Egr1 (early growth response 1) - Rat Genome Database
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Gene: Egr1 (early growth response 1) Rattus norvegicus
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Symbol: Egr1
Name: early growth response 1
RGD ID: 2544
Description: Exhibits several functions, including DNA-binding transcription activator activity, RNA polymerase II-specific; RNA polymerase II core promoter sequence-specific DNA binding activity; and promoter-specific chromatin binding activity. Involved in several processes, including cellular response to organonitrogen compound; positive regulation of macromolecule metabolic process; and regulation of synaptic plasticity. Localizes to cytoplasm and nucleus. Biomarker of several diseases, including liver cirrhosis; lung disease (multiple); middle cerebral artery infarction; pulmonary hypertension; and visual epilepsy. Human ortholog(s) of this gene implicated in asthma. Orthologous to human EGR1 (early growth response 1); PARTICIPATES IN long term potentiation; prion disease pathway; INTERACTS WITH (+)-pilocarpine; (R)-noradrenaline; (S)-amphetamine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: early growth response protein 1; EGR-1; Krox-24; Nerve growth factor-induced gene; nerve growth factor-induced protein A; Ngf1; Ngfi; NGFI-A; transcription factor Zif268; zif-268; zinc finger protein Krox-24
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21826,463,333 - 26,465,531 (+)NCBI
Rnor_6.0 Ensembl1827,657,628 - 27,661,429 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01827,657,903 - 27,660,101 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01827,369,518 - 27,371,716 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41827,343,919 - 27,346,117 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11827,370,212 - 27,373,998 (+)NCBI
Celera1826,200,028 - 26,202,226 (+)NCBICelera
RH 3.4 Map18367.2RGD
Cytogenetic Map18p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
adult respiratory distress syndrome  (ISO)
Alzheimer's disease  (ISO)
aortic valve stenosis  (ISO)
arteriosclerosis  (ISO)
asthma  (ISO)
autoimmune disease  (ISO)
brain ischemia  (ISO)
breast cancer  (IEP,ISO)
bronchiolo-alveolar adenocarcinoma  (ISO)
bronchitis  (ISO)
carcinoma  (ISO)
Cardiomegaly  (ISO)
cholangitis  (ISO)
cholestasis  (ISO)
chronic obstructive pulmonary disease  (ISO)
Cocaine-Related Disorders  (IEP,ISO)
congenital hypothyroidism  (IEP)
Decompression Sickness  (IEP)
Drug-Induced Dyskinesia  (IEP)
duodenal ulcer  (ISO)
endometriosis  (IEP)
epilepsy  (ISO)
Experimental Melanoma  (ISO)
Fetal Hypoxia  (IDA)
fibrosarcoma  (ISO)
Graft Occlusion, Vascular  (IMP)
Heart Block  (ISO)
hepatocellular carcinoma  (ISO)
Hereditary Neoplastic Syndromes  (ISO)
Human Influenza  (ISO)
Huntington's disease  (ISO)
hydronephrosis  (ISO)
Hypoxia  (ISO)
Hypoxia-Ischemia, Brain  (IEP)
Immediate Hypersensitivity  (ISO)
Inflammation  (ISO)
Intimal Hyperplasia  (IMP)
intrahepatic cholestasis  (ISO)
ischemia  (ISO)
juvenile rheumatoid arthritis  (ISO)
liver cirrhosis  (IEP)
lung disease  (IEP,ISO)
Lung Neoplasms  (ISO)
lung non-small cell carcinoma  (ISO)
Lung Reperfusion Injury  (IEP,IMP)
Memory Disorders  (IEP)
Mesothelioma  (ISO)
middle cerebral artery infarction  (IEP)
myelodysplastic syndrome  (ISS)
myeloid neoplasm  (ISO)
Nasal Polyps  (ISO)
Neurodevelopmental Disorders  (ISO)
osteoarthritis  (ISO)
osteosarcoma  (ISO)
pancreatitis  (IEP)
Perennial Allergic Rhinitis  (ISO)
pneumonia  (ISO)
Prostatic Neoplasms  (ISO)
pulmonary emphysema  (ISO)
pulmonary fibrosis  (ISO)
pulmonary hypertension  (IEP,ISO)
pulmonary sarcoidosis  (ISO)
Reperfusion Injury  (IEP,ISO)
silicosis  (IEP)
Spinal Cord Compression  (IEP)
squamous cell carcinoma  (ISO)
T-Cell Lymphoma  (ISO)
Tendon Injuries  (IDA)
Tissue Adhesions  (IEP)
visual epilepsy  (IEP)

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-pilocarpine  (EXP)
(-)-anisomycin  (ISO)
(-)-citrinin  (ISO)
(-)-demecolcine  (ISO)
(-)-epigallocatechin 3-gallate  (ISO)
(20R)-protopanaxadiol  (ISO)
(R)-noradrenaline  (EXP)
(S)-amphetamine  (EXP)
(S)-nicotine  (EXP,ISO)
1,10-phenanthroline  (ISO)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (EXP,ISO)
1-methyl-4-phenyl-1,2,3,6-tetrahydropyridine  (ISO)
1-naphthyl isothiocyanate  (EXP,ISO)
1-nitropyrene  (ISO)
13-HPODE  (EXP)
15-deoxy-Delta(12,14)-prostaglandin J2  (EXP)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (EXP,ISO)
17beta-hydroxy-5alpha-androstan-3-one  (ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (EXP)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4,6-trinitrotoluene  (EXP)
2,4-dinitrotoluene  (EXP)
2,6-dichloroindophenol  (ISO)
2,6-dinitrotoluene  (EXP)
2-(4-iodo-2,5-dimethoxyphenyl)-1-methylethylamine  (ISO)
2-acetamidofluorene  (EXP)
2-acetyl-1-alkyl-sn-glycero-3-phosphocholine  (ISO)
2-butoxyethanol  (ISO)
2-methylcholine  (ISO)
22-Hydroxycholesterol  (ISO)
3',5'-cyclic AMP  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3,3',5,5'-tetrabromobisphenol A  (ISO)
3,4-dichloroaniline  (EXP)
3,4-methylenedioxymethamphetamine  (ISO)
3-[3-(tert-butylsulfanyl)-1-(4-chlorobenzyl)-5-(propan-2-yl)-1H-indol-2-yl]-2,2-dimethylpropanoic acid  (EXP)
3-\{1-[3-(dimethylamino)propyl]-1H-indol-3-yl\}-4-(1H-indol-3-yl)-1H-pyrrole-2,5-dione  (ISO)
3-chloropropane-1,2-diol  (EXP)
3-cyanoalanine  (ISO)
3-phenylprop-2-enal  (ISO)
3H-1,2-dithiole-3-thione  (EXP)
4,4'-diaminodiphenylmethane  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroperoxycyclophosphamide  (ISO)
4-nitrotoluene  (ISO)
5-aza-2'-deoxycytidine  (ISO)
5-chloro-7-iodoquinolin-8-ol  (ISO)
5-fluorouracil  (ISO)
6-propyl-2-thiouracil  (EXP)
7,12-dimethyltetraphene  (EXP)
8-Br-cAMP  (ISO)
acetaldehyde  (ISO)
acetylsalicylic acid  (EXP)
acrolein  (ISO)
acrylamide  (ISO)
actinomycin D  (EXP)
afimoxifene  (ISO)
aflatoxin B1  (EXP,ISO)
aflatoxin B2  (ISO)
AH23848  (ISO)
aldehydo-D-glucose  (ISO)
all-trans-retinoic acid  (ISO)
amiodarone  (ISO)
ammonium chloride  (EXP)
amphetamine  (EXP)
amphibole asbestos  (ISO)
anthra[1,9-cd]pyrazol-6(2H)-one  (ISO)
antirheumatic drug  (ISO)
arachidonic acid  (ISO)
aripiprazole  (EXP)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (EXP,ISO)
ATP  (EXP)
atrazine  (EXP)
atropine  (EXP)
Aurin  (ISO)
Azaspiracid  (ISO)
azathioprine  (ISO)
bazedoxifene  (ISO)
benzalkonium chloride  (ISO)
benzene  (EXP,ISO)
benzene-1,2,4-triol  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
benzo[b]fluoranthene  (ISO)
Benzoyl peroxide  (ISO)
beta-naphthoflavone  (EXP)
betamethasone  (ISO)
bexarotene  (EXP)
bis(2-chloroethyl) sulfide  (ISO)
bis(2-ethylhexyl) phthalate  (EXP,ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
bleomycin A2  (ISO)
bortezomib  (ISO)
buta-1,3-diene  (ISO)
butan-1-ol  (ISO)
butanal  (ISO)
butyric acid  (EXP)
cadmium atom  (ISO)
cadmium dichloride  (EXP,ISO)
caffeine  (EXP,ISO)
Calcimycin  (ISO)
calcitriol  (ISO)
calcium atom  (ISO)
calcium(0)  (ISO)
camostat  (ISO)
cannabidiol  (ISO)
capsaicin  (EXP)
carbon monoxide  (ISO)
carbon nanotube  (ISO)
carbonyl cyanide p-trifluoromethoxyphenylhydrazone  (ISO)
carbonyl sulfide  (EXP)
carrageenan  (ISO)
cefaloridine  (EXP)
chenodeoxycholic acid  (ISO)
chlornitrofen  (EXP)
chloropicrin  (ISO)
chloroprene  (ISO)
chlorpromazine  (EXP)
chlorpyrifos  (EXP,ISO)
choline  (EXP,ISO)
chromium(6+)  (ISO)
ciguatoxin CTX1B  (ISO)
cis-caffeic acid  (ISO)
cisplatin  (ISO)
clofibrate  (EXP,ISO)
clozapine  (EXP)
cobalt atom  (EXP)
cobalt dichloride  (EXP)
cocaine  (EXP,ISO)
colforsin daropate hydrochloride  (ISO)
copper atom  (EXP,ISO)
copper(0)  (EXP,ISO)
copper(II) chloride  (ISO)
copper(II) sulfate  (ISO)
coumestrol  (ISO)
crocidolite asbestos  (ISO)
CU-O LINKAGE  (ISO)
curcumin  (EXP,ISO)
cycloheximide  (ISO)
cyclophosphamide  (EXP,ISO)
cyclosporin A  (EXP,ISO)
cylindrospermopsin  (ISO)
cypermethrin  (ISO)
D-cycloserine  (EXP)
D-glucose  (ISO)
D-penicillamine  (EXP,ISO)
DDT  (EXP,ISO)
deoxycholic acid  (ISO)
deoxynivalenol  (ISO)
desipramine  (EXP)
dexamethasone  (EXP,ISO)
diarsenic trioxide  (EXP,ISO)
diazinon  (ISO)
dibenz[a,h]anthracene  (ISO)
dibutyl phthalate  (EXP,ISO)
dichlorine  (EXP)
dichloroacetic acid  (ISO)
dichloromethane  (ISO)
diclofenac  (ISO)
dicrotophos  (ISO)
dieldrin  (ISO)
diethylstilbestrol  (ISO)
dihydroartemisinin  (ISO)
dimethyl sulfoxide  (EXP)
dimethylarsinic acid  (ISO)
dimethylarsinous acid  (ISO)
dinophysistoxin 1  (ISO)
dioxygen  (EXP,ISO)
diquat  (ISO)
disodium selenite  (EXP,ISO)
disulfiram  (ISO)
divanadium pentaoxide  (ISO)
donepezil hydrochloride  (ISO)
doramapimod  (ISO)
dorsomorphin  (ISO)
doxorubicin  (EXP,ISO)
elemental selenium  (EXP)
emodin  (EXP)
endosulfan  (EXP,ISO)
enniatin  (ISO)
Enterolactone  (ISO)
entinostat  (ISO)
epoxiconazole  (EXP)
estriol  (EXP)
ethanol  (EXP,ISO)
ethyl methanesulfonate  (ISO)
ethylene glycol bis(2-aminoethyl)tetraacetic acid  (ISO)
Ethylenethiourea  (EXP,ISO)
eugenol  (ISO)
ferric oxide  (ISO)
flavonoids  (EXP)
fluoranthene  (ISO)
fluoxetine  (EXP)
folic acid  (ISO)
folpet  (ISO)
formaldehyde  (ISO)
fulvestrant  (ISO)
furan  (ISO)
gamma-aminobutyric acid  (EXP)
gamma-hexachlorocyclohexane  (EXP)
gamma-tocopherol  (ISO)
gemcitabine  (ISO)
genistein  (EXP,ISO)
glucose  (ISO)
glycine betaine  (EXP)
glyphosate  (ISO)
haloperidol  (EXP,ISO)
hydrogen peroxide  (EXP,ISO)
hydroxytyrosol  (ISO)
indole-3-methanol  (EXP)
indometacin  (ISO)
ionomycin  (ISO)
irinotecan  (EXP,ISO)
iron atom  (EXP)
iron(0)  (EXP)
iron(2+) sulfate (anhydrous)  (ISO)
isobutanol  (ISO)
isoprenaline  (EXP,ISO)
juglone  (ISO)
kainic acid  (EXP,ISO)
kojic acid  (EXP)
L-methionine  (ISO)
lanthanum atom  (EXP)
lead diacetate  (EXP)
lead(0)  (EXP)
lead(2+)  (EXP)
leflunomide  (ISO)
lipopolysaccharide  (EXP,ISO)
luteolin  (ISO)
manganese(II) chloride  (EXP,ISO)
MeIQx  (ISO)
menadione  (ISO)
mercury dichloride  (EXP)
metformin  (EXP)
methamphetamine  (EXP,ISO)
methotrexate  (ISO)
methyl methanesulfonate  (ISO)
methylarsonic acid  (ISO)
methylisothiazolinone  (ISO)
methylmercury chloride  (ISO)
methylmercury(1+)  (EXP)
methylparaben  (ISO)
methylphenidate  (EXP)
methylseleninic acid  (ISO)
miconazole  (ISO)
microcystin-LR  (ISO)
mifepristone  (ISO)
mitomycin C  (ISO)
mitoxantrone  (ISO)
mono(2-ethylhexyl) phthalate  (EXP,ISO)
monocrotaline  (ISO)
morphine  (ISO)
N,N,N',N'-tetrakis(2-pyridylmethyl)ethylenediamine  (ISO)
N-[2-(4-bromocinnamylamino)ethyl]isoquinoline-5-sulfonamide  (EXP)
N-acetyl-L-cysteine  (EXP,ISO)
N-methyl-4-phenylpyridinium  (EXP,ISO)
N-methyl-N'-nitro-N-nitrosoguanidine  (ISO)
N-nitrosodiethylamine  (EXP,ISO)
N-nitrosomorpholine  (EXP)
N-Nitrosopyrrolidine  (ISO)
N1'-[2-[[5-[(dimethylamino)methyl]-2-furanyl]methylthio]ethyl]-N1-methyl-2-nitroethene-1,1-diamine  (EXP)
naltrexone  (ISO)
nickel atom  (EXP)
nickel dichloride  (EXP)
nickel subsulfide  (ISO)
nickel sulfate  (ISO)
niclosamide  (ISO)
nicotine  (EXP,ISO)
nimodipine  (ISO)
nitrofen  (EXP)
Norbinaltorphimine  (ISO)
NS-398  (ISO)
O-acetyl-L-carnitine  (EXP)
O-methyleugenol  (ISO)
okadaic acid  (ISO)
orphenadrine  (EXP)
oxaliplatin  (EXP)
oxazepam  (ISO)
oxidopamine  (EXP)
ozone  (EXP)
p-chloromercuribenzoic acid  (ISO)
paracetamol  (EXP,ISO)
paraquat  (ISO)
PD 0325901  (EXP,ISO)
pentanal  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (ISO)
permethrin  (EXP)
phenanthrene  (ISO)
phenethyl isothiocyanate  (ISO)
phenformin  (EXP)
phenobarbital  (ISO)
phenylephrine  (EXP,ISO)
phenytoin  (ISO)
PhIP  (ISO)
phorbol 13-acetate 12-myristate  (EXP,ISO)
phosgene  (ISO)
pirenzepine  (EXP)
pirinixic acid  (EXP,ISO)
platycodin D  (ISO)
poly(I:C)  (EXP,ISO)
potassium atom  (EXP)
potassium chromate  (ISO)
potassium cyanide  (EXP)
potassium dichromate  (ISO)
pregnenolone 16alpha-carbonitrile  (EXP)
progesterone  (EXP,ISO)
propiconazole  (ISO)
propranolol  (EXP)
protein kinase inhibitor  (EXP)
pyrrolidine dithiocarbamate  (ISO)
quartz  (ISO)
quercetin  (EXP,ISO)
quinolin-8-ol  (ISO)
quinpirole  (EXP)
raloxifene  (ISO)
ranitidine  (EXP)
razoxane  (ISO)
reactive oxygen species  (ISO)
reserpine  (EXP)
resveratrol  (EXP,ISO)
riddelliine  (EXP)
rifampicin  (ISO)
risperidone  (EXP)
ropinirole  (EXP)
rotenone  (EXP,ISO)
S-butyl-DL-homocysteine (S,R)-sulfoximine  (EXP)
sanguinarine  (ISO)
SB 203580  (EXP,ISO)
SB 431542  (ISO)
SCH 23390  (EXP)
scopolamine  (EXP,ISO)
selenium atom  (EXP)
serpentine asbestos  (ISO)
sevoflurane  (EXP)
silibinin  (ISO)
silicon dioxide  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
simvastatin  (ISO)
SKF 38393  (EXP)
SL-327  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sodium atom  (ISO)
sodium azide  (EXP)
sodium chloride  (EXP)
sodium dichromate  (EXP,ISO)
sodium dodecyl sulfate  (ISO)
sodium tungstate  (EXP)
Soman  (EXP)
styrene  (ISO)
succimer  (ISO)
sulfasalazine  (ISO)
sulindac sulfide  (ISO)
sulprostone  (ISO)
sunitinib  (ISO)
tacrolimus hydrate  (EXP)
tamoxifen  (EXP,ISO)
taurocholic acid  (ISO)
tert-butyl hydroperoxide  (ISO)
Tesaglitazar  (EXP)
testosterone  (ISO)
tetrachloromethane  (ISO)
tetrodotoxin  (ISO)
thapsigargin  (ISO)
thioacetamide  (EXP)
titanium dioxide  (EXP,ISO)
tocopherol  (ISO)
topotecan  (EXP)
trans-caffeic acid  (ISO)
tranylcypromine  (EXP)
triacsin C  (ISO)
triadimefon  (ISO)
tributylstannane  (ISO)
Tributyltin oxide  (EXP)
trichloroethene  (EXP,ISO)
trichostatin A  (ISO)
triphenyl phosphate  (EXP)
Triton X-100  (ISO)
troglitazone  (EXP,ISO)
tropan-3alpha-yl 3-hydroxy-2-phenylpropanoate  (EXP)
tungsten  (EXP,ISO)
tunicamycin  (ISO)
tyrphostin AG 1478  (ISO)
urethane  (ISO)
ursodeoxycholic acid  (EXP)
valdecoxib  (EXP)
valproic acid  (EXP,ISO)
valsartan  (ISO)
vancomycin  (ISO)
vecuronium bromide  (ISO)
vinclozolin  (EXP)
vincristine  (ISO)
vitamin E  (EXP,ISO)
vorinostat  (ISO)
xanomeline  (EXP)
zidovudine  (ISO)
zinc atom  (ISO)
zinc molecular entity  (ISO)
zinc pyrithione  (ISO)
zinc(0)  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
BMP signaling pathway  (IEA,ISO)
cellular response to antibiotic  (IEP)
cellular response to cAMP  (IEP)
cellular response to drug  (IEP)
cellular response to follicle-stimulating hormone stimulus  (IEP)
cellular response to gamma radiation  (IEA,ISO)
cellular response to gonadotropin stimulus  (IEP)
cellular response to growth factor stimulus  (IEP)
cellular response to heparin  (IDA)
cellular response to hyperoxia  (IEP)
cellular response to hypoxia  (IEP)
cellular response to insulin stimulus  (IEP)
cellular response to interleukin-8  (IEA,ISO,ISS)
cellular response to isoquinoline alkaloid  (IEP)
cellular response to mechanical stimulus  (IEP)
cellular response to mycophenolic acid  (IDA)
cellular response to organic substance  (ISO)
cellular response to steroid hormone stimulus  (IEP)
circadian regulation of gene expression  (IEA,ISO,ISS)
circadian rhythm  (IEP)
circadian temperature homeostasis  (IEA,ISO,ISS)
estrous cycle  (IEA,ISO,ISS)
glomerular mesangial cell proliferation  (IMP)
interleukin-1-mediated signaling pathway  (IEA,ISO)
learning or memory  (IEP,IMP)
locomotor rhythm  (IEA,ISO,ISS)
long-term memory  (IMP)
long-term synaptic potentiation  (IEP)
negative regulation of canonical Wnt signaling pathway  (IEA,ISO)
negative regulation of transcription by RNA polymerase II  (IEA,ISO)
oligodendrocyte differentiation  (IEP)
positive regulation of cell death  (IMP)
positive regulation of chemokine production  (IEA,ISO,ISS)
positive regulation of gene expression  (IMP,ISO)
positive regulation of glomerular metanephric mesangial cell proliferation  (IMP)
positive regulation of hormone biosynthetic process  (IEA,ISO,ISS)
positive regulation of interleukin-1 beta production  (IEA,ISO,ISS)
positive regulation of neuron apoptotic process  (IMP)
positive regulation of neuron death  (IGI)
positive regulation of pri-miRNA transcription by RNA polymerase II  (IEA,ISO)
positive regulation of smooth muscle cell migration  (IMP)
positive regulation of smooth muscle cell proliferation  (IMP)
positive regulation of tau-protein kinase activity  (IGI)
positive regulation of transcription by RNA polymerase II  (IC,IDA,IMP,ISO)
positive regulation of transcription, DNA-templated  (IMP,ISO)
regulation of apoptotic process  (IEA,ISO)
regulation of long-term neuronal synaptic plasticity  (IMP)
regulation of progesterone biosynthetic process  (IEA,ISO,ISS)
regulation of protein sumoylation  (IEA,ISO)
regulation of transcription by RNA polymerase II  (IBA)
regulation of transcription from RNA polymerase II promoter in response to hypoxia  (IEA,ISO)
regulation of transcription, DNA-templated  (ISO)
response to amphetamine  (IEP)
response to carbon monoxide  (IEP)
response to cocaine  (IEP)
response to drug  (IEP)
response to electrical stimulus  (IEP)
response to ethanol  (IEP)
response to follicle-stimulating hormone  (IEP)
response to glucose  (IEA,ISO)
response to gonadotropin  (IEP)
response to hypoxia  (ISO,ISS)
response to insulin  (IEA,ISO)
response to ischemia  (IDA,IEA,ISO)
response to norepinephrine  (IEP)
response to nutrient levels  (IEP)
skeletal muscle cell differentiation  (IEA,ISO)
T cell differentiation  (IEA,ISO)
wound healing  (IEP)

Cellular Component
chromatin  (IBA,IEA,ISO)
cytoplasm  (IDA,IEA,ISO)
nucleoplasm  (IEA,ISO,TAS)
nucleus  (IDA,ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
1. Adams LD, etal., Arterioscler Thromb Vasc Biol 1999 Nov;19(11):2600-8.
2. Alfonso-Jaume MA, etal., Biochem J. 2004 Jun 15;380(Pt 3):735-47.
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Additional References at PubMed
PMID:1662794   PMID:2492104   PMID:3672127   PMID:7720589   PMID:8336701   PMID:8413279   PMID:8668170   PMID:8703054   PMID:8769660   PMID:10875238   PMID:11100120   PMID:11848443  
PMID:11973468   PMID:12025859   PMID:12074899   PMID:12165491   PMID:12399226   PMID:12531532   PMID:12560508   PMID:12631347   PMID:12683942   PMID:12689920   PMID:12709512   PMID:12798262  
PMID:14522979   PMID:14739302   PMID:15073322   PMID:15140465   PMID:15247255   PMID:15378512   PMID:15381251   PMID:15466317   PMID:15496936   PMID:15501594   PMID:15564589   PMID:15710241  
PMID:15905107   PMID:15927552   PMID:15958557   PMID:16033766   PMID:16087718   PMID:16110275   PMID:16248890   PMID:16484680   PMID:16545374   PMID:16580571   PMID:16761102   PMID:16839341  
PMID:16926376   PMID:17015857   PMID:17202132   PMID:17497096   PMID:17671844   PMID:17698419   PMID:17762190   PMID:17822405   PMID:17900634   PMID:17917080   PMID:17952413   PMID:18093743  
PMID:18247371   PMID:18281035   PMID:18323529   PMID:18364083   PMID:18385988   PMID:18485334   PMID:18550051   PMID:18555615   PMID:18571897   PMID:18587494   PMID:18606818   PMID:18612190  
PMID:18717731   PMID:18718911   PMID:19057511   PMID:19088446   PMID:19144181   PMID:19171159   PMID:19249349   PMID:19270309   PMID:19307576   PMID:19419424   PMID:19464153   PMID:19505043  
PMID:19681663   PMID:19710510   PMID:19721135   PMID:19723547   PMID:19769948   PMID:19835936   PMID:19847159   PMID:19910692   PMID:20018936   PMID:20025889   PMID:20363028   PMID:20417179  
PMID:20457228   PMID:20534729   PMID:20535567   PMID:20546710   PMID:20592749   PMID:20615913   PMID:20651841   PMID:20654701   PMID:20921194   PMID:21141532   PMID:21187408   PMID:21357543  
PMID:21368226   PMID:21507338   PMID:21559360   PMID:21624330   PMID:21737703   PMID:21777515   PMID:22056598   PMID:22143198   PMID:22147266   PMID:22390138   PMID:22431737   PMID:22488213  
PMID:22577133   PMID:22593050   PMID:22597533   PMID:22826348   PMID:23181383   PMID:23277542   PMID:23373701   PMID:23435960   PMID:23460384   PMID:23632436   PMID:23660497   PMID:23763269  
PMID:23873727   PMID:23973447   PMID:24028087   PMID:24244514   PMID:24365880   PMID:24534707   PMID:24613747   PMID:24704997   PMID:24976583   PMID:25028387   PMID:25139489   PMID:25201174  
PMID:25239865   PMID:25249385   PMID:25258363   PMID:25258388   PMID:26238574   PMID:26279418   PMID:26282370   PMID:26471974   PMID:26546817   PMID:26547966   PMID:26778782   PMID:26972614  
PMID:27057945   PMID:27078100   PMID:27190312   PMID:27233617   PMID:27576688   PMID:27697743   PMID:27816701   PMID:28076410   PMID:28105751   PMID:28125090   PMID:28187447   PMID:28266660  
PMID:28391399   PMID:28460186   PMID:28673338   PMID:28736133   PMID:28814471   PMID:28862251   PMID:28866293   PMID:29138967   PMID:29355377   PMID:29452227   PMID:29481791   PMID:30024615  
PMID:30050950   PMID:30346189   PMID:30550948   PMID:30887692   PMID:31131895   PMID:31539105   PMID:31719567   PMID:32731408  


Genomics

Comparative Map Data
Egr1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21826,463,333 - 26,465,531 (+)NCBI
Rnor_6.0 Ensembl1827,657,628 - 27,661,429 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01827,657,903 - 27,660,101 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01827,369,518 - 27,371,716 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41827,343,919 - 27,346,117 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11827,370,212 - 27,373,998 (+)NCBI
Celera1826,200,028 - 26,202,226 (+)NCBICelera
RH 3.4 Map18367.2RGD
Cytogenetic Map18p12NCBI
EGR1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl5138,465,479 - 138,469,303 (+)EnsemblGRCh38hg38GRCh38
GRCh385138,465,479 - 138,469,303 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh375137,801,168 - 137,804,992 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 365137,829,080 - 137,832,903 (+)NCBINCBI36hg18NCBI36
Build 345137,829,079 - 137,832,903NCBI
Celera5133,922,029 - 133,925,852 (+)NCBI
Cytogenetic Map5q31.2NCBI
HuRef5132,991,746 - 132,995,569 (+)NCBIHuRef
CHM1_15137,233,931 - 137,237,754 (+)NCBICHM1_1
Egr1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391834,994,260 - 34,998,009 (+)NCBIGRCm39mm39
GRCm39 Ensembl1834,992,876 - 34,998,037 (+)Ensembl
GRCm381834,861,207 - 34,864,956 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1834,859,823 - 34,864,984 (+)EnsemblGRCm38mm10GRCm38
MGSCv371835,020,861 - 35,024,610 (+)NCBIGRCm37mm9NCBIm37
MGSCv361834,987,181 - 34,990,930 (+)NCBImm8
Celera1835,315,402 - 35,319,152 (+)NCBICelera
Cytogenetic Map18B1NCBI
cM Map1818.76NCBI
Egr1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554182,002,699 - 2,005,007 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554182,001,509 - 2,005,269 (-)NCBIChiLan1.0ChiLan1.0
EGR1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.15139,975,635 - 139,979,259 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl5139,975,635 - 139,979,260 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v05133,845,305 - 133,849,291 (+)NCBIMhudiblu_PPA_v0panPan3
EGR1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl1126,046,228 - 26,048,575 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.11126,046,195 - 26,049,806 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Egr1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049365317,625,956 - 7,629,041 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
EGR1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl2140,441,421 - 140,445,296 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.12140,440,829 - 140,445,302 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.22146,156,073 - 146,159,945 (+)NCBISscrofa10.2Sscrofa10.2susScr3
EGR1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12341,139,636 - 41,143,598 (+)NCBI
Egr1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474331,247,855 - 31,251,675 (+)NCBI

Position Markers
RH94738  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01827,660,614 - 27,660,806NCBIRnor6.0
Rnor_5.01827,372,229 - 27,372,421UniSTSRnor5.0
RGSC_v3.41827,346,630 - 27,346,822UniSTSRGSC3.4
Celera1826,202,739 - 26,202,931UniSTS
RH 3.4 Map18367.2UniSTS
Cytogenetic Map18qUniSTS
PMC165967P1  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01827,657,125 - 27,657,515NCBIRnor6.0
Rnor_5.01827,368,740 - 27,369,130UniSTSRnor5.0
RGSC_v3.41827,343,141 - 27,343,531UniSTSRGSC3.4
Celera1826,199,250 - 26,199,640UniSTS
Cytogenetic Map18qUniSTS
PMC165967P2  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01827,659,352 - 27,659,639NCBIRnor6.0
Rnor_5.01827,370,967 - 27,371,254UniSTSRnor5.0
RGSC_v3.41827,345,368 - 27,345,655UniSTSRGSC3.4
Celera1826,201,477 - 26,201,764UniSTS
Cytogenetic Map18qUniSTS
PMC165967P3  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01827,660,080 - 27,660,506NCBIRnor6.0
Rnor_5.01827,371,695 - 27,372,121UniSTSRnor5.0
RGSC_v3.41827,346,096 - 27,346,522UniSTSRGSC3.4
Celera1826,202,205 - 26,202,631UniSTS
Cytogenetic Map18qUniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61388Bp2Blood pressure QTL 23.23arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)18135097280Rat
2300180Bmd67Bone mineral density QTL 674.80.0001femur mineral mass (VT:0010011)bone mineral density (CMO:0001226)18138195967Rat
2293661Bss50Bone structure and strength QTL 504.640.0003lumbar vertebra size trait (VT:0010518)lumbar vertebra trabecular cross-sectional area (CMO:0001692)18138195967Rat
9589153Insul31Insulin level QTL 317.150.05blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)18138753381Rat
2312598Bp340Blood pressure QTL 3400.05arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)18371954732487870Rat
2299160Iddm35Insulin dependent diabetes mellitus QTL 352.79blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)18440751362570466Rat
2312568Glom21Glomerulus QTL 2120.005kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)18543013441781619Rat
2313082Bss85Bone structure and strength QTL 850.80.0001long bone metaphysis morphology trait (VT:0000133)tibia midshaft total cross-sectional area (CMO:0001715)181467885259678852Rat
631264Scl22Serum cholesterol level QTL 226.2blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)181553296332704022Rat
61382Bp46Blood pressure QTL 4618.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)181553296332704022Rat
1331766Bp236Blood pressure QTL 2363.022arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)181553942732670473Rat
1331753Bp231Blood pressure QTL 2313.643arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)181553942753861431Rat
1358358Sradr6Stress Responsive Adrenal Weight QTL 62.49adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)181553942761499684Rat
2301410Bp317Blood pressure QTL 3170.004arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)181553955127743236Rat
12904690Cm129Cardiac mass QTL 1290.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)181553955127743236Rat
12904689Cm128Cardiac mass QTL 1280.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)181553955127743236Rat
12904693Am20Aortic mass QTL 200.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)181553955127743236Rat
12904695Kidm73Kidney mass QTL 730.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)181553955127743236Rat
12904691Cm130Cardiac mass QTL 1300.001heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)181553955127743236Rat
12904680Bw189Body weight QTL 1890.019body mass (VT:0001259)body weight (CMO:0000012)181553955127743236Rat
61375Bp41Blood pressure QTL 412.4blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)181553967129530300Rat
6903359Bp355Blood pressure QTL 3553.6arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)181553967161985648Rat
2293708Bss46Bone structure and strength QTL 468.80.0001lumbar vertebra morphology trait (VT:0010494)lumbar vertebra cortical cross-sectional area (CMO:0001690)181569587268524999Rat
1578661Bss20Bone structure and strength QTL 203.7femur morphology trait (VT:0000559)femoral neck cross-sectional area (CMO:0001697)181569587287080053Rat
1578667Bss21Bone structure and strength QTL 213.5femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)181569587287080053Rat
1358193Emca2Estrogen-induced mammary cancer QTL 21.6mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)181903103068436105Rat
1331775Bp235Blood pressure QTL 2353.201arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)181925171732670473Rat
1331735Rf44Renal function QTL 442.981total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)181925171732670473Rat
1600373Mamtr6Mammary tumor resistance QTL 6mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)182028575887080053Rat
7387267Uae42Urinary albumin excretion QTL 420.61urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)142163949166639491Rat
1331741Bp232Blood pressure QTL 2323.59112arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)182260373687074531Rat
6903353Bp353Blood pressure QTL 3532.8arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)182260476461985648Rat
1641923Colcr8Colorectal carcinoma resistance QTL 83.10.0014intestine integrity trait (VT:0010554)poorly differentiated malignant colorectal tumor number (CMO:0002076)182318422753861431Rat
1331733Bp233Blood pressure QTL 2333.97196arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)182596102681761656Rat
2325839Bp348Blood pressure QTL 3480.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)182674340443659626Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:168
Count of miRNA genes:116
Interacting mature miRNAs:147
Transcripts:ENSRNOT00000026303
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 3 24 25 21 8 21 21 22 24 4
Low 19 31 19 11 19 8 11 53 13 15 7 8
Below cutoff 1 1 1 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000026303   ⟹   ENSRNOP00000026303
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1827,657,628 - 27,661,429 (+)Ensembl
RefSeq Acc Id: NM_012551   ⟹   NP_036683
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21826,463,333 - 26,465,531 (+)NCBI
Rnor_6.01827,657,903 - 27,660,101 (+)NCBI
Rnor_5.01827,369,518 - 27,371,716 (+)NCBI
RGSC_v3.41827,343,919 - 27,346,117 (+)RGD
Celera1826,200,028 - 26,202,226 (+)RGD
Sequence:
Reference Sequences
RefSeq Acc Id: NP_036683   ⟸   NM_012551
- UniProtKB: P08154 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000026303   ⟸   ENSRNOT00000026303
Protein Domains
C2H2-type

Transcriptome

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

Promoters
RGD ID:13700702
Promoter ID:EPDNEW_R11226
Type:single initiation site
Name:Egr1_1
Description:early growth response 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01827,657,538 - 27,657,598EPDNEW

Strain Variation

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