Adipoq (adiponectin, C1Q and collagen domain containing) - Rat Genome Database

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Gene: Adipoq (adiponectin, C1Q and collagen domain containing) Rattus norvegicus
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Symbol: Adipoq
Name: adiponectin, C1Q and collagen domain containing
RGD ID: 628748
Description: Enables identical protein binding activity. Involved in several processes, including cellular response to organonitrogen compound; positive regulation of glycogen (starch) synthase activity; and positive regulation of protein phosphorylation. Located in extracellular space. Part of protein-containing complex. Used to study brain infarction. Biomarker of several diseases, including end stage renal disease; fatty liver disease (multiple); glucose metabolism disease (multiple); hyperthyroidism; and obesity. Human ortholog(s) of this gene implicated in several diseases, including carcinoma (multiple); cardiovascular system disease (multiple); non-alcoholic fatty liver disease; primary open angle glaucoma; and type 2 diabetes mellitus. Orthologous to human ADIPOQ (adiponectin, C1Q and collagen domain containing); PARTICIPATES IN adiponectin signaling pathway; eicosanoid signaling pathway via peroxisome proliferator-activated receptor gamma; type 2 diabetes mellitus pathway; INTERACTS WITH (+)-catechin; (+)-schisandrin B; (R)-carnitine.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: Acdc; Acrp30; Adid; adipocyte complement related protein of 30 kDa; adiponectin; adiponectin d
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: Adipoqm1Mcwi   Adipoqm2Mcwi   Adipoqm3Mcwi   Adipoqem1Mcwi   Adipoqem2Mcwi  
Genetic Models: FHH-Adipoqm3Mcwi FHH-Adipoqm2Mcwi FHH-Adipoqm1Mcwi SS-Adipoqem1Mcwi SS-Adipoqem2Mcwi
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21177,721,912 - 77,735,644 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1177,721,912 - 77,735,564 (-)Ensembl
Rnor_6.01181,330,845 - 81,344,488 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1181,330,293 - 81,344,488 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01184,363,940 - 84,382,663 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41179,908,291 - 79,911,065 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11179,965,888 - 79,968,654 (-)NCBI
Celera1176,596,543 - 76,599,824 (-)NCBICelera
Cytogenetic Map11q23NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
3MC syndrome 1  (ISO)
Acute Lung Injury  (ISO)
Alcoholic Fatty Liver  (ISO)
Alzheimer's disease  (ISO)
amyloidosis  (ISO)
ankylosing spondylitis  (ISO)
asthma  (ISO)
atherosclerosis  (ISO)
autoimmune hepatitis  (ISO)
Behcet's disease  (ISO)
biliary atresia  (ISO)
bipolar disorder  (ISO)
brain infarction  (IDA)
breast cancer  (ISO)
cardiomyopathy  (ISO)
cardiovascular system disease  (ISO)
Chemical and Drug Induced Liver Injury  (ISO)
Choroidal Neovascularization  (IDA,IEP,ISO)
Chronic Hepatitis C  (ISO)
chronic obstructive pulmonary disease  (ISO)
Cognitive Dysfunction  (ISO)
colitis  (IEP,ISO)
congestive heart failure  (ISO)
coronary aneurysm  (ISO)
coronary artery disease  (ISO)
Coronary Disease  (ISO)
coronary restenosis  (ISO)
Crohn's disease  (ISO)
dementia  (ISO)
diabetes mellitus  (ISO)
Diabetic Cardiomyopathies  (IEP)
Diabetic Foot  (ISO)
Diabetic Nephropathies  (ISO)
diabetic retinopathy  (ISO)
diffuse scleroderma  (ISO)
dry eye syndrome  (ISO)
end stage renal disease  (IEP,ISO)
Endotoxemia  (IEP)
Experimental Arthritis  (IEP,ISO)
Experimental Autoimmune Myocarditis  (ISO)
Experimental Diabetes Mellitus  (IEP,ISO)
Experimental Liver Cirrhosis  (ISO)
familial hyperlipidemia  (IEP)
familial Mediterranean fever  (ISO)
fatty liver disease  (IEP,ISO)
Fetal Growth Retardation  (IEP)
gestational diabetes  (IEP,ISO)
Graft vs Host Disease  (ISO)
Graves' disease  (ISO)
hepatocellular carcinoma  (ISO)
heroin dependence  (ISO)
HIV-Associated Lipodystrophy Syndrome  (ISO)
Human Viral Hepatitis  (ISO)
Huntington's disease  (ISO)
Hyperemia  (ISO)
hyperglycemia  (ISO)
hyperinsulinism  (IEP)
hypertension  (ISO)
hyperthyroidism  (IEP)
Hypertriglyceridemia  (ISO)
Hypoadiponectinemia  (ISO)
Inflammation  (ISO)
inflammatory bowel disease  (ISO)
Insulin Resistance  (IEP,ISO)
Jaundice  (ISO)
Kawasaki disease  (ISO)
Kidney Reperfusion Injury  (ISO)
Left Ventricular Hypertrophy  (ISO)
liver cirrhosis  (ISO)
Liver Reperfusion Injury  (IDA)
Mammary Neoplasms, Experimental  (IEP,ISO)
Masked Hypertension  (ISO)
Metabolic Syndrome  (ISO)
multiple sclerosis  (ISO)
Mycobacterium avium complex disease  (ISO)
myocardial infarction  (IEP)
Myocardial Ischemia  (ISO)
Myocardial Reperfusion Injury  (ISO)
myocarditis  (ISO)
non-alcoholic fatty liver disease  (IEP,ISO)
obesity  (IEP,ISO)
Oxygen-Induced Retinopathy  (ISO)
Perennial Allergic Rhinitis  (ISO)
peripheral artery disease  (ISO)
polycystic ovary syndrome  (ISO)
primary open angle glaucoma  (ISO)
proliferative diabetic retinopathy  (ISO)
prostate adenocarcinoma  (ISO)
pulmonary edema  (ISO)
pulmonary emphysema  (ISO)
pulmonary fibrosis  (ISO)
pulmonary hypertension  (ISO)
pulmonary tuberculosis  (ISO)
renal cell carcinoma  (ISO)
Reperfusion Injury  (IMP)
Rett syndrome  (ISO)
rheumatoid arthritis  (ISO)
Sepsis  (IEP,ISO)
sleep apnea  (ISO)
Spinal Cord Injuries  (ISO)
Stroke  (ISO)
Subarachnoid Hemorrhage  (ISO)
systemic lupus erythematosus  (ISO)
tongue squamous cell carcinoma  (ISO)
type 1 diabetes mellitus  (ISO)
type 2 diabetes mellitus  (IEP,ISO)
ulcerative colitis  (ISO)
vascular disease  (ISO)
visual epilepsy  (ISO)
Weight Gain  (ISO)
Weight Loss  (ISO)

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-catechin  (EXP)
(+)-schisandrin B  (EXP)
(R)-carnitine  (EXP)
(R)-lipoic acid  (EXP)
17alpha-ethynylestradiol  (EXP,ISO)
17alpha-hydroxyprogesterone  (ISO)
17beta-estradiol  (EXP,ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (EXP,ISO)
2,2',5,5'-tetrachlorobiphenyl  (ISO)
2,2'-Dihydroxy-4-methoxybenzophenone  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
2-amino-2-deoxy-D-glucopyranose  (EXP,ISO)
2-butoxyethanol  (ISO)
2-deoxy-D-glucose  (ISO)
3',5'-cyclic AMP  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (EXP,ISO)
3,3',4,4'-tetrachlorobiphenyl  (ISO)
3,3',5,5'-tetrabromobisphenol A  (ISO)
3,3',5-triiodo-L-thyronine  (ISO)
3,4-methylenedioxymethamphetamine  (ISO)
3-aminobenzamide  (EXP,ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4'-Methoxychalcone  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-methylumbelliferone  (ISO)
4-nonylphenol  (EXP)
5,6,7,8-tetrahydrobiopterin  (EXP)
5-(2-chloroethyl)-4-methylthiazole  (ISO)
[6]-Shogaol  (ISO)
acarbose  (EXP)
acetaldehyde  (ISO)
aflatoxin B1  (ISO)
AICA ribonucleotide  (EXP,ISO)
aldehydo-D-glucosamine  (EXP,ISO)
aldehydo-D-glucose  (EXP,ISO)
allopurinol  (EXP)
Aloe emodin  (ISO)
amlodipine  (ISO)
ammonium chloride  (EXP)
amphetamine  (EXP)
anthra[1,9-cd]pyrazol-6(2H)-one  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
atorvastatin calcium  (ISO)
avobenzone  (ISO)
benzamides  (ISO)
benzbromarone  (ISO)
benzene  (ISO)
benzo[a]pyrene  (EXP,ISO)
benzo[b]fluoranthene  (ISO)
Benzyl parahydroxybenzoate  (ISO)
berberine  (ISO)
beta-carotene  (ISO)
beta-D-glucosamine  (EXP,ISO)
beta-hexachlorocyclohexane  (ISO)
bezafibrate  (ISO)
bis(2-chloroethyl) sulfide  (EXP)
bis(2-ethylhexyl) phthalate  (EXP,ISO)
bisphenol A  (EXP,ISO)
Bisphenol A diglycidyl ether  (ISO)
bongkrekic acid  (ISO)
boric acid  (ISO)
Butylbenzyl phthalate  (ISO)
Butylparaben  (ISO)
cadmium dichloride  (ISO)
calcitriol  (ISO)
candesartan  (ISO)
capsaicin  (ISO)
capsazepine  (ISO)
carbon monoxide  (EXP)
carbon nanotube  (ISO)
carvacrol  (EXP)
carvedilol  (ISO)
cilazapril monohydrate  (ISO)
cimetidine  (ISO)
clozapine  (EXP,ISO)
cobalt dichloride  (ISO)
conjugated linoleic acid  (EXP,ISO)
copper atom  (EXP)
copper(0)  (EXP)
corticosterone  (ISO)
cortisol  (ISO)
cortisone  (ISO)
cucurbitacin B  (ISO)
cucurbitacin I  (EXP)
curcumin  (EXP,ISO)
cyclosporin A  (EXP)
cyproterone acetate  (ISO)
cytarabine  (ISO)
D-glucose  (EXP,ISO)
DDE  (ISO)
deoxycholic acid  (ISO)
Deoxycorticosterone acetate  (EXP)
dexamethasone  (EXP,ISO)
dexamethasone phosphate  (ISO)
diarsenic trioxide  (ISO)
dibenziodolium  (EXP,ISO)
dicamba  (ISO)
diethyl sulfate  (ISO)
diethylstilbestrol  (EXP)
dioxygen  (ISO)
disodium cromoglycate  (ISO)
disodium selenite  (ISO)
diuron  (EXP)
dorsomorphin  (EXP,ISO)
doxorubicin  (ISO)
efavirenz  (ISO)
enalapril  (ISO)
equilin  (ISO)
ethanol  (EXP,ISO)
ethylparaben  (ISO)
fenofibrate  (ISO)
flavonoids  (EXP)
fructose  (EXP,ISO)
furan  (EXP)
Ganoderic acid A  (ISO)
gemcitabine  (ISO)
geraniol  (EXP)
gingerol  (ISO)
ginsenoside Re  (ISO)
glucagon  (ISO)
glucose  (EXP,ISO)
glycine  (ISO)
graphite  (ISO)
GW 6471  (ISO)
GW 7647  (ISO)
hemin  (EXP)
hesperetin  (ISO)
hexadecanoic acid  (EXP,ISO)
hispidulin  (ISO)
hydrochlorothiazide  (ISO)
hydrogen peroxide  (ISO)
hydroxytyrosol  (ISO)
Indeno[1,2,3-cd]pyrene  (ISO)
indinavir  (ISO)
indometacin  (ISO)
iron dextran  (ISO)
isoflavones  (EXP)
lamivudine  (ISO)
lead diacetate  (EXP)
letrozole  (EXP)
levonorgestrel  (ISO)
linoleic acid  (ISO)
lipoic acid  (EXP)
lipopolysaccharide  (EXP,ISO)
liraglutide  (ISO)
lopinavir  (ISO)
losartan  (ISO)
lovastatin  (ISO)
LY294002  (EXP)
manganese(II) chloride  (EXP)
melatonin  (ISO)
Melengestrol acetate  (ISO)
mercury dichloride  (EXP)
metformin  (EXP,ISO)
methamphetamine  (ISO)
mifepristone  (ISO)
mono(2-ethylhexyl) phthalate  (ISO)
monocrotophos  (EXP)
monosodium L-glutamate  (ISO)
morin  (EXP)
N-acetyl-L-cysteine  (EXP)
naproxen  (ISO)
naringin  (ISO)
nelfinavir  (ISO)
nevirapine  (ISO)
nicotinamide  (EXP,ISO)
nicotinic acid  (EXP,ISO)
nitrofen  (EXP)
Nonylphenol  (EXP,ISO)
norethisterone  (ISO)
norgestrel  (ISO)
nuarimol  (ISO)
octadecanoic acid  (ISO)
olanzapine  (ISO)
oleic acid  (EXP)
oleuropein  (EXP)
orientin  (ISO)
orlistat  (EXP,ISO)
oxybenzone  (ISO)
ozone  (EXP,ISO)
paraquat  (ISO)
paricalcitol  (ISO)
PCB138  (ISO)
pencycuron  (ISO)
perfluorooctanoic acid  (ISO)
phenobarbital  (ISO)
Phenylamil  (ISO)
phosphatidylcholine  (ISO)
picolinic acid  (EXP)
pioglitazone  (EXP,ISO)
piperine  (EXP)
pirinixic acid  (ISO)
pluronic P-123  (EXP)
Poloxamer  (EXP)
prednisone  (ISO)
prochloraz  (ISO)
progesterone  (ISO)
propylparaben  (ISO)
protein kinase inhibitor  (ISO)
quercetin  (EXP,ISO)
raffinose  (ISO)
raloxifene  (ISO)
ramipril  (ISO)
reactive oxygen species  (ISO)
resveratrol  (EXP,ISO)
retinyl acetate  (ISO)
rimonabant  (ISO)
risperidone  (ISO)
ritonavir  (ISO)
rotenone  (EXP)
Rutamarin  (ISO)
ruthenium red  (ISO)
salicylic acid  (EXP)
sapropterin  (EXP)
saquinavir  (ISO)
sarpogrelate  (ISO)
SB 203580  (EXP,ISO)
scopoletin  (EXP)
serpentine asbestos  (ISO)
sildenafil citrate  (ISO)
silicon dioxide  (ISO)
simvastatin  (EXP,ISO)
sodium arsenite  (ISO)
Sodium oleate  (ISO)
spironolactone  (EXP,ISO)
stavudine  (ISO)
stilben-4-ol  (ISO)
streptozocin  (EXP,ISO)
sulforaphane  (ISO)
telmisartan  (ISO)
Tesaglitazar  (EXP)
testosterone  (EXP,ISO)
tetrachloromethane  (EXP,ISO)
Thiocarbohydrazide  (ISO)
titanium dioxide  (ISO)
toluene  (ISO)
tolylfluanid  (ISO)
topiramate  (ISO)
triamcinolone  (ISO)
tributylstannane  (EXP,ISO)
trichloroethene  (ISO)
triclosan  (ISO)
triflumizole  (ISO)
triphenyl phosphate  (ISO)
triptonide  (ISO)
troglitazone  (EXP,ISO)
tungsten  (ISO)
tunicamycin  (ISO)
umbelliferone  (ISO)
valproic acid  (ISO)
vanadium atom  (ISO)
vanadium(0)  (ISO)
vanadyl sulfate  (ISO)
vinclozolin  (EXP)
vitamin E  (EXP)
warfarin  (EXP)
XL147  (ISO)
zidovudine  (ISO)
zinc molecular entity  (EXP)
zinc protoporphyrin  (EXP,ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
brown fat cell differentiation  (ISO,ISS)
cellular response to cAMP  (IDA)
cellular response to epinephrine stimulus  (IDA)
cellular response to insulin stimulus  (IDA,ISO,ISS)
cellular response to xenobiotic stimulus  (ISO,ISS)
circadian rhythm  (IEP)
detection of oxidative stress  (ISO,ISS)
fatty acid beta-oxidation  (ISO,ISS)
fatty acid oxidation  (ISO,ISS,NAS)
gene expression  (ISO)
glucose homeostasis  (ISO,ISS)
glucose metabolic process  (ISO,ISS)
low-density lipoprotein particle clearance  (ISO,ISS)
negative regulation of blood pressure  (ISO,ISS)
negative regulation of cell migration  (ISO,ISS)
negative regulation of cold-induced thermogenesis  (ISO,ISS)
negative regulation of DNA biosynthetic process  (ISO,ISS)
negative regulation of ERK1 and ERK2 cascade  (ISO,ISS)
negative regulation of fat cell differentiation  (ISO,ISS)
negative regulation of gluconeogenesis  (ISO,ISS)
negative regulation of granulocyte differentiation  (ISO,ISS)
negative regulation of heterotypic cell-cell adhesion  (ISO,ISS)
negative regulation of hormone secretion  (IDA)
negative regulation of I-kappaB kinase/NF-kappaB signaling  (ISO,ISS)
negative regulation of inflammatory response  (ISO,ISS)
negative regulation of intracellular protein transport  (ISO,ISS)
negative regulation of low-density lipoprotein receptor activity  (ISO)
negative regulation of macrophage derived foam cell differentiation  (ISO,ISS)
negative regulation of macrophage differentiation  (ISO,ISS)
negative regulation of MAP kinase activity  (ISO,ISS)
negative regulation of metanephric mesenchymal cell migration  (ISO,ISS)
negative regulation of phagocytosis  (ISO,ISS)
negative regulation of platelet-derived growth factor receptor signaling pathway  (ISO,ISS)
negative regulation of platelet-derived growth factor receptor-alpha signaling pathway  (ISO,ISS)
negative regulation of protein autophosphorylation  (ISO,ISS)
negative regulation of receptor binding  (ISO,ISS)
negative regulation of synaptic transmission  (ISO,ISS)
negative regulation of transcription, DNA-templated  (ISO,ISS)
negative regulation of tumor necrosis factor production  (ISO,ISS)
negative regulation of tumor necrosis factor-mediated signaling pathway  (ISO,ISS)
negative regulation of vascular associated smooth muscle cell migration  (ISO,ISS)
negative regulation of vascular associated smooth muscle cell proliferation  (ISO,ISS)
positive regulation of cAMP-dependent protein kinase activity  (ISO,ISS)
positive regulation of cholesterol efflux  (ISO,ISS)
positive regulation of cold-induced thermogenesis  (ISO,ISS)
positive regulation of fatty acid metabolic process  (ISO,ISS)
positive regulation of glucose import  (ISO,ISS)
positive regulation of glycogen (starch) synthase activity  (IDA)
positive regulation of I-kappaB kinase/NF-kappaB signaling  (ISO,ISS)
positive regulation of interleukin-8 production  (ISO,ISS)
positive regulation of lipid transporter activity  (ISO,ISS)
positive regulation of metanephric glomerular visceral epithelial cell development  (ISO,ISS)
positive regulation of monocyte chemotactic protein-1 production  (ISO,ISS)
positive regulation of myeloid cell apoptotic process  (ISO,ISS)
positive regulation of peptidyl-tyrosine phosphorylation  (IDA)
positive regulation of protein kinase A signaling  (ISO,ISS)
positive regulation of protein kinase activity  (IDA)
positive regulation of protein phosphorylation  (ISO,ISS)
positive regulation of renal albumin absorption  (ISO,ISS)
positive regulation of signal transduction  (ISO,ISS)
protein localization to plasma membrane  (ISO,ISS)
regulation of glucose metabolic process  (ISO,ISS)
response to activity  (IEP)
response to bacterium  (ISO)
response to ethanol  (IEP)
response to glucocorticoid  (IEP)
response to glucose  (ISO,ISS)
response to hypoxia  (IEP)
response to linoleic acid  (IEP)
response to nutrient  (IEP)
response to nutrient levels  (IEP)
response to sucrose  (IEP)
response to tumor necrosis factor  (ISO,ISS)
response to xenobiotic stimulus  (IEP)
signal transduction  (IEA)

Cellular Component

Molecular Function

References

References - curated
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Additional References at PubMed
PMID:7592907   PMID:10403784   PMID:10444069   PMID:10604883   PMID:10961870   PMID:10982546   PMID:11222466   PMID:11479628   PMID:12021245   PMID:12032136   PMID:12068289   PMID:12070119  
PMID:12087086   PMID:12151381   PMID:12429872   PMID:12477932   PMID:12540600   PMID:12660872   PMID:12802337   PMID:12898458   PMID:14522956   PMID:14578283   PMID:14617771   PMID:15210937  
PMID:15231994   PMID:15585515   PMID:16218043   PMID:16410364   PMID:16621799   PMID:16733851   PMID:16889803   PMID:17022944   PMID:17292892   PMID:17321040   PMID:17327451   PMID:17327472  
PMID:17418807   PMID:17565119   PMID:17569760   PMID:17643403   PMID:17660720   PMID:17671736   PMID:17690452   PMID:17693256   PMID:17716811   PMID:17906103   PMID:17912467   PMID:18155694  
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PMID:18948398   PMID:19011089   PMID:19073900   PMID:19084046   PMID:19141678   PMID:19356108   PMID:19460854   PMID:19474526   PMID:19523167   PMID:19524870   PMID:19531641   PMID:19633450  
PMID:19855092   PMID:19958641   PMID:20093130   PMID:20094971   PMID:20117976   PMID:20206399   PMID:20206611   PMID:20226796   PMID:20303976   PMID:20600433   PMID:20702148   PMID:20798331  
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PMID:32566092  


Genomics

Comparative Map Data
Adipoq
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21177,721,912 - 77,735,644 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1177,721,912 - 77,735,564 (-)Ensembl
Rnor_6.01181,330,845 - 81,344,488 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1181,330,293 - 81,344,488 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01184,363,940 - 84,382,663 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41179,908,291 - 79,911,065 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11179,965,888 - 79,968,654 (-)NCBI
Celera1176,596,543 - 76,599,824 (-)NCBICelera
Cytogenetic Map11q23NCBI
ADIPOQ
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl3186,842,704 - 186,858,463 (+)EnsemblGRCh38hg38GRCh38
GRCh383186,842,710 - 186,858,463 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh373186,560,499 - 186,576,252 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 363188,043,157 - 188,058,946 (+)NCBINCBI36hg18NCBI36
Build 343188,043,164 - 188,058,952NCBI
Celera3184,996,682 - 185,012,474 (+)NCBI
Cytogenetic Map3q27.3NCBI
HuRef3183,969,546 - 183,985,186 (+)NCBIHuRef
CHM1_13186,523,992 - 186,539,778 (+)NCBICHM1_1
Adipoq
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391622,965,286 - 22,976,718 (+)NCBIGRCm39mm39
GRCm39 Ensembl1622,965,286 - 22,976,778 (+)Ensembl
GRCm381623,146,536 - 23,157,968 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1623,146,536 - 23,158,028 (+)EnsemblGRCm38mm10GRCm38
MGSCv371623,146,609 - 23,158,041 (+)NCBIGRCm37mm9NCBIm37
MGSCv361623,061,870 - 23,073,302 (+)NCBImm8
Celera1623,704,853 - 23,716,285 (+)NCBICelera
Cytogenetic Map16B1NCBI
cM Map1613.96NCBI
Adipoq
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542020,912,348 - 20,914,402 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495542020,911,181 - 20,922,992 (-)NCBIChiLan1.0ChiLan1.0
ADIPOQ
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.13192,341,471 - 192,354,885 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3192,341,320 - 192,354,885 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v03183,876,051 - 183,889,723 (+)NCBIMhudiblu_PPA_v0panPan3
ADIPOQ
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13419,398,310 - 19,410,519 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3419,354,825 - 19,409,844 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3423,492,088 - 23,493,907 (+)NCBI
ROS_Cfam_1.03419,309,590 - 19,321,861 (+)NCBI
UMICH_Zoey_3.13419,349,075 - 19,350,894 (+)NCBI
UNSW_CanFamBas_1.03419,348,981 - 19,350,799 (+)NCBI
UU_Cfam_GSD_1.03419,582,218 - 19,584,037 (+)NCBI
Adipoq
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405602117,076,470 - 117,087,548 (-)NCBI
SpeTri2.0NW_0049365783,168,599 - 3,179,369 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ADIPOQ
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13124,633,684 - 124,646,648 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113124,633,906 - 124,646,237 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213134,076,753 - 134,077,342 (-)NCBISscrofa10.2Sscrofa10.2susScr3
ADIPOQ
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11581,128,427 - 81,142,779 (+)NCBI
ChlSab1.1 Ensembl1581,129,795 - 81,147,391 (+)Ensembl
Vero_WHO_p1.0NW_02366604154,621,772 - 54,634,568 (+)NCBI
Adipoq
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473069,941,963 - 69,959,266 (-)NCBI

Position Markers
AI176736  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21177,722,028 - 77,722,124 (+)MAPPERmRatBN7.2
Rnor_6.01181,330,962 - 81,331,057NCBIRnor6.0
Rnor_5.01184,364,057 - 84,364,152UniSTSRnor5.0
RGSC_v3.41327,240,254 - 27,240,348UniSTSRGSC3.4
RGSC_v3.41179,907,901 - 79,907,996UniSTSRGSC3.4
Celera1176,596,660 - 76,596,755UniSTS
RH 3.4 Map11643.5UniSTS
Cytogenetic Map11q23UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
724554Iddm17Insulin dependent diabetes mellitus QTL 170.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)111897620886241447Rat
724563Uae10Urinary albumin excretion QTL 106urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)112767241082846715Rat
1300110Stl7Serum triglyceride level QTL 74.64blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)112952841882566702Rat
2298551Neuinf10Neuroinflammation QTL 103.7nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)113123913478851519Rat
70180BpQTLcluster10Blood pressure QTL cluster 103.19arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)113491804179918041Rat
1300135Rf19Renal function QTL 193.38blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)114094618882566702Rat
2312566Glom20Glomerulus QTL 203.60.001kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)114428575982566702Rat
1581565Pur10Proteinuria QTL 100.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)114480331882846466Rat
1581572Uae35Urinary albumin excretion QTL 350.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)114480331882846466Rat
724561Plsm4Polydactyly-luxate syndrome (PLS) morphotypes QTL 40.0003forelimb integrity trait (VT:0010562)front foot phalanges count (CMO:0001947)115445753486241447Rat
4889521Gluco62Glucose level QTL 622.820.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)115513672982993457Rat
7411658Foco27Food consumption QTL 2716.20.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)115635142486241447Rat
631506Bp104Blood pressure QTL 1042.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)115980279482566545Rat
70208Niddm22Non-insulin dependent diabetes mellitus QTL 223.61blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)115980279482566553Rat
10058954Gmadr7Adrenal mass QTL 72.490.0049adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)116034659086241447Rat
1549848Bvd6Brain ventricular dilatation QTL 63.10.0001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)116611332182169223Rat
634339Niddm50Non-insulin dependent diabetes mellitus QTL 503.32blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)116642214886241447Rat
1354593Stl12Serum triglyceride level QTL 123.36blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)116642214886241447Rat
1354656Bvd3Brain ventricular dilatation QTL 33.640.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)116944607082846715Rat
10450831Scl80Serum cholesterol level QTL 804.70.01blood LDL cholesterol amount (VT:0000181)blood low density lipoprotein cholesterol level (CMO:0000053)117695713183051965Rat


Genetic Models
This gene Adipoq is modified in the following models/strains
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:543
Count of miRNA genes:250
Interacting mature miRNAs:295
Transcripts:ENSRNOT00000002492
Prediction methods:Microtar, 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 2 3 15 7 6 6 18 12 8 6
Low 1 40 42 41 12 41 2 5 74 17 29 3 2
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000002492   ⟹   ENSRNOP00000002492
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1177,721,912 - 77,735,564 (-)Ensembl
Rnor_6.0 Ensembl1181,330,845 - 81,344,488 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000089988   ⟹   ENSRNOP00000074467
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1177,722,433 - 77,735,564 (-)Ensembl
Rnor_6.0 Ensembl1181,330,293 - 81,334,120 (-)Ensembl
RefSeq Acc Id: NM_144744   ⟹   NP_653345
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21177,721,912 - 77,735,564 (-)NCBI
Rnor_6.01181,330,845 - 81,344,488 (-)NCBI
Rnor_5.01184,363,940 - 84,382,663 (-)NCBI
RGSC_v3.41179,908,291 - 79,911,065 (-)RGD
Celera1176,596,543 - 76,599,824 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039087986   ⟹   XP_038943914
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21177,721,912 - 77,735,644 (-)NCBI
Protein Sequences
Protein RefSeqs NP_653345 (Get FASTA)   NCBI Sequence Viewer  
  XP_038943914 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH92565 (Get FASTA)   NCBI Sequence Viewer  
  AAK61608 (Get FASTA)   NCBI Sequence Viewer  
  EDL78080 (Get FASTA)   NCBI Sequence Viewer  
  SOR70288 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_653345   ⟸   NM_144744
- Peptide Label: precursor
- UniProtKB: Q8K3R4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000074467   ⟸   ENSRNOT00000089988
RefSeq Acc Id: ENSRNOP00000002492   ⟸   ENSRNOT00000002492
RefSeq Acc Id: XP_038943914   ⟸   XM_039087986
- Peptide Label: isoform X1
Protein Domains
C1q

Transcriptome

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

Promoters
RGD ID:13698244
Promoter ID:EPDNEW_R8769
Type:multiple initiation site
Name:Adipoq_1
Description:adiponectin, C1Q and collagen domain containing
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_6.01181,344,461 - 81,344,521EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BUF/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
DA/OlaHsd (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
F344/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FXLE16/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/FarMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
M520/NRrrcMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MHS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MWF/Hsd (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SBH/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000