IDA)
response to nicotine  (IEP)
response to nutrient levels  (IEP)
response to vitamin E  (IEP)
transcytosis  (IEA,ISO)
transmembrane receptor protein tyrosine kinase signaling pathway  (IBA)

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
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Additional References at PubMed
PMID:1530648   PMID:1846292   PMID:2163625   PMID:2477843   PMID:7541045   PMID:7679099   PMID:7692086   PMID:7758167   PMID:7931420   PMID:8452530   PMID:10100151   PMID:11162456  
PMID:11448933   PMID:11884589   PMID:12101187   PMID:12105987   PMID:12138094   PMID:12556535   PMID:12970367   PMID:14566968   PMID:14628051   PMID:14644152   PMID:14767998   PMID:15358140  
PMID:15567334   PMID:15609625   PMID:15616026   PMID:15638388   PMID:15796760   PMID:16052330   PMID:16236484   PMID:16306401   PMID:16322063   PMID:16516162   PMID:16803852   PMID:16886151  
PMID:17088403   PMID:17241280   PMID:17317782   PMID:17480015   PMID:17510240   PMID:17545147   PMID:17586502   PMID:17662267   PMID:17900863   PMID:17940216   PMID:18021255   PMID:18039791  
PMID:18216249   PMID:18451178   PMID:18458087   PMID:18615585   PMID:19122171   PMID:19220583   PMID:19545541   PMID:19578119   PMID:19672727   PMID:19696229   PMID:20097715   PMID:20100694  
PMID:20200966   PMID:20605618   PMID:20620343   PMID:21179204   PMID:21411721   PMID:21433279   PMID:21447702   PMID:21645859   PMID:21677284   PMID:22341695   PMID:22342912   PMID:22367207  
PMID:22429571   PMID:22635104   PMID:22781651   PMID:23046980   PMID:23300479   PMID:23322319   PMID:23382219   PMID:23457189   PMID:23603302   PMID:23695157   PMID:23906066   PMID:24106410  
PMID:24287499   PMID:24530896   PMID:24617524   PMID:24782617   PMID:25500890   PMID:25514442   PMID:25875646   PMID:26170015   PMID:26286172   PMID:26534869   PMID:26556536   PMID:27036326  
PMID:27350269   PMID:27626839   PMID:28290552   PMID:28438613   PMID:28668953   PMID:28937244   PMID:29090346   PMID:29412813   PMID:29556095   PMID:29663740   PMID:29865254   PMID:30248386  
PMID:30404731   PMID:31271053   PMID:32236698  


Genomics

Comparative Map Data
Igf1r
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21121,549,839 - 121,838,545 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1121,550,743 - 121,831,777 (+)Ensembl
Rnor_6.01128,924,921 - 129,213,816 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1128,924,966 - 129,206,516 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01129,985,761 - 130,272,589 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41122,704,976 - 122,990,007 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11122,783,318 - 123,068,350 (+)NCBI
Celera1113,751,636 - 114,029,884 (+)NCBICelera
Cytogenetic Map1q22NCBI
IGF1R
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1598,648,539 - 98,964,530 (+)EnsemblGRCh38hg38GRCh38
GRCh381598,648,539 - 98,964,530 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371599,191,768 - 99,507,759 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361597,010,284 - 97,325,282 (+)NCBINCBI36hg18NCBI36
Build 341597,010,287 - 97,319,034NCBI
Celera1575,609,678 - 75,924,704 (+)NCBI
Cytogenetic Map15q26.3NCBI
HuRef1575,320,348 - 75,635,223 (+)NCBIHuRef
CHM1_11599,034,201 - 99,349,171 (+)NCBICHM1_1
Igf1r
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39767,601,486 - 67,883,416 (+)NCBIGRCm39mm39
GRCm39 Ensembl767,602,575 - 67,883,416 (+)Ensembl
GRCm38767,952,257 - 68,233,668 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl767,952,827 - 68,233,668 (+)EnsemblGRCm38mm10GRCm38
MGSCv37775,097,143 - 75,378,553 (+)NCBIGRCm37mm9NCBIm37
MGSCv36767,826,372 - 68,100,293 (+)NCBImm8
Celera765,407,649 - 65,690,413 (+)NCBICelera
Cytogenetic Map7CNCBI
cM Map737.27NCBI
Igf1r
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541626,102,628 - 26,382,666 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541626,101,090 - 26,382,660 (-)NCBIChiLan1.0ChiLan1.0
IGF1R
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11596,576,930 - 96,832,974 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1596,535,164 - 96,832,974 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01577,332,926 - 77,648,474 (+)NCBIMhudiblu_PPA_v0panPan3
IGF1R
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1341,795,337 - 42,096,255 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl341,794,623 - 42,090,387 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha344,494,039 - 44,797,005 (+)NCBI
ROS_Cfam_1.0342,203,106 - 42,506,274 (+)NCBI
UMICH_Zoey_3.1341,727,974 - 42,030,799 (+)NCBI
UNSW_CanFamBas_1.0341,958,900 - 42,261,698 (+)NCBI
UU_Cfam_GSD_1.0342,179,556 - 42,481,580 (+)NCBI
Igf1r
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640141,474,253 - 141,770,018 (-)NCBI
SpeTri2.0NW_0049364834,563,995 - 4,860,231 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
IGF1R
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1137,387,925 - 137,690,666 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11137,383,623 - 137,691,038 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21153,523,944 - 153,853,776 (-)NCBISscrofa10.2Sscrofa10.2susScr3
Pig Cytomap1q17-q21NCBI
IGF1R
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12917,212,206 - 17,534,036 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl2917,459,404 - 17,526,930 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605929,058,966 - 29,370,219 (-)NCBIVero_WHO_p1.0
Igf1r
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247685,396,027 - 5,688,435 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
D1Hmgc5  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21121,550,195 - 121,550,322 (+)MAPPERmRatBN7.2
Rnor_6.01128,924,376 - 128,924,502NCBIRnor6.0
Rnor_5.01129,985,259 - 129,985,385UniSTSRnor5.0
RGSC_v3.41122,704,429 - 122,704,555UniSTSRGSC3.4
Celera1113,751,091 - 113,751,217UniSTS
RH 3.4 Map11447.71UniSTS
RH 3.4 Map11447.71RGD
Cytogenetic Map1q22UniSTS
RH143949  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21121,610,901 - 121,611,031 (+)MAPPERmRatBN7.2
Rnor_6.01128,985,452 - 128,985,581NCBIRnor6.0
Rnor_5.01130,045,545 - 130,045,674UniSTSRnor5.0
RGSC_v3.41122,765,365 - 122,765,494UniSTSRGSC3.4
Celera1113,808,998 - 113,809,127UniSTS
RH 3.4 Map11447.51UniSTS
Cytogenetic Map1q22UniSTS
D1Bda23  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21121,831,389 - 121,831,748 (+)MAPPERmRatBN7.2
Rnor_6.01129,206,658 - 129,207,016NCBIRnor6.0
Rnor_5.01130,265,431 - 130,265,789UniSTSRnor5.0
RGSC_v3.41122,989,611 - 122,989,969UniSTSRGSC3.4
Celera1114,029,488 - 114,029,846UniSTS
Cytogenetic Map1q22UniSTS
BE111364  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21121,617,712 - 121,617,863 (+)MAPPERmRatBN7.2
Rnor_6.01128,992,243 - 128,992,393NCBIRnor6.0
Rnor_5.01130,052,395 - 130,052,545UniSTSRnor5.0
RGSC_v3.41122,772,244 - 122,772,394UniSTSRGSC3.4
Celera1113,815,808 - 113,815,958UniSTS
RH 3.4 Map11447.01UniSTS
Cytogenetic Map1q22UniSTS
RH135226  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21121,678,712 - 121,678,905 (+)MAPPERmRatBN7.2
Rnor_6.01129,053,503 - 129,053,695NCBIRnor6.0
Rnor_5.01130,113,131 - 130,113,323UniSTSRnor5.0
RGSC_v3.41122,832,903 - 122,833,095UniSTSRGSC3.4
Celera1113,877,067 - 113,877,259UniSTS
RH 3.4 Map11447.21UniSTS
Cytogenetic Map1q22UniSTS
BE119057  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21121,585,764 - 121,585,920 (+)MAPPERmRatBN7.2
Rnor_6.01128,960,536 - 128,960,691NCBIRnor6.0
Rnor_5.01130,020,629 - 130,020,784UniSTSRnor5.0
RGSC_v3.41122,740,218 - 122,740,373UniSTSRGSC3.4
Celera1113,786,256 - 113,786,411UniSTS
RH 3.4 Map11450.09UniSTS
Cytogenetic Map1q22UniSTS
BM384925  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21121,668,713 - 121,668,915 (+)MAPPERmRatBN7.2
Rnor_6.01129,043,490 - 129,043,691NCBIRnor6.0
Rnor_5.01130,103,642 - 130,103,843UniSTSRnor5.0
RGSC_v3.41122,823,240 - 122,823,441UniSTSRGSC3.4
Celera1113,866,780 - 113,866,981UniSTS
RH 3.4 Map11445.91UniSTS
Cytogenetic Map1q22UniSTS
Igf1r  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21121,767,509 - 121,767,639 (+)MAPPERmRatBN7.2
Rnor_6.01129,142,678 - 129,142,807NCBIRnor6.0
Rnor_5.01130,201,338 - 130,201,467UniSTSRnor5.0
RGSC_v3.41122,924,226 - 122,924,355UniSTSRGSC3.4
Celera1113,965,994 - 113,966,123UniSTS
Cytogenetic Map1q22UniSTS
GDB:187366  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21121,550,241 - 121,550,343 (+)MAPPERmRatBN7.2
Rnor_6.01128,924,422 - 128,924,523NCBIRnor6.0
Rnor_5.01129,985,305 - 129,985,406UniSTSRnor5.0
RGSC_v3.41122,704,475 - 122,704,576UniSTSRGSC3.4
Celera1113,751,137 - 113,751,238UniSTS
Cytogenetic Map1q22UniSTS
TAMU_PKR0001  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21121,787,521 - 121,787,702 (+)MAPPERmRatBN7.2
Rnor_6.01129,162,783 - 129,162,963NCBIRnor6.0
Rnor_5.01130,221,443 - 130,221,623UniSTSRnor5.0
RGSC_v3.41122,944,321 - 122,944,501UniSTSRGSC3.4
Celera1113,985,952 - 113,986,132UniSTS
Cytogenetic Map1q22UniSTS
IGF1R  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21121,787,521 - 121,787,702 (+)MAPPERmRatBN7.2
Rnor_6.01129,162,783 - 129,162,963NCBIRnor6.0
Rnor_5.01130,221,443 - 130,221,623UniSTSRnor5.0
RGSC_v3.41122,944,321 - 122,944,501UniSTSRGSC3.4
Celera1113,985,952 - 113,986,132UniSTS
Cytogenetic Map1q22UniSTS
Igf1r  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21121,603,353 - 121,603,746 (+)MAPPERmRatBN7.2
Rnor_6.01128,978,121 - 128,978,513NCBIRnor6.0
Rnor_5.01130,038,214 - 130,038,606UniSTSRnor5.0
RGSC_v3.41122,757,817 - 122,758,209UniSTSRGSC3.4
Celera1113,801,551 - 113,801,943UniSTS
Cytogenetic Map1q22UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70209Niddm23Non-insulin dependent diabetes mellitus QTL 232.82blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)194494440198324465Rat
70225Bp58Blood pressure QTL 583.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)132356093162846471Rat
631199Cm23Cardiac mass QTL 234.60.0004heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)1115585465172949803Rat
631205Bp196Blood pressure QTL 19640.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1118944897199050459Rat
2298545Neuinf8Neuroinflammation QTL 84.6nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)157336763151090257Rat
61442Strs1Sensitivity to stroke QTL 17.4cerebrum integrity trait (VT:0010549)post-insult time to onset of cerebrovascular lesion (CMO:0002343)1121767634166767634Rat
724521Uae1Urinary albumin excretion QTL 13.80.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)190508614173018436Rat
724529Cm16Cardiac mass QTL 162.7heart mass (VT:0007028)calculated heart weight (CMO:0000073)187580395150700247Rat
724567Tcas6Tongue tumor susceptibility QTL 66.85tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)192948896144267916Rat
1331749Hrtrt11Heart rate QTL 112.973heart pumping trait (VT:2000009)heart rate (CMO:0000002)194494440198211706Rat
1331751Bp199Blood pressure QTL 1993.60022arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)194494440181830018Rat
631569Bp93Blood pressure QTL 930.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1106047847121834139Rat
1331793Bp200Blood pressure QTL 2003.71601arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)194494440172949803Rat
1582234Gluco18Glucose level QTL 183.40.0003blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)178479925123479925Rat
2303591Gluco41Glucose level QTL 412blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1102168504147168504Rat
1578654Bss10Bone structure and strength QTL 104femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)149393172159356837Rat
2317833Alcrsp19Alcohol response QTL 1912.40.001response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)1100979852145979852Rat
731168Bp154Blood pressure QTL 1543.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)194642722214537671Rat
738022Anxrr13Anxiety related response QTL 134.60.00039locomotor behavior trait (VT:0001392)number of 20 x 20 cm floor squares crossed into, out of or within a discrete space in an experimental apparatus (CMO:0001514)183547917128547917Rat
631496Bp97Blood pressure QTL 973.08arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1106047847151047847Rat
1300153Bp171Blood pressure QTL 1713.37arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)190664883143200202Rat
1302788Scl19Serum cholesterol QTL 194.60.001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)190532338123479925Rat
1641897Alcrsp1Alcohol response QTL 1response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)1100979852145979852Rat
1598850Bp297Blood pressure QTL 2972.1arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1121006655166006655Rat
1598866Bp287Blood pressure QTL 2875.1arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1121006655166006655Rat
634314Niddm44Non-insulin dependent diabetes mellitus QTL 44blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)149393289199050459Rat
1578780Cm52Cardiac mass QTL 523.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)181591954219808434Rat
2313402Anxrr24Anxiety related response QTL 24aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)148963584144267916Rat
1300158Bp173Blood pressure QTL 1733.48arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)1115540693185145286Rat
1354591Cm36Cardiac mass QTL 364.1heart left ventricle mass (VT:0007031)calculated heart weight (CMO:0000073)1102813953201278233Rat
1354606Bp246Blood pressure QTL 2463.6arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)1102813953218753816Rat
1354615Cm32Cardiac mass QTL 325.2heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)1102813953201278233Rat
1354623Rf46Renal function QTL 463.8blood creatinine amount (VT:0005328)plasma creatinine level (CMO:0000537)1102813953151162766Rat
1358192Ept13Estrogen-induced pituitary tumorigenesis QTL 133.4pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)177494165122494165Rat
2313060Bss71Bone structure and strength QTL 712.60.0001long bone metaphysis morphology trait (VT:0000133)tibia midshaft total cross-sectional area (CMO:0001715)1118944747163944747Rat
1358902Bw47Body weight QTL 471.67body mass (VT:0001259)body weight (CMO:0000012)190508614180359386Rat
1358359Sradr1Stress Responsive Adrenal Weight QTL 14.74adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)130882023123479925Rat
2293140Bp313Blood pressure QTL 313arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1121833674166833674Rat
2293142Bp314Blood pressure QTL 314arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)192184926137184926Rat
61344Bp29Blood pressure QTL 297.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)178350581123350581Rat
61346Rf2Renal disease susceptibility QTL 23.7urine protein amount (VT:0005160)urine protein level (CMO:0000591)199267916144267916Rat
61370Mcs3Mammary carcinoma susceptibility QTL 32.15mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1102268556147268556Rat
61399Tcat1Tongue tumor resistance QTL 13.3tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 5 mm (CMO:0001879)199267916144267916Rat
4889494Scort2Serum corticosterone level QTL 24.2blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)180592172125592172Rat
8655649Arrd1Age-related retinal degeneration QTL 14.89retinal layer morphology trait (VT:0003727)percentage of study population developing retinopathy during a period of time (CMO:0002453)1100357752183970443Rat
7794788Mcs32Mammary carcinoma susceptibility QTL 322.61mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)1115540693238914717Rat
9590300Scort16Serum corticosterone level QTL 164.390.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)1103111621148111621Rat
7411712Strs4Sensitivity to stroke QTL 48.7cerebrum integrity trait (VT:0010549)percentage of study population developing cerebrovascular lesions during a period of time (CMO:0000932)178430536123430536Rat
7421630Bp362Blood pressure QTL 3620.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1118608292241799120Rat
8694370Bw154Body weight QTL 1548.910.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)1103111621148111621Rat
10054135Gmadr2Adrenal mass QTL 21.970.0129adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)177857876122857876Rat
10059597Bp377Blood pressure QTL 3773.420.025arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)132737458199368955Rat


Related Rat Strains
The following Strains have been annotated to Igf1r

miRNA Target Status

Confirmed Target Of
miRNA GeneMature miRNAMethod NameResult TypeData TypeSupport TypePMID
Mir378rno-miR-378a-3pMirtarbaseexternal_infoLuciferase reporter assay//Northern blot//qRT-PCR/Functional MTI22367207

Predicted Target Of
Summary Value
Count of predictions:42
Count of miRNA genes:36
Interacting mature miRNAs:37
Transcripts:ENSRNOT00000019267
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

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

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


Expression


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 24 17 2 9 2 1 1 49 31 34 8 1
Low 3 19 32 31 10 31 7 10 25 4 7 3 7
Below cutoff 8 8 8

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000019267   ⟹   ENSRNOP00000019267
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1121,550,743 - 121,831,777 (+)Ensembl
Rnor_6.0 Ensembl1128,924,966 - 129,206,516 (+)Ensembl
RefSeq Acc Id: NM_052807   ⟹   NP_434694
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21121,550,741 - 121,831,786 (+)NCBI
Rnor_6.01128,924,921 - 129,207,054 (+)NCBI
Rnor_5.01129,985,761 - 130,272,589 (+)NCBI
RGSC_v3.41122,704,976 - 122,990,007 (+)RGD
Celera1113,751,636 - 114,029,884 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006229324   ⟹   XP_006229386
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21121,549,843 - 121,838,545 (+)NCBI
Rnor_6.01128,924,921 - 129,213,816 (+)NCBI
Rnor_5.01129,985,761 - 130,272,589 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008759500   ⟹   XP_008757722
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21121,549,842 - 121,838,545 (+)NCBI
Rnor_6.01128,924,923 - 129,213,816 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039102217   ⟹   XP_038958145
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21121,549,841 - 121,838,545 (+)NCBI
RefSeq Acc Id: XM_039102225   ⟹   XP_038958153
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21121,549,839 - 121,801,744 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_434694   ⟸   NM_052807
- Peptide Label: precursor
- UniProtKB: P24062 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006229386   ⟸   XM_006229324
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_008757722   ⟸   XM_008759500
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000019267   ⟸   ENSRNOT00000019267
RefSeq Acc Id: XP_038958153   ⟸   XM_039102225
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038958145   ⟸   XM_039102217
- Peptide Label: isoform X3
Transcriptome

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

Promoters
RGD ID:13690112
Promoter ID:EPDNEW_R635
Type:single initiation site
Name:Igf1r_1
Description:insulin-like growth factor 1 receptor
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_6.01128,924,935 - 128,924,995EPDNEW

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)
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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)
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)
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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
MR/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
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MWF/Hsd (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
PVG/Seac (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
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
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