Nppa (natriuretic peptide A) - Rat Genome Database

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Gene: Nppa (natriuretic peptide A) Rattus norvegicus
Analyze
Symbol: Nppa
Name: natriuretic peptide A
RGD ID: 3193
Description: Enables hormone activity. Involved in several processes, including cellular response to mechanical stimulus; negative regulation of collecting lymphatic vessel constriction; and regulation of ion transport. Acts upstream of or within receptor guanylyl cyclase signaling pathway. Located in several cellular components, including brush border; mast cell granule; and perinuclear region of cytoplasm. Used to study congestive heart failure; pulmonary hypertension; and ureteral obstruction. Biomarker of acute kidney failure; artery disease (multiple); hypertrophic cardiomyopathy; and nephrosis. Human ortholog(s) of this gene implicated in artery disease (multiple); heart conduction disease (multiple); and peritonitis. Orthologous to human NPPA (natriuretic peptide A); PARTICIPATES IN atrial natriuretic peptide signaling pathway; INTERACTS WITH (R)-mevalonic acid; (R)-noradrenaline; 1-octadec-9-enoylglycero-3-phosphate.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: ANF; ANP; atrial natriuretic factor; atrial natriuretic factor prohormone; atrial natriuretic peptide; atrial natriuretic peptide prohormone; atriopeptigen; cardiodilatin; CDD; Natriuretic peptide precursor A (pronatriodilatin also Anf Pnd); Natriuretic peptide precursor A (pronatriodilatin, also Anf, Pnd); Natriuretic peptide precursor A, (pronatriodilatin, also Anf, Pnd); natriuretic peptide precursor type A; natriuretic peptides A; Pnd; preproANF; preproANP; preproCDD-ANF; prepronatriodilatin; proANF; proANP; RATANF
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: Nppaem4Mcwi  
Genetic Models: SS-Nppaem4Mcwi
Is Marker For: Strains:   SD  
QTLs:   Bp49   Strs2   Bp100   Strs6  
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.25158,429,042 - 158,430,351 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl5158,429,042 - 158,430,351 (+)Ensembl
Rnor_6.05164,808,407 - 164,809,716 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5164,808,323 - 164,809,705 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05168,466,309 - 168,467,618 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45165,074,518 - 165,075,827 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.15165,084,713 - 165,086,000 (+)NCBI
Celera5156,710,885 - 156,712,194 (+)NCBICelera
RH 3.4 Map51106.6RGD
Cytogenetic Map5q36NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
acute kidney failure  (IEP,ISO)
Acute Lung Injury  (ISO)
adenocarcinoma  (ISO)
aortic valve insufficiency  (ISO)
atrial standstill 1  (ISO)
atrial standstill 2  (ISO)
brain ischemia  (ISO)
Cardiac Arrhythmias  (ISO)
Cardiomegaly  (IDA,ISO)
chronic kidney disease  (ISO)
congestive heart failure  (IDA,ISO)
Contrast-Induced Nephropathy  (ISO)
coronary artery disease  (ISO)
coronary stenosis  (ISO)
Diabetic Cardiomyopathies  (IDA)
Diabetic Nephropathies  (IEP,ISO)
diabetic retinopathy  (ISO)
Diaphragmatic Hernia  (ISO)
diastolic heart failure  (ISO)
dilated cardiomyopathy  (ISO)
Experimental Diabetes Mellitus  (IEP)
familial atrial fibrillation  (ISS)
Familial Atrial Fibrillation 6  (ISO)
glomerulonephritis  (ISO)
heart disease  (ISO)
Hypercapnia  (ISO)
hypertension  (IEP,ISO)
hypertrophic cardiomyopathy  (IEP)
Hypotension  (ISO)
Hypoxia  (ISO)
Kidney Reperfusion Injury  (ISO)
Left Ventricular Hypertrophy  (IEP,ISO)
liver cirrhosis  (ISO)
Lung Neoplasms  (ISO)
melanoma  (ISO)
myocardial infarction  (IEP,ISO)
Myocardial Ischemia  (ISO)
Neoplasm Metastasis  (ISO)
nephrosis  (IEP)
obesity  (ISO)
Pain  (ISO)
patent ductus arteriosus  (ISO)
peritonitis  (ISO)
Prostatic Neoplasms  (ISO)
pulmonary hypertension  (IDA)
renal hypertension  (IEP,ISO)
Right Ventricular Hypertrophy  (IDA)
Skin Neoplasms  (ISO)
small cell carcinoma  (ISO)
Stroke  (ISO)
Transplant Rejection  (ISO)
type 2 diabetes mellitus  (ISO)
ureteral obstruction  (IDA,ISO)
Urination Disorders  (ISO)
vascular dementia  (ISO)
Ventricular Remodeling  (ISO)

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(5Z,8Z,11Z,13E)-15-HETE  (ISO)
(R)-mevalonic acid  (EXP)
(R)-noradrenaline  (EXP,ISO)
1-octadec-9-enoylglycero-3-phosphate  (EXP)
11-deoxycorticosterone  (EXP)
17beta-estradiol  (EXP,ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2-(3,4-dimethoxyphenyl)-5-\{[2-(3,4-dimethoxyphenyl)ethyl](methyl)amino\}-2-(propan-2-yl)pentanenitrile  (ISO)
2-acetyloxy-4-(trifluoromethyl)benzoic acid  (EXP)
2-Hydroxy-4-trifluoromethyl benzoic acid  (EXP)
3',5'-cyclic GMP  (EXP,ISO)
3'-amino-3'-deoxy-N(6),N(6)-dimethyladenosine  (EXP)
3,4-methylenedioxymethamphetamine  (EXP)
3-iodobenzyl-5'-N-methylcarboxamidoadenosine  (EXP)
3H-1,2-dithiole-3-thione  (EXP)
4'-epidoxorubicin  (ISO)
5-(1,4-diazepane-1-sulfonyl)isoquinoline  (ISO)
5-azacytidine  (ISO)
5-fluorouracil  (ISO)
8-(3-chlorostyryl)caffeine  (EXP)
8-(4-chlorophenylthio)-cGMP  (EXP)
acetic acid  (ISO)
aconitine  (EXP)
aflatoxin B2  (ISO)
aldehydo-D-glucose  (EXP)
aldosterone  (EXP,ISO)
aldrithiol  (EXP)
all-trans-retinoic acid  (ISO)
alprenolol  (ISO)
amiodarone  (EXP)
amlodipine  (EXP)
ammonium chloride  (EXP)
amphetamine  (EXP)
argipressin  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
atenolol  (ISO)
atorvastatin calcium  (EXP)
atrazine  (ISO)
atropine  (EXP)
benazepril  (EXP)
benzo[a]pyrene  (EXP,ISO)
beta-naphthoflavone  (EXP)
betaxolol  (EXP)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
BQ 123  (EXP)
bromochloroacetic acid  (ISO)
C60 fullerene  (EXP)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
caffeine  (EXP)
calcitriol  (EXP)
candesartan  (EXP)
candoxatrilat  (EXP)
capsazepine  (EXP)
carbon monoxide  (EXP)
carvedilol  (EXP,ISO)
CGS-21680  (EXP)
chelerythrine  (EXP)
choline  (ISO)
cilazapril monohydrate  (ISO)
clofibrate  (ISO)
clonidine  (EXP)
clonidine (amino form)  (EXP)
clonidine (imino form)  (EXP)
cobalt dichloride  (EXP)
cocaine  (EXP,ISO)
colforsin daropate hydrochloride  (EXP)
copper(II) sulfate  (ISO)
corticosterone  (EXP)
cortisol  (ISO)
cucurbitacin I  (EXP)
Cuprizon  (EXP)
curcumin  (EXP)
cyanamide  (EXP)
cyclosporin A  (EXP)
D-glucose  (EXP)
D-mannitol  (ISO)
dantrolene  (EXP)
daunorubicin  (EXP)
dexamethasone  (EXP,ISO)
dibutyl phthalate  (ISO)
diethylstilbestrol  (EXP)
digoxin  (EXP)
dimethylarsinic acid  (ISO)
dioxygen  (EXP,ISO)
doxorubicin  (EXP,ISO)
DPCPX  (EXP)
EC 3.4.15.1 (peptidyl-dipeptidase A) inhibitor  (ISO)
edaravone  (ISO)
enalapril  (EXP,ISO)
ethanol  (EXP)
fasudil hydrochloride  (ISO)
felodipine  (ISO)
fenofibrate  (ISO)
fenvalerate  (EXP)
folic acid  (ISO)
fulvestrant  (EXP,ISO)
furosemide  (ISO)
gefitinib  (EXP)
gentamycin  (EXP)
glucose  (EXP)
glycerol  (ISO)
graphite  (ISO)
GSK2181236A  (EXP)
Guanabenz  (EXP)
GW 501516  (EXP)
haloperidol  (EXP)
HET0016  (EXP)
hydrogen peroxide  (EXP)
indinavir  (ISO)
indometacin  (EXP,ISO)
indoxyl sulfate  (EXP)
irbesartan  (ISO)
isoprenaline  (EXP,ISO)
KT 5720  (EXP)
L-methionine  (ISO)
labetalol  (ISO)
lamivudine  (ISO)
leptomycin B  (EXP)
lipopolysaccharide  (EXP)
lisinopril dihydrate  (ISO)
losartan  (EXP)
lovastatin  (ISO)
LY294002  (EXP)
manganese atom  (ISO)
manganese(0)  (ISO)
manganese(II) chloride  (ISO)
manidipine  (EXP)
mercury dichloride  (ISO)
metformin  (EXP)
metoprolol  (EXP)
mifepristone  (EXP,ISO)
milrinone  (EXP)
monocrotaline  (EXP)
N-[2-(4-bromocinnamylamino)ethyl]isoquinoline-5-sulfonamide  (EXP)
naloxone  (ISO)
nifedipine  (ISO)
nitric oxide  (EXP)
nitrofen  (EXP)
NSC 23766  (ISO)
omapatrilat  (ISO)
ouabain  (EXP)
paricalcitol  (EXP)
pentobarbital  (EXP)
phenformin  (EXP)
phenylephrine  (EXP,ISO)
phorbol 13-acetate 12-myristate  (EXP)
pirinixic acid  (EXP,ISO)
Plantamajoside  (EXP,ISO)
prazosin  (EXP)
pregnenolone 16alpha-carbonitrile  (ISO)
progesterone  (EXP,ISO)
propofol  (EXP)
propranolol  (EXP)
prostaglandin E1  (ISO)
prostaglandin E2  (EXP)
pyrrolidine dithiocarbamate  (EXP)
quercetin  (EXP)
quinapril hydrochloride  (EXP)
resveratrol  (EXP,ISO)
ruthenium red  (EXP)
S-nitroso-N-acetyl-D-penicillamine  (EXP)
SB 203580  (EXP)
sildenafil citrate  (EXP)
simvastatin  (EXP)
sirolimus  (EXP)
sodium chloride  (EXP)
spermine  (ISO)
spironolactone  (EXP,ISO)
staurosporine  (EXP)
streptozocin  (EXP,ISO)
sulforaphane  (ISO)
sunitinib  (EXP)
tacrolimus hydrate  (ISO)
tetrachloromethane  (EXP)
titanium dioxide  (ISO)
torasemide  (EXP)
trans-cinnamic acid  (EXP)
trans-piceid  (EXP)
trichostatin A  (EXP)
tropan-3alpha-yl 3-hydroxy-2-phenylpropanoate  (EXP)
tunicamycin  (ISO)
tyrphostin AG 1478  (EXP)
U-73122  (EXP)
urethane  (ISO)
UTP  (EXP)
valproic acid  (EXP,ISO)
valsartan  (EXP,ISO)
verapamil  (ISO)
Vinpocetine  (EXP)
xestospongin C  (EXP)
Y-27632  (EXP)
zidovudine  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
cardiac muscle hypertrophy in response to stress  (ISO)
cell growth involved in cardiac muscle cell development  (IEP)
cellular response to mechanical stimulus  (IEP)
cGMP biosynthetic process  (IBA,IMP,ISO)
cGMP-mediated signaling  (IBA,IDA)
female pregnancy  (ISO,ISS)
heart development  (TAS)
multicellular organismal water homeostasis  (TAS)
negative regulation of canonical Wnt signaling pathway  (ISO)
negative regulation of cell growth  (IMP)
negative regulation of collecting lymphatic vessel constriction  (IDA)
negative regulation of epidermal growth factor receptor signaling pathway  (ISO)
negative regulation of JUN kinase activity  (ISO)
negative regulation of systemic arterial blood pressure  (IBA,IDA)
neuropeptide signaling pathway  (IBA,ISO)
positive regulation of cardiac muscle contraction  (ISO)
positive regulation of cGMP-mediated signaling  (IDA)
positive regulation of delayed rectifier potassium channel activity  (IDA,ISO)
positive regulation of heart rate  (ISO)
positive regulation of histamine secretion by mast cell  (IDA)
positive regulation of potassium ion export across plasma membrane  (IDA,ISO)
protein folding  (ISO)
receptor guanylyl cyclase signaling pathway  (IBA,IDA,ISO,ISS)
regulation of atrial cardiac muscle cell membrane repolarization  (ISO)
regulation of blood pressure  (ISO,ISS,TAS)
regulation of body fluid levels  (TAS)
regulation of calcium ion transmembrane transport via high voltage-gated calcium channel  (IDA)
regulation of high voltage-gated calcium channel activity  (IDA)
response to hypoxia  (IEP)
response to insulin  (IEP)
vasodilation  (IEA)

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
1. Aziz MT, etal., Diabetol Metab Syndr. 2013 Mar 12;5(1):13. doi: 10.1186/1758-5996-5-13.
2. Bai GY, etal., Peptides. 2006 Nov;27(11):2756-63. Epub 2006 Jul 10.
3. Baldini PM, etal., Mol Cell Biochem. 2005 Apr;272(1-2):19-28.
4. Bayerle-Eder M, etal., Horm Metab Res. 2003 May;35(5):301-7.
5. Bkaily G, etal., J Mol Cell Cardiol. 1993 Nov;25(11):1305-16.
6. Calderone A, etal., J Cell Physiol. 2006 Apr;207(1):165-73.
7. Cavallero S, etal., Am J Physiol Heart Circ Physiol. 2010 Apr;298(4):H1290-9. doi: 10.1152/ajpheart.00911.2009. Epub 2010 Feb 5.
8. Cayli S, etal., Acta Histochem 2002;104(3):271-7.
9. Chen LG, etal., J Gene Med. 2004 Jul;6(7):786-97.
10. Christoffersen TE, etal., Am J Physiol Heart Circ Physiol. 2006 Apr;290(4):H1635-41. Epub 2005 Nov 4.
11. Chujo K, etal., J Biosci Bioeng. 2010 Jun;109(6):526-30. doi: 10.1016/j.jbiosc.2009.11.021. Epub 2009 Dec 23.
12. Costell MH, etal., Front Pharmacol. 2012 Jul 5;3:128. doi: 10.3389/fphar.2012.00128. eCollection 2012.
13. De Jong AM, etal., J Cell Mol Med. 2013 Jun;17(6):743-53. doi: 10.1111/jcmm.12064. Epub 2013 Apr 26.
14. de Plater GM, etal., Toxicon. 1998 Jun;36(6):847-57.
15. Dieplinger B, etal., Kidney Int. 2009 Feb;75(4):408-14. doi: 10.1038/ki.2008.560. Epub 2008 Dec 3.
16. Flister MJ, etal., Genome Res. 2013 Dec;23(12):1996-2002. doi: 10.1101/gr.160283.113. Epub 2013 Sep 4.
17. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
18. GOA data from the GO Consortium
19. Gruchala M, etal., Am Heart J. 2003 Jan;145(1):125-31.
20. Gu YP, etal., Zhongguo Zhong Xi Yi Jie He Za Zhi. 2013 May;33(5):627-31.
21. Gutkowska J, etal., J Physiol. 2009 Oct 1;587(Pt 19):4725-36. Epub 2009 Aug 12.
22. Hassan A, etal., Neurology. 2001 Nov 13;57(9):1726-8.
23. Hystad ME, etal., Acta Physiol Scand. 2001 Apr;171(4):395-403.
24. Jankowski M, etal., Proc Natl Acad Sci U S A 2001 Sep 25;98(20):11765-70.
25. Jeffs B, etal., Nat Genet 1997 Aug;16(4):364-7
26. Jin H, etal., J Clin Invest. 1990 Jan;85(1):115-20.
27. Kanamitsu H, etal., Artif Organs. 2013 Jul 4. doi: 10.1111/aor.12120.
28. Kangawa K, etal., Nature 1984 Nov 8-14;312(5990):152-5.
29. Kao YH, etal., Int J Cardiol. 2013 Aug 7. pii: S0167-5273(13)01322-3. doi: 10.1016/j.ijcard.2013.07.111.
30. Kim CS, etal., Regul Pept. 2012 Feb 10;174(1-3):65-70. doi: 10.1016/j.regpep.2011.12.001. Epub 2011 Dec 28.
31. Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
32. Larifla L, etal., Am J Hypertens. 2012 May;25(5):524-7. doi: 10.1038/ajh.2011.233. Epub 2011 Dec 15.
33. Maki M, etal., Nature 1984 Jun 21-27;309(5970):722-4.
34. Martynova MG, etal., Cell Res. 2005 Oct;15(10):811-6.
35. MGD data from the GO Consortium
36. Moffatt P, etal., J Biol Chem. 2007 Dec 14;282(50):36454-62. Epub 2007 Oct 19.
37. Morikawa S, etal., J Am Coll Cardiol. 2009 Mar 24;53(12):1040-6. doi: 10.1016/j.jacc.2008.10.061.
38. Mukoyama M, etal., N Engl J Med. 1990 Sep 13;323(11):757-8.
39. Muller D, etal., Endocrinology 2002 Jan;143(1):23-9.
40. Mussalo H, etal., Kidney Blood Press Res. 2003;26(1):34-41.
41. Nakagawa O, etal., J Clin Invest. 1995 Sep;96(3):1280-7.
42. Nakayama T Endocr J. 2005 Feb;52(1):11-21.
43. NCBI rat LocusLink and RefSeq merged data July 26, 2002
44. Nicolaidou P, etal., Pediatr Int. 2003 Feb;45(1):35-8.
45. Nishikimi T, etal., Regul Pept. 2009 Apr 10;154(1-3):44-53. doi: 10.1016/j.regpep.2009.02.006. Epub 2009 Feb 15.
46. Obineche E, etal., Ann N Y Acad Sci. 2006 Nov;1084:223-34.
47. OMIM Disease Annotation Pipeline
48. Panizo S, etal., Nephrol Dial Transplant. 2013 Sep 7.
49. Pereira NL, etal., Circ Cardiovasc Genet. 2015 Feb;8(1):141-9. doi: 10.1161/CIRCGENETICS.114.000624. Epub 2014 Dec 1.
50. Prunier F, etal., Eur J Heart Fail. 2005 Aug;7(5):739-47.
51. Ramirez G, etal., Kidney Int. 1992 Feb;41(2):334-41. doi: 10.1038/ki.1992.46.
52. RGD automated data pipeline
53. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
54. RGD automated import pipeline for gene-chemical interactions
55. Rollin R, etal., Mol Vis. 2004 Jul 15;10:450-7.
56. Rollin R, etal., Mol Vis. 2005 Mar 18;11:216-24.
57. Rosenkranz AC, etal., Hypertension 2002 Oct;40(4):498-503.
58. Roussel R, etal., Diabetes. 2004 May;53(5):1394-8.
59. Rubattu S, etal., Circ Res 1999 Nov 12;85(10):900-5.
60. Rubattu S, etal., Circulation. 1999 Oct 19;100(16):1722-6. doi: 10.1161/01.cir.100.16.1722.
61. Rubattu S, etal., Nat Genet 1996 Aug;13(4):429-34
62. Rubattu S, etal., Stroke. 2004 Apr;35(4):814-8. Epub 2004 Mar 11.
63. Scallan JP, etal., J Physiol. 2013 Oct 15;591(Pt 20):5071-81. doi: 10.1113/jphysiol.2013.260042. Epub 2013 Jul 29.
64. Schmidt S, etal., Nephrol Dial Transplant. 1998 Jul;13(7):1807-10.
65. Sheng JJ, etal., J Cell Physiol. 2015 Nov;230(11):2743-54. doi: 10.1002/jcp.24999.
66. Sorci G, etal., Brain Res. 1995 Jun 12;683(1):51-8.
67. Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
68. Vesely DL, etal., Metabolism. 1999 Jun;48(6):771-8.
69. Wang JH, etal., Diabetol Metab Syndr. 2013 Apr 8;5(1):19. doi: 10.1186/1758-5996-5-19.
70. Wellard J, etal., Neurochem Res. 2003 Feb;28(2):225-33.
71. Woodard GE, etal., Peptides 2002 Sep;23(9):1637-47.
72. Yamanaka M, etal., Nature 1984 Jun 21-27;309(5970):719-22.
73. Yano Y, etal., J Clin Endocrinol Metab. 1999 Jul;84(7):2353-6.
74. Ye P and West MJ, Clin Exp Pharmacol Physiol 2003 Dec;30(12):930-6.
75. Yokota N, etal., Nephron. 1993;65(3):454-9.
76. Zang MX, etal., J Cell Biochem. 2004 Dec 15;93(6):1255-66.
77. Zhu YB, etal., Chin Med J (Engl). 2013 Feb;126(4):747-50.
Additional References at PubMed
PMID:1652217   PMID:1660465   PMID:1672777   PMID:2951736   PMID:2962707   PMID:2966345   PMID:2967498   PMID:2985557   PMID:6230082   PMID:6232612   PMID:6233494   PMID:6234658  
PMID:6238331   PMID:6419347   PMID:6547996   PMID:8889548   PMID:12020441   PMID:12022755   PMID:12413399   PMID:12477932   PMID:12527142   PMID:12540777   PMID:12738802   PMID:12829435  
PMID:14575315   PMID:14766980   PMID:14985074   PMID:15117337   PMID:15117952   PMID:15452027   PMID:15539631   PMID:15569826   PMID:16377580   PMID:16814407   PMID:16859700   PMID:16870210  
PMID:16909307   PMID:17038494   PMID:17332063   PMID:17434981   PMID:17522368   PMID:17537544   PMID:18378355   PMID:18823659   PMID:19101594   PMID:19539681   PMID:19546173   PMID:19570884  
PMID:19646991   PMID:19799869   PMID:19896516   PMID:20071611   PMID:20353436   PMID:20384792   PMID:20559433   PMID:20691705   PMID:20801128   PMID:21056071   PMID:21237168   PMID:21287975  
PMID:21552198   PMID:21635224   PMID:22399583   PMID:22437503   PMID:22962310   PMID:23551170   PMID:23578746   PMID:23749889   PMID:23913708   PMID:23956981   PMID:24137001   PMID:24333928  
PMID:24403064   PMID:24689065   PMID:25123163   PMID:25126708   PMID:25218476   PMID:25451332   PMID:25669688   PMID:25846103   PMID:25865156   PMID:26254181   PMID:26446774   PMID:26660905  
PMID:27208702   PMID:27228659   PMID:27559042   PMID:29021616   PMID:30623208   PMID:30633838   PMID:31386893   PMID:31541683  


Genomics

Candidate Gene Status
Nppa is a candidate Gene for QTL Bp49
Nppa is a candidate Gene for QTL Cm24
Nppa is a candidate Gene for QTL Lanf1
Nppa is a candidate Gene for QTL Bp155
Comparative Map Data
Nppa
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.25158,429,042 - 158,430,351 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl5158,429,042 - 158,430,351 (+)Ensembl
Rnor_6.05164,808,407 - 164,809,716 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5164,808,323 - 164,809,705 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05168,466,309 - 168,467,618 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45165,074,518 - 165,075,827 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.15165,084,713 - 165,086,000 (+)NCBI
Celera5156,710,885 - 156,712,194 (+)NCBICelera
RH 3.4 Map51106.6RGD
Cytogenetic Map5q36NCBI
NPPA
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl111,845,709 - 11,848,345 (-)EnsemblGRCh38hg38GRCh38
GRCh38111,845,709 - 11,847,783 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37111,905,766 - 11,907,840 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36111,828,363 - 11,830,422 (-)NCBINCBI36hg18NCBI36
Build 34111,840,041 - 11,842,101NCBI
Celera111,019,389 - 11,021,472 (-)NCBI
Cytogenetic Map1p36.22NCBI
HuRef111,060,823 - 11,062,905 (-)NCBIHuRef
CHM1_1111,893,660 - 11,895,736 (-)NCBICHM1_1
Nppa
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm394148,085,179 - 148,086,531 (+)NCBIGRCm39mm39
GRCm39 Ensembl4148,085,179 - 148,086,536 (+)Ensembl
GRCm384148,000,722 - 148,002,074 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl4148,000,722 - 148,002,079 (+)EnsemblGRCm38mm10GRCm38
MGSCv374147,374,855 - 147,376,176 (+)NCBIGRCm37mm9NCBIm37
MGSCv364146,844,546 - 146,845,867 (+)NCBImm8
Celera4150,267,117 - 150,268,440 (+)NCBICelera
Cytogenetic Map4E1NCBI
cM Map478.66NCBI
Nppa
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554862,060,735 - 2,063,003 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554862,061,196 - 2,062,805 (+)NCBIChiLan1.0ChiLan1.0
NPPA
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1111,825,072 - 11,827,452 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl111,825,072 - 11,827,373 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0110,608,025 - 10,610,287 (-)NCBIMhudiblu_PPA_v0panPan3
NPPA
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1284,406,317 - 84,408,115 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl284,396,073 - 84,408,385 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha280,939,561 - 80,941,359 (+)NCBI
ROS_Cfam_1.0285,071,241 - 85,073,039 (+)NCBI
UMICH_Zoey_3.1281,819,847 - 81,821,645 (+)NCBI
UNSW_CanFamBas_1.0282,819,771 - 82,821,568 (+)NCBI
UU_Cfam_GSD_1.0283,882,545 - 83,884,343 (+)NCBI
Nppa
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505834,846,575 - 34,848,291 (-)NCBI
SpeTri2.0NW_004936474671,362 - 673,610 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NPPA
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl671,919,495 - 71,932,254 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1671,919,557 - 71,921,345 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2665,829,057 - 65,830,990 (-)NCBISscrofa10.2Sscrofa10.2susScr3
NPPA
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.120119,942,412 - 119,946,211 (+)NCBI
ChlSab1.1 Ensembl20119,944,532 - 119,945,917 (+)Ensembl
Vero_WHO_p1.0NW_02366605423,811,217 - 23,814,235 (+)NCBI
Nppa
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248181,147,654 - 1,149,722 (+)NCBI

Position Markers
D5Wox10  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25158,427,876 - 158,428,037 (+)MAPPERmRatBN7.2
Rnor_6.05164,807,242 - 164,807,402NCBIRnor6.0
Rnor_5.05168,465,144 - 168,465,304UniSTSRnor5.0
RGSC_v3.45165,073,352 - 165,073,513RGDRGSC3.4
RGSC_v3.45165,073,353 - 165,073,513UniSTSRGSC3.4
RGSC_v3.15165,083,540 - 165,083,701RGD
Celera5156,709,720 - 156,709,880UniSTS
RH 3.4 Map51105.1UniSTS
RH 3.4 Map51105.1RGD
RH 2.0 Map51108.0RGD
Cytogenetic Map5q36UniSTS
D5Mit15  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25158,430,406 - 158,430,550 (+)MAPPERmRatBN7.2
Rnor_6.05164,809,772 - 164,809,913NCBIRnor6.0
Rnor_5.05168,467,674 - 168,467,815UniSTSRnor5.0
RGSC_v3.45165,075,883 - 165,076,024UniSTSRGSC3.4
RGSC_v3.15165,086,070 - 165,086,213RGD
Celera5156,712,250 - 156,712,391UniSTS
RH 3.4 Map51104.0UniSTS
RH 3.4 Map51104.0RGD
RH 2.0 Map597.2RGD
Cytogenetic Map5q36UniSTS
PMC123178P1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25158,429,113 - 158,429,626 (+)MAPPERmRatBN7.2
Rnor_6.05164,808,479 - 164,808,991NCBIRnor6.0
Rnor_5.05168,466,381 - 168,466,893UniSTSRnor5.0
RGSC_v3.45165,074,590 - 165,075,102UniSTSRGSC3.4
Celera5156,710,957 - 156,711,469UniSTS
Cytogenetic Map5q36UniSTS
PMC15566P1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25158,429,401 - 158,429,667 (+)MAPPERmRatBN7.2
Rnor_6.05164,808,767 - 164,809,032NCBIRnor6.0
Rnor_5.05168,466,669 - 168,466,934UniSTSRnor5.0
RGSC_v3.45165,074,878 - 165,075,143UniSTSRGSC3.4
Celera5156,711,245 - 156,711,510UniSTS
Cytogenetic Map5q36UniSTS
Nppa  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25158,428,778 - 158,429,130 (+)MAPPERmRatBN7.2
Rnor_6.05164,808,144 - 164,808,495NCBIRnor6.0
Rnor_5.05168,466,046 - 168,466,397UniSTSRnor5.0
RGSC_v3.45165,074,255 - 165,074,606UniSTSRGSC3.4
Celera5156,710,622 - 156,710,973UniSTS
Cytogenetic Map5q36UniSTS
PMC316718P1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25158,429,171 - 158,429,665 (+)MAPPERmRatBN7.2
Rnor_6.05164,808,537 - 164,809,030NCBIRnor6.0
Rnor_5.05168,466,439 - 168,466,932UniSTSRnor5.0
RGSC_v3.45165,074,648 - 165,075,141UniSTSRGSC3.4
Celera5156,711,015 - 156,711,508UniSTS
Cytogenetic Map5q36UniSTS
RH127740  
Rat AssemblyChrPosition (strand)SourceJBrowse
RH 3.4 Map51107.4UniSTS
RH 3.4 Map51104.1UniSTS
Cytogenetic Map5q36UniSTS
RH94452  
Rat AssemblyChrPosition (strand)SourceJBrowse
RH 3.4 Map51106.6UniSTS
Cytogenetic Map5q36UniSTS
BI280386  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25158,429,613 - 158,430,158 (+)MAPPERmRatBN7.2
Rnor_6.05164,808,979 - 164,809,523NCBIRnor6.0
Rnor_5.05168,466,881 - 168,467,425UniSTSRnor5.0
RGSC_v3.45165,075,090 - 165,075,634UniSTSRGSC3.4
Celera5156,711,457 - 156,712,001UniSTS
RH 3.4 Map51106.8UniSTS
Cytogenetic Map5q36UniSTS
UniSTS:547523  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25158,429,341 - 158,429,558 (+)MAPPERmRatBN7.2
Rnor_6.05164,808,707 - 164,808,923NCBIRnor6.0
Rnor_5.05168,466,609 - 168,466,825UniSTSRnor5.0
Celera5156,711,185 - 156,711,401UniSTS
Cytogenetic Map5q36UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2302369Scl60Serum cholesterol level QTL 603.13blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)5143608201161165651Rat
61444Strs2Sensitivity to stroke QTL 24.7cerebrum integrity trait (VT:0010549)post-insult time to onset of cerebrovascular lesion (CMO:0002343)5135929696166875058Rat
724525Bp147Blood pressure QTL 1474.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5126424772166875058Rat
1331721Bp210Blood pressure QTL 2103.413arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)5143069996166846814Rat
1298090Bp155Blood pressure QTL 1553.8arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)5151006154161165494Rat
631562Apr2Acute phase response QTL 23.7blood murinoglobulin 1 amount (VT:0010597)plasma murinoglobulin 1 level (CMO:0001931)5135927956166875058Rat
738018Anxrr4Anxiety related response QTL 45.1exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)5130130159166875058Rat
631272Lanf1Left ventricular atrial natriuretic factor QTL 112heart left ventricle natriuretic peptide A amount (VT:0010596)heart left ventricle natriuretic peptide A level (CMO:0002165)5151113452166875058Rat
631498Bp100Blood pressure QTL 1004.90.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5158418175158429042Rat
631505Bp103Blood pressure QTL 1033.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5132717196165560427Rat
1302790Scl20Serum cholesterol level QTL 206.40.0001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)582394392166664054Rat
1641920Colcs1Colorectal carcinoma susceptibility QTL 12.990.0055intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)5121846814166846814Rat
1598819Bp292Blood pressure QTL 2924.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5127798274166875058Rat
1598861Cm64Cardiac mass QTL 642.9heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)5127798274166875058Rat
634349Bp139Blood pressure QTL 1390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5128924607166875058Rat
1576314Eutr1Estrogen induced uterine response QTL 1uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)52138965166875058Rat
1578766Tcas11Tongue tumor susceptibility QTL 114.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)546711509161317411Rat
1354631Swd2Spike wave discharge measurement QTL 23.640.0002brain electrophysiology trait (VT:0010557)brain total spike-and-wave discharge duration (CMO:0001740)5151113452164465185Rat
1549904Neuinf1Neuroinflammation QTL 130nervous system integrity trait (VT:0010566)blood T lymphocyte count (CMO:0000110)5154828214166875058Rat
2313096Bmd78Bone mineral density QTL 783.10.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)5144377876161317411Rat
61393Bp7Blood pressure QTL 74.50.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)560293434161481680Rat
7794791Mcs33Mammary carcinoma susceptibility QTL 331.93mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)5131345754166875058Rat
8552908Pigfal4Plasma insulin-like growth factor 1 level QTL 46.6blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)5128506074166875058Rat
8694169Bw148Body weight QTL 14850.001body mass (VT:0001259)body weight gain (CMO:0000420)5128506074166875058Rat
10053720Scort26Serum corticosterone level QTL 262.060.0147blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)5124965598166875058Rat


Related Rat Strains
The following Strains have been annotated to Nppa
SD


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

Predicted Target Of
Summary Value
Count of predictions:153
Count of miRNA genes:121
Interacting mature miRNAs:132
Transcripts:ENSRNOT00000011005
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 40
Medium 3 7 8
Low 30 14 16 14 8 8 61 14 16 1 8
Below cutoff 3 1 1 4 9 18 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000011005   ⟹   ENSRNOP00000011005
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl5158,429,042 - 158,430,351 (+)Ensembl
Rnor_6.0 Ensembl5164,808,323 - 164,809,705 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000117878   ⟹   ENSRNOP00000076789
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl5158,429,042 - 158,430,328 (+)Ensembl
RefSeq Acc Id: NM_012612   ⟹   NP_036744
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25158,429,042 - 158,430,351 (+)NCBI
Rnor_6.05164,808,407 - 164,809,716 (+)NCBI
Rnor_5.05168,466,309 - 168,467,618 (+)NCBI
RGSC_v3.45165,074,518 - 165,075,827 (+)RGD
Celera5156,710,885 - 156,712,194 (+)RGD
Sequence:
Reference Sequences
RefSeq Acc Id: NP_036744   ⟸   NM_012612
- Peptide Label: precursor
- UniProtKB: P01161 (UniProtKB/Swiss-Prot),   B0BMW5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000011005   ⟸   ENSRNOT00000011005
RefSeq Acc Id: ENSRNOP00000076789   ⟸   ENSRNOT00000117878

Transcriptome

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

Promoters
RGD ID:13694254
Promoter ID:EPDNEW_R4779
Type:single initiation site
Name:Nppa_1
Description:natriuretic peptide A
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_6.05164,808,398 - 164,808,458EPDNEW

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)
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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
FHH/EurMcwi (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)
FHH/EurMcwi (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
FHL/EurMcwi (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)
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)
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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
FXLE18/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
GH/OmrMcwi (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)
GK/FarMcwi (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
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)
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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
HXB2/IpcvMcwi (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
HXB20/IpcvMcwi (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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (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
HXB4/IpcvMcwi (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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/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
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)
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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
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)
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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
LEXF10A/StmMcwi (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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/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
LEXF1A/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
LEXF1C/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
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)
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)
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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)
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)
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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)
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)
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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)
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)
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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)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
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)
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
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)
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
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)
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)
SS/JrHsdMcwi (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
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)
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/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
WKY/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
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)
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
WN/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
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:3193 AgrOrtholog
Ensembl Genes ENSRNOG00000008176 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000011005 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000011005 ENTREZGENE, UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:9036379 IMAGE-MGC_LOAD
InterPro Natr_peptide UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Natr_peptide_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Natriuretic_peptide_atrial UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:24602 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:187382 IMAGE-MGC_LOAD
NCBI Gene 24602 ENTREZGENE
Pfam ANP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Nppa PhenoGen
PRINTS ANATPEPTIDE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NATPEPTIDES UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE NATRIURETIC_PEPTIDE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART NAT_PEP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR TC216750
UniProt ANF_RAT UniProtKB/Swiss-Prot
  B0BMW5 ENTREZGENE, UniProtKB/TrEMBL
  P01161 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-10-20 Nppa  natriuretic peptide precursor A  Nppa  natriuretic peptide precursor type A  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 Nppa  natriuretic peptide precursor type A      Symbol and Name status set to approved 1299863 APPROVED
2002-06-10 Nppa  natriuretic peptide precursor type A      Name updated 70585 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_disease present in the liver and spleen 70434
gene_disease associated with cardiomyocyte hypertrophy 625709
gene_expression controls fluid volume homeostasis 70434
gene_expression expressed in the left ventricles of heart 625709
gene_process binds membrane receptors 70434
gene_process mediates estrogen action 69504
gene_process regulates hydromineral homeostasis 69504
gene_process prevents cardiac hypertrophy 69504
gene_process induces vasorelaxation, natriuresis, diuresis 69504
gene_product 122kDa protein 70434
gene_protein precursor protein contains 152 amino acid residues 728984
gene_regulation activated by 17-beta-estradiol 69504
gene_regulation angiotensin II increases the left ventricular mRNA expression and is repressed by bradykinin 625709