Pomc (proopiomelanocortin) - Rat Genome Database

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Gene: Pomc (proopiomelanocortin) Rattus norvegicus
Analyze
Symbol: Pomc
Name: proopiomelanocortin
RGD ID: 3366
Description: Predicted to enable hormone activity and melanocortin receptor binding activity. Predicted to be involved in several processes, including cortisol secretion; positive regulation of neutrophil mediated killing of fungus; and regulation of gene expression. Predicted to act upstream of or within several processes, including positive regulation of cAMP-mediated signaling; regulation of glycogen metabolic process; and response to melanocyte-stimulating hormone. Located in extracellular region. Human ortholog(s) of this gene implicated in familial Mediterranean fever; obesity; and osteoarthritis. Orthologous to human POMC (proopiomelanocortin); PARTICIPATES IN alfentanil pharmacodynamics pathway; altered energy homeostasis pathway; altered melanocortin system pathway; INTERACTS WITH (S)-colchicine; (S)-nicotine; (Z)-hex-3-en-1-ol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: alpha-melanocyte-stimulating hormone; alphaMSH; corticotropin-lipotropin; Pomc1; Pomc2; pro-opiomelanocortin; pro-opiomelanocortin-alpha; proopiomelanocortin (adrenocorticotropin/ beta-lipotropin/ alpha-melanocyte stimulating hormone/ beta-melanocyte stimulating hormone/ beta-endorphin); proopiomelanocortin, beta (endorphin, beta); proopoimelanocortin, beta (endorphin, beta)
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2626,939,844 - 26,945,666 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl626,939,837 - 26,945,664 (+)Ensembl
Rnor_6.0628,382,937 - 28,388,771 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl628,382,962 - 28,388,967 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0638,191,989 - 38,197,809 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4626,931,969 - 26,937,789 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1626,934,921 - 26,940,742 (+)NCBI
Celera626,415,706 - 26,421,526 (+)NCBICelera
RH 3.4 Map6117.99RGD
Cytogenetic Map6q14NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
ACTH Syndrome, Ectopic  (ISO)
acute kidney failure  (ISO)
acute kidney tubular necrosis  (ISO)
Acute Liver Failure  (ISO)
adrenal cortex disease  (ISO)
Adrenal Insufficiency  (ISO)
amnestic disorder  (ISO)
autistic disorder  (ISO)
bipolar disorder  (ISO)
Body Weight  (ISO)
Bradycardia  (ISO)
Burns  (ISO)
calcinosis  (ISO)
Cardiomegaly  (ISO)
cardiomyopathy  (ISO)
Catalepsy  (ISO)
Cerebral Hemorrhage  (ISO)
cerebral palsy  (ISO)
cholestasis  (ISO)
chondrocalcinosis  (ISO)
Cocaine-Related Disorders  (ISO)
congestive heart failure  (ISO)
constipation  (ISO)
Cushing Syndrome  (ISO)
cystitis  (ISO)
diabetes insipidus  (ISO)
diabetes mellitus  (ISO)
disease by infectious agent  (ISO)
disease of mental health  (ISO)
Edema  (ISO)
epilepsy  (ISO)
epilepsy with generalized tonic-clonic seizures  (ISO)
Experimental Liver Cirrhosis  (ISO)
eye disease  (ISO)
Eye Pain  (ISO)
facial paralysis  (ISO)
familial Mediterranean fever  (ISO)
fatty liver disease  (ISO)
Femur Head Necrosis  (ISO)
Fever  (ISO)
Gastrointestinal Diseases  (ISO)
genetic disease  (ISO)
glomerulonephritis  (ISO)
Gouty Arthritis  (ISO)
Hematuria  (ISO)
Hemorrhage  (ISO)
heroin dependence  (ISO)
Hirsutism  (ISO)
Hypercalciuria  (ISO)
Hypernatremia  (ISO)
Hyperphagia  (ISO)
hypertension  (ISO)
hypertrophic cardiomyopathy  (ISO)
Hypocalcemia  (ISO)
hypokalemia  (ISO)
Hypotension  (ISO)
Hypoxia  (ISO)
immune system disease  (ISO)
Inflammation  (ISO)
inflammatory bowel disease  (ISO)
Kidney Calculi  (ISO)
kidney disease  (ISO)
long QT syndrome  (ISO)
melanoma  (ISO)
mental depression  (ISO)
morbid obesity  (ISO)
multiple sclerosis  (ISO)
myasthenia gravis  (ISO)
Myocardial Ischemia  (ISO)
Myoclonic Epilepsies  (ISO)
Nausea  (ISO)
Necrosis  (ISO)
nephrocalcinosis  (ISO)
Neurogenic Inflammation  (ISO)
Nociceptive Pain  (ISO)
obesity  (ISO)
Oliguria  (ISO)
Opsoclonus-Myoclonus Syndrome  (ISO)
osteoarthritis  (ISO)
osteoporosis  (ISO)
Pain  (ISO)
pancreas disease  (ISO)
penile disease  (ISO)
pituitary-dependent Cushing's disease  (ISO)
pneumonia  (ISO)
Postoperative Complications  (ISO)
Proopiomelanocortin Deficiency  (ISO)
proteinuria  (ISO)
Recurrence  (ISO)
renal cell carcinoma  (ISO)
restless legs syndrome  (ISO)
Rhabdomyoma  (ISO)
Sacroiliitis  (ISO)
severe acute respiratory syndrome  (ISO)
sick sinus syndrome  (ISO)
sleep disorder  (ISO)
subvalvular aortic stenosis  (ISO)
synovitis  (ISO)
urinary tract infection  (ISO)
visual epilepsy  (ISO)
Weight Gain  (ISO)
Weight Loss  (ISO)
West syndrome  (ISO)
withdrawal disorder  (ISO)

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-epigallocatechin 3-gallate  (ISO)
(20S)-20-hydroxypregn-4-en-3-one  (ISO)
(S)-colchicine  (EXP)
(S)-nicotine  (EXP,ISO)
(Z)-hex-3-en-1-ol  (EXP)
1,2-dimethylhydrazine  (ISO)
1-[3-(dimethylamino)propyl]-1-(4-fluorophenyl)-1,3-dihydro-2-benzofuran-5-carbonitrile  (ISO)
11-deoxycorticosterone  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (EXP,ISO)
18-Hydroxycortisol  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (EXP)
2,2,3,3,4,4,5,5,6,6,7,7,8,8,9,9-hexadecafluorononanoic acid  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4,6-trinitrobenzenesulfonic acid  (EXP,ISO)
2,4-dinitrotoluene  (EXP)
2-hexenal  (EXP)
20-HETE  (EXP)
3',5'-cyclic AMP  (EXP,ISO)
3',5'-cyclic GMP  (EXP)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3,4-methylenedioxymethamphetamine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
6-propyl-2-thiouracil  (EXP)
7,12-dimethyltetraphene  (EXP)
8-OH-DPAT  (EXP)
acetaldehyde  (EXP)
acetamide  (EXP)
acetylcholine  (EXP)
acrylamide  (ISO)
aflatoxin B1  (EXP)
aflatoxin B2  (ISO)
aldehydo-D-glucose  (EXP,ISO)
aldosterone  (EXP,ISO)
all-trans-retinol  (EXP)
AM-251  (EXP,ISO)
ammonium chloride  (EXP)
apocynin  (EXP)
Aroclor 1254  (EXP)
aspartame  (ISO)
astressin 2B  (EXP)
atorvastatin calcium  (EXP)
atrazine  (EXP)
atropine  (EXP)
Aurothioglucose  (ISO)
benzo[a]pyrene  (EXP,ISO)
beta-hexachlorocyclohexane  (ISO)
bezafibrate  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bis(2-ethylhexyl) phthalate  (EXP)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
bromocriptine  (EXP,ISO)
bucladesine  (ISO)
buspirone  (ISO)
cadmium dichloride  (EXP,ISO)
caffeine  (EXP)
capsaicin  (EXP)
capsazepine  (EXP,ISO)
carbamazepine  (ISO)
celecoxib  (EXP)
chloroquine  (EXP)
chlorpyrifos  (ISO)
citalopram  (ISO)
clofibrate  (ISO)
clonidine  (EXP,ISO)
clonidine (amino form)  (EXP,ISO)
clonidine (imino form)  (EXP,ISO)
cobalt dichloride  (ISO)
cocaine  (EXP,ISO)
corticosterone  (EXP,ISO)
cortisol  (ISO)
cyanamide  (EXP)
cycloheximide  (EXP)
cyclophosphamide  (EXP)
cyproheptadine  (ISO)
D-glucose  (EXP,ISO)
DDE  (ISO)
DDT  (ISO)
deethylatrazine  (EXP)
dehydroepiandrosterone sulfate  (ISO)
deisopropylatrazine  (EXP)
dexamethasone  (EXP,ISO)
dichlorvos  (EXP)
dimethyl sulfoxide  (ISO)
dinitrogen oxide  (EXP)
dioxygen  (EXP)
diprotium oxide  (EXP)
disodium cromoglycate  (EXP)
disulfiram  (EXP)
dizocilpine maleate  (EXP)
dodecane  (EXP)
dopachrome  (ISO)
dopamine  (ISO)
endosulfan  (EXP)
ethanol  (EXP,ISO)
ether  (EXP)
fentanyl  (ISO)
finasteride  (ISO)
fludrocortisone  (ISO)
fluoxetine  (EXP)
fomepizole  (ISO)
formaldehyde  (ISO)
fructose  (EXP)
fulvestrant  (EXP)
gamma-hexachlorocyclohexane  (ISO)
genistein  (ISO)
gentamycin  (EXP)
glucose  (EXP,ISO)
glycerol  (ISO)
GTP  (ISO)
guanosine 5'-[beta,gamma-imido]triphosphate  (ISO)
halothane  (EXP)
herbicide  (EXP)
HET0016  (EXP)
imipramine  (ISO)
indometacin  (EXP)
isoprenaline  (EXP)
ketoconazole  (ISO)
lansoprazole  (ISO)
lead(0)  (ISO)
lead(2+)  (ISO)
lidocaine  (EXP)
linsidomine  (EXP)
lipopolysaccharide  (EXP,ISO)
lithium atom  (ISO)
lithium hydride  (ISO)
lycopene  (EXP)
magnesium atom  (EXP)
melanins  (ISO)
melatonin  (EXP,ISO)
metformin  (ISO)
methamidophos  (EXP)
methyl methanesulfonate  (ISO)
methylmercury chloride  (ISO)
metyrapone  (EXP,ISO)
mifepristone  (EXP)
monosodium L-glutamate  (EXP,ISO)
morphine  (EXP,ISO)
muscimol  (EXP)
N-acetyl-L-cysteine  (ISO)
naloxone  (EXP,ISO)
Naltrindole  (ISO)
naproxen  (EXP)
nickel atom  (EXP)
nicotine  (EXP,ISO)
nitric oxide  (EXP)
nitroprusside  (EXP)
nonane  (EXP)
Nonylphenol  (EXP)
NS-398  (EXP)
olanzapine  (EXP,ISO)
Osajin  (ISO)
oxidopamine  (EXP)
paracetamol  (ISO)
Pentagastrin  (ISO)
pentobarbital  (EXP)
perfluorononanoic acid  (EXP)
perfluorooctane-1-sulfonic acid  (EXP)
perfluorooctanoic acid  (ISO)
phentolamine  (EXP)
phenylarsine oxide  (EXP,ISO)
phenylephrine  (EXP,ISO)
phenylpropanolamine  (EXP)
Pomiferin  (ISO)
potassium atom  (EXP,ISO)
prednisolone  (EXP)
prednisone  (ISO)
progesterone  (ISO)
propazine  (EXP)
pyridoxal 5'-phosphate  (ISO)
quercetin  (ISO)
rabeprazole  (ISO)
reactive nitrogen species  (EXP)
reserpine  (EXP)
resveratrol  (ISO)
Rosavin  (ISO)
ruthenium red  (ISO)
sarin  (EXP)
SB 203580  (EXP)
simazine  (EXP)
sodium atom  (EXP)
sodium chloride  (ISO)
spironolactone  (EXP)
streptozocin  (EXP)
sufentanil  (ISO)
sumatriptan  (EXP,ISO)
superoxide  (EXP)
tetrachloromethane  (ISO)
tetracycline  (ISO)
theophylline  (EXP)
thimerosal  (ISO)
thioacetamide  (ISO)
toluene  (EXP)
triamcinolone  (ISO)
triclosan  (ISO)
trilostane  (ISO)
triphenyl phosphate  (ISO)
triphenylstannane  (EXP)
tropan-3alpha-yl 3-hydroxy-2-phenylpropanoate  (EXP)
urethane  (EXP)
valproic acid  (EXP)
water  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
alfentanil pharmacodynamics pathway  (ISO)
altered energy homeostasis pathway  (ISS)
altered melanocortin system pathway  (ISO,ISS)
bupivacaine pharmacodynamics pathway  (ISO)
buprenorphine pharmacodynamics pathway  (ISO)
chloroprocaine pharmacodynamics pathway  (ISO)
citalopram pharmacodynamics pathway  (ISO)
cocaine pharmacodynamics pathway  (ISO)
codeine and morphine pharmacodynamics pathway  (ISO)
desipramine pharmacodynamics pathway  (ISO)
diphenoxylate pharmacodynamics pathway  (ISO)
escitalopram pharmacodynamics pathway  (ISO)
ethylmorphine pharmacodynamics pathway  (ISO)
fentanyl pharmacodynamics pathway  (ISO)
fluoxetine pharmacodynamics pathway  (ISO)
heroin pharmacodynamics pathway  (ISO)
hydrocodone pharmacodynamics pathway  (ISO)
hydromorphone pharmacodynamics pathway  (ISO)
imipramine pharmacodynamics pathway  (ISO)
levacetylmethadol pharmacodynamics pathway  (ISO)
levobupivacaine phgarmacodynamics pathway  (ISO)
levorphanol pharmacodynamics pathway  (ISO)
lidocaine pharmacodynamics pathway  (ISO)
melanocortin system pathway  (ISO,ISS)
mepivacaine pharmacodynamics pathway  (ISO)
methadone pharmacodynamics pathway  (ISO)
nalbuphine pharmacodynamics pathway  (ISO)
naloxone pharmacodynamics pathway  (ISO)
naltrexone pharmacodynamics pathway  (ISO)
nicotine pharmacodynamics pathway  (ISO)
obesity pathway  (ISO)
oxybuprocaine pharmacodynamics pathway  (ISO)
oxycodone pharmacodynamics pathway  (ISO)
oxymorphone pharmacodynamics pathway  (ISO)
pentazocine pharmacodynamics pathway  (ISO)
prilocaine pharmacodynamics pathway  (ISO)
procaine pharmacodynamics pathway  (ISO)
remifentanil pharmacodynamics pathway  (ISO)
ropivacaine pharmacodynamics pathway  (ISO)
syndecan signaling pathway  (ISO)
tramadol pharmacodynamics pathway  (ISO)

References

References - curated
1. Bettenworth D, etal., Am J Pathol. 2011 Sep;179(3):1230-42. Epub 2011 Jul 8.
2. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
3. Hiltz ME and Lipton JM, FASEB J. 1989 Sep;3(11):2282-4.
4. Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
5. MGD data from the GO Consortium
6. Muffley LA, etal., J Histochem Cytochem. 2011 Mar;59(3):278-88. Epub 2011 Jan 12.
7. OMIM Disease Annotation Pipeline
8. Pipeline to import Pathway Interaction Database annotations from NCI into RGD
9. Pipeline to import SMPDB annotations from SMPDB into RGD
10. Pritchard LE, etal., J Endocrinol 2002 Mar;172(3):411-21.
11. Proulx K, etal., Endocrinology 2002 Dec;143(12):4683-92.
12. Rajora N, etal., Peptides. 1997;18(3):381-5.
13. RGD automated data pipeline
14. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
15. RGD automated import pipeline for gene-chemical interactions
16. RGD comprehensive gene curation
17. Seeley RJ, etal., Annu Rev Nutr 2004;24:133-49.
18. Seo YJ, etal., Arch Pharm Res. 2011 Feb;34(2):269-80. Epub 2011 Mar 6.
19. Seres J, etal., Neuroimmunomodulation. 2004;11(5):316-22.
20. Shen PC, etal., Exp Biol Med (Maywood). 2011 Mar 1;236(3):334-40. Epub 2011 Mar 4.
21. Topaloglu R, etal., Turk J Pediatr. 2010 Nov-Dec;52(6):588-93.
22. Wei L, etal., Biochem Cell Biol. 2010 Aug;88(4):723-30. doi: 10.1139/O10-022.
Additional References at PubMed
PMID:1329576   PMID:2998878   PMID:6255341   PMID:9620771   PMID:10233018   PMID:10670585   PMID:11814629   PMID:12142539   PMID:12372001   PMID:12372003   PMID:12438160   PMID:12477932  
PMID:12586751   PMID:12697721   PMID:12736179   PMID:14561641   PMID:14568996   PMID:14576191   PMID:14630714   PMID:14660008   PMID:15009656   PMID:15019806   PMID:15201064   PMID:15226502  
PMID:15280541   PMID:15283974   PMID:15386812   PMID:15467755   PMID:15472174   PMID:15489638   PMID:15572204   PMID:15585943   PMID:15666806   PMID:16165252   PMID:16210372   PMID:16219686  
PMID:16243970   PMID:16325304   PMID:16584812   PMID:16921546   PMID:17038560   PMID:17068131   PMID:17085933   PMID:17304115   PMID:17341551   PMID:17347308   PMID:17388940   PMID:17505816  
PMID:17531155   PMID:17551755   PMID:17636405   PMID:17936371   PMID:17980426   PMID:18006626   PMID:18292087   PMID:18363807   PMID:18374921   PMID:18384674   PMID:18388149   PMID:18562281  
PMID:18588949   PMID:18712053   PMID:18937973   PMID:18948970   PMID:19017729   PMID:19074588   PMID:19082512   PMID:19088253   PMID:19297540   PMID:19333140   PMID:19390493   PMID:19452503  
PMID:19476550   PMID:19743876   PMID:19934807   PMID:19952342   PMID:19968967   PMID:20071607   PMID:20080115   PMID:20471454   PMID:20619468   PMID:20810565   PMID:21167253   PMID:21179736  
PMID:21184805   PMID:21191001   PMID:21193556   PMID:21291921   PMID:21366729   PMID:21565854   PMID:21589937   PMID:21605503   PMID:21821286   PMID:21855588   PMID:22064014   PMID:22146310  
PMID:22177137   PMID:22403619   PMID:22432124   PMID:22432126   PMID:22450045   PMID:22724395   PMID:22902858   PMID:23050949   PMID:23069669   PMID:23321476   PMID:23413810   PMID:23468969  
PMID:23640796   PMID:23640886   PMID:23735696   PMID:24094067   PMID:24262750   PMID:24635847   PMID:25409090   PMID:25446223   PMID:25595971   PMID:25624461   PMID:26538454   PMID:26702900  
PMID:27503597   PMID:28429261   PMID:29777232   PMID:29943847   PMID:30528733   PMID:31394504   PMID:31691569   PMID:32446530   PMID:32980456   PMID:33338550  


Genomics

Comparative Map Data
Pomc
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2626,939,844 - 26,945,666 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl626,939,837 - 26,945,664 (+)Ensembl
Rnor_6.0628,382,937 - 28,388,771 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl628,382,962 - 28,388,967 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0638,191,989 - 38,197,809 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4626,931,969 - 26,937,789 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1626,934,921 - 26,940,742 (+)NCBI
Celera626,415,706 - 26,421,526 (+)NCBICelera
RH 3.4 Map6117.99RGD
Cytogenetic Map6q14NCBI
POMC
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl225,160,853 - 25,168,903 (-)EnsemblGRCh38hg38GRCh38
GRCh38225,160,860 - 25,168,580 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37225,383,729 - 25,391,449 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36225,237,226 - 25,245,063 (-)NCBINCBI36hg18NCBI36
Build 34225,295,438 - 25,303,103NCBI
Celera225,224,014 - 25,231,854 (-)NCBI
Cytogenetic Map2p23.3NCBI
HuRef225,121,466 - 25,129,306 (-)NCBIHuRef
CHM1_1225,313,607 - 25,321,447 (-)NCBICHM1_1
Pomc
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39124,004,945 - 4,010,643 (+)NCBIGRCm39mm39
GRCm39 Ensembl124,004,951 - 4,010,642 (+)Ensembl
GRCm38123,954,945 - 3,960,643 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl123,954,951 - 3,960,642 (+)EnsemblGRCm38mm10GRCm38
MGSCv37123,954,951 - 3,960,618 (+)NCBIGRCm37mm9NCBIm37
MGSCv36123,954,967 - 3,960,634 (+)NCBImm8
Celera123,882,694 - 3,888,357 (+)NCBICelera
Cytogenetic Map12A1.1NCBI
cM Map121.99NCBI
Pomc
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554697,217,363 - 7,220,386 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554697,217,233 - 7,220,401 (-)NCBIChiLan1.0ChiLan1.0
POMC
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12A25,258,768 - 25,266,806 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2A25,258,768 - 25,262,706 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02A25,161,668 - 25,165,600 (-)NCBIMhudiblu_PPA_v0panPan3
POMC
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11719,431,396 - 19,438,247 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1719,431,585 - 19,434,440 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1719,328,041 - 19,334,822 (-)NCBI
ROS_Cfam_1.01719,706,608 - 19,713,398 (-)NCBI
UMICH_Zoey_3.11719,440,669 - 19,447,445 (-)NCBI
UNSW_CanFamBas_1.01719,450,362 - 19,457,130 (-)NCBI
UU_Cfam_GSD_1.01719,496,844 - 19,503,629 (-)NCBI
Pomc
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440629263,774,289 - 63,781,377 (-)NCBI
SpeTri2.0NW_0049364937,060,747 - 7,065,276 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
POMC
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.13113,661,712 - 113,668,558 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.23120,766,352 - 120,772,976 (+)NCBISscrofa10.2Sscrofa10.2susScr3
POMC
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11482,491,296 - 82,499,289 (+)NCBI
ChlSab1.1 Ensembl1482,494,323 - 82,499,447 (+)Ensembl
Vero_WHO_p1.0NW_02366604529,662,185 - 29,670,382 (-)NCBI
Pomc
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247387,442,223 - 7,448,513 (-)NCBI

Position Markers
RH130758  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2626,945,327 - 26,945,534 (+)MAPPERmRatBN7.2
Rnor_6.0628,388,433 - 28,388,639NCBIRnor6.0
Rnor_5.0638,197,473 - 38,197,679UniSTSRnor5.0
RGSC_v3.4626,937,453 - 26,937,659UniSTSRGSC3.4
Celera626,421,190 - 26,421,396UniSTS
RH 3.4 Map6118.6UniSTS
Cytogenetic Map6q14UniSTS
RH94496  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2626,939,389 - 26,939,551 (+)MAPPERmRatBN7.2
Rnor_6.0628,382,495 - 28,382,656NCBIRnor6.0
Rnor_5.0638,191,535 - 38,191,696UniSTSRnor5.0
RGSC_v3.4626,931,515 - 26,931,676UniSTSRGSC3.4
Celera626,415,252 - 26,415,413UniSTS
RH 3.4 Map6117.99UniSTS
Cytogenetic Map6q14UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
738023Alc17Alcohol consumption QTL 173.10.003consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)6127574569Rat
1354616Despr12Despair related QTL 120.0012locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)6127574569Rat
1549905Stresp10Stress response QTL 106.830.0066stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)6127574569Rat
2300176Bmd51Bone mineral density QTL 5111.70.0001femur mineral mass (VT:0010011)bone mineral density (CMO:0001226)6127574569Rat
2300190Bmd52Bone mineral density QTL 5211.20.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)6127574569Rat
1331743Uae28Urinary albumin excretion QTL 284.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)6134235784Rat
1578758Tcas9Tongue tumor susceptibility QTL 93.29tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)6137618905Rat
1598843Cm63Cardiac mass QTL 632.6heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)6139036266Rat
7411603Foco13Food consumption QTL 135.50.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)6141223769Rat
8552962Pigfal16Plasma insulin-like growth factor 1 level QTL 169.4blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)6141223769Rat
7411542Bw127Body weight QTL 1275.50.001body mass (VT:0001259)body weight gain (CMO:0000420)6141223769Rat
9589129Insul24Insulin level QTL 2419.060.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)6141223769Rat
9589048Scfw3Subcutaneous fat weight QTL 34.570.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)6141223769Rat
2293709Bss23Bone structure and strength QTL 235.180.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)6142487980Rat
2293650Bss31Bone structure and strength QTL 315.050.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)6142487980Rat
2293656Bss28Bone structure and strength QTL 286.790.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)6142487980Rat
7411584Foco4Food consumption QTL 44.30.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)6142838846Rat
738024Sach5Saccharine consumption QTL 53.90.00039consumption behavior trait (VT:0002069)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)6143394190Rat
2301972Bp325Blood pressure QTL 3254.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)6172227641Rat
1300128Rf16Renal function QTL 163.89renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)6507449734434305Rat
1300164Rf15Renal function QTL 153.12renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)6507449754641141Rat
4145119Mcs25Mammary carcinoma susceptibility QTL 250.0001mammary gland integrity trait (VT:0010552)ratio of deaths to total study population during a period of time (CMO:0001023)610894415110548006Rat
1578665Bss16Bone structure and strength QTL 164.4femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)61173566972593685Rat
1578668Bmd14Bone mineral density QTL 143.8femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)61173566972593685Rat
10401812Kidm54Kidney mass QTL 54kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)61436878859368788Rat
10401800Kidm49Kidney mass QTL 49kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)61436878859368788Rat
1576309Emca7Estrogen-induced mammary cancer QTL 74mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)615107216107351382Rat
1359023Bp272Blood pressure QTL 2722.5arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)61653614027261739Rat
2292589Emca10Estrogen-induced mammary cancer QTL 100.048mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)61653614061536140Rat
1354664Slep2Serum leptin concentration QTL 24.49blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)61653614071636405Rat
1641898Colcr4Colorectal carcinoma resistance QTL43.710.0007intestine integrity trait (VT:0010554)well differentiated malignant colorectal tumor surface area measurement (CMO:0002077)62033877762613667Rat
2293839Kiddil2Kidney dilation QTL 24.8kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)62086642281133036Rat
2293841Kiddil4Kidney dilation QTL 44.4kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)62086642281133036Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:97
Count of miRNA genes:82
Interacting mature miRNAs:88
Transcripts:ENSRNOT00000016976
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

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

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


Expression


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 7
Low 3 38 40 30 9 30 3 6 74 35 31 7 3
Below cutoff 5 17 11 10 11 5 5 3 4 5

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000016976   ⟹   ENSRNOP00000016976
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl626,939,837 - 26,945,664 (+)Ensembl
Rnor_6.0 Ensembl628,382,962 - 28,388,967 (+)Ensembl
RefSeq Acc Id: NM_139326   ⟹   NP_647542
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2626,939,844 - 26,945,664 (+)NCBI
Rnor_6.0628,382,949 - 28,388,769 (+)NCBI
Rnor_5.0638,191,989 - 38,197,809 (+)NCBI
RGSC_v3.4626,931,969 - 26,937,789 (+)RGD
Celera626,415,706 - 26,421,526 (+)RGD
Sequence:
RefSeq Acc Id: XM_017594033   ⟹   XP_017449522
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2626,939,860 - 26,945,666 (+)NCBI
Rnor_6.0628,382,937 - 28,388,771 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_647542   ⟸   NM_139326
- Peptide Label: precursor
- UniProtKB: Q8K422 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017449522   ⟸   XM_017594033
- Peptide Label: isoform X1
- UniProtKB: Q8K422 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000016976   ⟸   ENSRNOT00000016976
Protein Domains
ACTH_domain   NPP   Op_neuropeptide

Transcriptome

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


Strain Variation

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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:3366 AgrOrtholog
Ensembl Genes ENSRNOG00000012686 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000016976 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000016976 ENTREZGENE, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:6919050 IMAGE-MGC_LOAD
InterPro Mcrtin_ACTH_cent UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Melanocortin_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Opioid_neuropept UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PMOC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:24664 UniProtKB/TrEMBL
MGC_CLONE MGC:72676 IMAGE-MGC_LOAD
NCBI Gene 24664 ENTREZGENE
Pfam ACTH_domain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NPP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Op_neuropeptide UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB POMC RGD
PhenoGen Pomc PhenoGen
PRINTS MELANOCORTIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART ACTH_domain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NPP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Op_neuropeptide UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt COLI_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q8K422 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-09-03 Pomc  proopiomelanocortin  Pomc  proopiomelanocortin (adrenocorticotropin/ beta-lipotropin/ alpha-melanocyte stimulating hormone/ beta-melanocyte stimulating hormone/ beta-endorphin)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-05-15 Pomc  proopiomelanocortin (adrenocorticotropin/ beta-lipotropin/ alpha-melanocyte stimulating hormone/ beta-melanocyte stimulating hormone/ beta-endorphin)  Pomc  pro-opiomelanocortin  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-01 Pomc  pro-opiomelanocortin  Pomc2  proopiomelanocortin, beta (endorphin, beta)  Symbol and Name updated to reflect Human and Mouse nomenclature 1299863 APPROVED
2002-06-10 Pomc2  Proopoimelanocortin, beta (endorphin, beta)      Symbol and Name status set to approved 70586 APPROVED