Ppp3ca (protein phosphatase 3 catalytic subunit alpha) - Rat Genome Database

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Gene: Ppp3ca (protein phosphatase 3 catalytic subunit alpha) Rattus norvegicus
Analyze
Symbol: Ppp3ca
Name: protein phosphatase 3 catalytic subunit alpha
RGD ID: 3382
Description: Enables calmodulin binding activity and calmodulin-dependent protein phosphatase activity. Involved in several processes, including cellular response to glucose stimulus; negative regulation of insulin secretion; and response to amphetamine. Located in cytosol. Part of calcineurin complex. Is active in synapse. Colocalizes with slit diaphragm. Biomarker of kidney disease. Human ortholog(s) of this gene implicated in developmental and epileptic encephalopathy 91. Orthologous to human PPP3CA (protein phosphatase 3 catalytic subunit alpha); PARTICIPATES IN calcineurin signaling pathway; dopamine signaling pathway; interleukin-12 signaling pathway; INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: calcineurin subunit A alpha; calmodulin-dependent calcineurin A subunit alpha isoform; Calna1; CAM-PRP catalytic subunit; protein phosphatase 3 (formerly 2B), catalytic subunit, alpha isoform; protein phosphatase 3, catalytic subunit, alpha isoform; protein phosphatase 3, catalytic subunit, alpha isozyme; protein phosphatase-2Ba; serine/threonine-protein phosphatase 2B catalytic subunit alpha isoform
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22225,165,981 - 225,440,978 (+)NCBI
Rnor_6.0 Ensembl2241,909,832 - 242,184,854 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.02241,909,332 - 242,186,861 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02260,463,144 - 260,737,186 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42234,130,176 - 234,409,232 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12234,116,915 - 234,395,972 (+)NCBI
Celera2217,359,756 - 217,630,340 (+)NCBICelera
Cytogenetic Map2q43NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2,3-Trichloropropane  (ISO)
1,2-dimethylhydrazine  (ISO)
1-chloro-2,4-dinitrobenzene  (ISO)
17beta-estradiol  (EXP,ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dinitrotoluene  (EXP)
2-deoxy-D-glucose  (ISO)
3,4-methylenedioxymethamphetamine  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
3H-1,2-dithiole-3-thione  (EXP)
4,4'-diaminodiphenylmethane  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-amino-2,6-dinitrotoluene  (EXP)
4-hydroxynon-2-enal  (ISO)
5-fluorouracil  (ISO)
6-propyl-2-thiouracil  (EXP)
acetamide  (EXP)
acetazolamide  (ISO)
acrolein  (ISO)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
alpha-pinene  (ISO)
ammonium chloride  (EXP)
aristolochic acid  (ISO)
Aroclor 1254  (ISO)
arsenous acid  (EXP,ISO)
atorvastatin calcium  (EXP)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
benzyl acetate  (ISO)
bis(2-chloroethyl) sulfide  (EXP,ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
cadmium dichloride  (EXP,ISO)
calcitriol  (ISO)
capsaicin  (EXP)
carbamazepine  (EXP)
carbon nanotube  (ISO)
chlorendic acid  (ISO)
chlorpyrifos  (ISO)
cisplatin  (ISO)
clozapine  (EXP)
cocaine  (EXP)
copper atom  (ISO)
copper(0)  (ISO)
cyclosporin A  (EXP,ISO)
cypermethrin  (ISO)
dexamethasone  (ISO)
diallyl disulfide  (EXP)
diarsenic trioxide  (EXP,ISO)
dimercaprol  (ISO)
diphenylmethane-4,4'-diisocyanate  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
entinostat  (ISO)
ethanol  (EXP,ISO)
famotidine  (EXP)
fenofibrate  (ISO)
flavonoids  (EXP)
flutamide  (EXP)
formaldehyde  (ISO)
fulvestrant  (ISO)
furan  (EXP)
gamma-tocopherol  (ISO)
glyphosate  (ISO)
haloperidol  (EXP)
histamine  (EXP)
hydrogen peroxide  (ISO)
indometacin  (ISO)
irinotecan  (ISO)
lipopolysaccharide  (EXP)
methamphetamine  (EXP)
methapyrilene  (EXP)
methotrexate  (ISO)
methylmercury chloride  (ISO)
metoprolol  (EXP)
nitric oxide  (ISO)
oxaliplatin  (EXP)
ozone  (ISO)
paracetamol  (ISO)
paraquat  (ISO)
perfluorooctane-1-sulfonic acid  (EXP)
perindopril  (EXP)
phenobarbital  (ISO)
pirinixic acid  (ISO)
piroxicam  (ISO)
propiconazole  (ISO)
quercetin  (ISO)
rimonabant  (ISO)
risperidone  (EXP)
S-butyl-DL-homocysteine (S,R)-sulfoximine  (ISO)
SB 431542  (ISO)
SCH 23390  (EXP)
silicon dioxide  (EXP)
sodium arsenite  (ISO)
sodium fluoride  (ISO)
Soman  (EXP)
staurosporine  (ISO)
tacrolimus hydrate  (ISO)
tert-butyl hydroperoxide  (ISO)
thapsigargin  (ISO)
tocopherol  (ISO)
topotecan  (EXP)
trichloroethene  (EXP,ISO)
triphenyl phosphate  (EXP)
troglitazone  (ISO)
tungsten  (ISO)
tunicamycin  (ISO)
Tylophorine  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
aging  (IEP)
brain development  (IEP)
calcineurin-mediated signaling  (IBA,ISO)
calcineurin-NFAT signaling cascade  (IBA,ISO)
calcium ion transport  (ISO)
calcium-mediated signaling  (ISO)
cardiac muscle hypertrophy in response to stress  (ISO)
cellular response to glucose stimulus  (IMP)
dephosphorylation  (ISO)
excitatory postsynaptic potential  (ISO)
G1/S transition of mitotic cell cycle  (ISO)
modulation of chemical synaptic transmission  (ISO)
multicellular organismal response to stress  (ISO)
negative regulation of calcium ion-dependent exocytosis  (IC)
negative regulation of chromatin binding  (ISO)
negative regulation of dendrite morphogenesis  (ISO)
negative regulation of gene expression  (ISO)
negative regulation of insulin secretion  (IMP)
negative regulation of production of miRNAs involved in gene silencing by miRNA  (ISO)
peptidyl-serine dephosphorylation  (ISO)
positive regulation of cardiac muscle hypertrophy  (ISO)
positive regulation of cardiac muscle hypertrophy in response to stress  (ISO)
positive regulation of cell adhesion  (ISO)
positive regulation of cell migration  (ISO)
positive regulation of connective tissue replacement  (ISO)
positive regulation of DNA-binding transcription factor activity  (ISO)
positive regulation of endocytosis  (ISO)
positive regulation of gene expression  (ISO)
positive regulation of transcription by RNA polymerase II  (ISO)
postsynaptic modulation of chemical synaptic transmission  (ISO)
protein dephosphorylation  (IDA,ISO)
protein import into nucleus  (ISO)
response to amphetamine  (IEP)
response to calcium ion  (ISO,ISS)
skeletal muscle fiber development  (ISO)
transition between fast and slow fiber  (ISO)

Cellular Component

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
1. Abe T, etal., Brain Res. 2004 May 29;1009(1-2):159-68.
2. Agbas A, etal., Brain Res. 2005 Oct 12;1059(1):59-71. Epub 2005 Sep 8.
3. Bales JW, etal., J Neurotrauma. 2010 Jan;27(1):109-20.
4. Dupont-Versteegden EE, etal., Am J Physiol Cell Physiol 2002 Jun;282(6):C1387-95.
5. Eastwood SL, etal., Biol Psychiatry. 2005 Apr 1;57(7):702-10. doi: 10.1016/j.biopsych.2004.12.029.
6. Eastwood SL, etal., Eur J Neurosci. 2005 Dec;22(12):3017-24.
7. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
8. Gillis AM, etal., Cardiovasc Res. 2004 Dec 1;64(3):488-95.
9. GOA data from the GO Consortium
10. Gooch JL, etal., Am J Physiol Renal Physiol 2003 Jan;284(1):F144-54.
11. Itakura M, etal., FEBS J. 2014 Mar;281(5):1366-78. doi: 10.1111/febs.12708. Epub 2014 Jan 27.
12. Ito A, etal., Biochem Biophys Res Commun 1989 Sep 29;163(3):1492-7.
13. KEGG
14. Koulmann N, etal., Am J Respir Crit Care Med. 2006 Jun 23;.
15. Kuno T, etal., J Neurochem. 1992 May;58(5):1643-51.
16. Lin X, etal., J Biol Chem. 1999 Dec 17;274(51):36125-31.
17. Lin XH, etal., Synapse 2002 Jun 1;44(3):181-7.
18. Mansuy IM, etal., Cell 1998 Jan 9;92(1):39-49.
19. Martin LJ, etal., Toxicol Sci. 2007 Dec;100(2):474-85. doi: 10.1093/toxsci/kfm229. Epub 2007 Sep 4.
20. MGD data from the GO Consortium
21. Molkentin JD, etal., Cell. 1998 Apr 17;93(2):215-28.
22. NCBI rat LocusLink and RefSeq merged data July 26, 2002
23. Perrino BA, etal., Eur J Biochem 2002 Jul;269(14):3540-8.
24. Perrino BA, etal., J Biol Chem 1992 Aug 5;267(22):15965-9.
25. Pipeline to import KEGG annotations from KEGG into RGD
26. Pipeline to import Pathway Interaction Database annotations from NCI into RGD
27. RGD automated import pipeline for gene-chemical interactions
28. Rodriguez A, etal., J Biol Chem. 2005 Mar 18;280(11):9980-4. Epub 2005 Jan 25.
29. Rosengren AH, etal., Science. 2010 Jan 8;327(5962):217-20. Epub 2009 Nov 19.
30. Shibasaki F and McKeon F, J Cell Biol. 1995 Nov;131(3):735-43.
31. Tandan S, etal., Circ Res. 2009 Jul 2;105(1):51-60. doi: 10.1161/CIRCRESAHA.109.199828. Epub 2009 May 28.
32. Vega RB, etal., Proc Natl Acad Sci U S A 2003 Jan 21;100(2):669-74. Epub 2003 Jan 6.
33. Wakamatsu A, etal., Physiol Rep. 2016 Mar;4(6). pii: e12679. doi: 10.14814/phy2.12679.
34. Wilkins BJ and Molkentin JD, Biochem Biophys Res Commun. 2004 Oct 1;322(4):1178-91.
35. Woolley SM, etal., J Thorac Cardiovasc Surg. 2004 Feb;127(2):376-84.
36. Wu J, etal., J Clin Invest. 2015 Nov 2;125(11):4091-106. doi: 10.1172/JCI81061. Epub 2015 Oct 5.
37. Xifro X, etal., Neurobiol Dis. 2009 Dec;36(3):461-9. Epub 2009 Sep 4.
38. Ye Q, etal., Cell Signal. 2013 Dec;25(12):2661-7. doi: 10.1016/j.cellsig.2013.08.033. Epub 2013 Sep 7.
39. Yger M and Girault JA, Front Behav Neurosci. 2011 Sep 8;5:56. doi: 10.3389/fnbeh.2011.00056. eCollection 2011.
Additional References at PubMed
PMID:1335233   PMID:2174876   PMID:9017603   PMID:9515963   PMID:9515964   PMID:11005320   PMID:11257222   PMID:11782539   PMID:12218175   PMID:12357034   PMID:12370307   PMID:12574411  
PMID:12617961   PMID:12660151   PMID:12808150   PMID:14499481   PMID:14704270   PMID:15153553   PMID:15590926   PMID:15665106   PMID:15955804   PMID:16024798   PMID:16103353   PMID:17229811  
PMID:17303652   PMID:17428973   PMID:18384083   PMID:18398669   PMID:18600431   PMID:18676376   PMID:18815128   PMID:18957384   PMID:19154138   PMID:19188439   PMID:19287093   PMID:19292454  
PMID:19404396   PMID:19560418   PMID:19717566   PMID:19883655   PMID:19916857   PMID:20032460   PMID:20051248   PMID:20132097   PMID:20359506   PMID:20422345   PMID:20654708   PMID:21427212  
PMID:21440552   PMID:21596102   PMID:21730063   PMID:21740891   PMID:21784900   PMID:21785830   PMID:22305959   PMID:22343722   PMID:22688515   PMID:22871113   PMID:23139767   PMID:23261540  
PMID:23302338   PMID:23407945   PMID:23468591   PMID:23549689   PMID:23602566   PMID:23699505   PMID:24161931   PMID:24298017   PMID:24434520   PMID:24657879   PMID:25793374   PMID:26248042  
PMID:26794871   PMID:26936604   PMID:27974827   PMID:28153703   PMID:28478803   PMID:29229832   PMID:29299811   PMID:29476059   PMID:30176218   PMID:30611118   PMID:31388960   PMID:31486013  
PMID:31584202   PMID:34064311  


Genomics

Comparative Map Data
Ppp3ca
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22225,165,981 - 225,440,978 (+)NCBI
Rnor_6.0 Ensembl2241,909,832 - 242,184,854 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.02241,909,332 - 242,186,861 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02260,463,144 - 260,737,186 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42234,130,176 - 234,409,232 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12234,116,915 - 234,395,972 (+)NCBI
Celera2217,359,756 - 217,630,340 (+)NCBICelera
Cytogenetic Map2q43NCBI
PPP3CA
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl4101,023,409 - 101,348,278 (-)EnsemblGRCh38hg38GRCh38
GRCh384101,023,418 - 101,348,295 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh374101,944,575 - 102,268,683 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 364102,163,610 - 102,487,376 (-)NCBINCBI36hg18NCBI36
Build 344102,301,764 - 102,625,531NCBI
Celera499,241,833 - 99,567,826 (-)NCBI
Cytogenetic Map4q24NCBI
HuRef497,682,764 - 98,006,594 (-)NCBIHuRef
CHM1_14101,921,069 - 102,245,098 (-)NCBICHM1_1
Ppp3ca
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm393136,375,778 - 136,643,488 (+)NCBIGRCm39mm39
GRCm39 Ensembl3136,375,885 - 136,643,488 (+)Ensembl
GRCm383136,669,714 - 136,937,727 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl3136,670,124 - 136,937,727 (+)EnsemblGRCm38mm10GRCm38
MGSCv373136,333,734 - 136,598,743 (+)NCBIGRCm37mm9NCBIm37
MGSCv363136,608,157 - 136,873,166 (+)NCBImm8
Celera3143,090,942 - 143,357,512 (+)NCBICelera
Cytogenetic Map3G3NCBI
Ppp3ca
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554966,908,224 - 7,059,816 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554966,934,542 - 7,059,745 (+)NCBIChiLan1.0ChiLan1.0
PPP3CA
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.14104,113,512 - 104,435,954 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl4104,113,520 - 104,435,394 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0493,447,095 - 93,770,339 (-)NCBIMhudiblu_PPA_v0panPan3
PPP3CA
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13222,688,141 - 22,996,693 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3222,688,143 - 22,996,688 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3218,960,549 - 19,234,052 (+)NCBI
ROS_Cfam_1.03222,910,701 - 23,219,264 (-)NCBI
UMICH_Zoey_3.13222,888,729 - 23,197,885 (-)NCBI
UNSW_CanFamBas_1.03222,670,376 - 22,979,752 (-)NCBI
UU_Cfam_GSD_1.03216,885,817 - 17,195,548 (+)NCBI
Ppp3ca
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530118,494,657 - 18,802,106 (+)NCBI
SpeTri2.0NW_0049365201,987,989 - 2,146,473 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PPP3CA
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl8119,428,743 - 119,754,650 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.18119,429,181 - 119,754,615 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.28128,461,857 - 128,883,250 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PPP3CA
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1749,149,044 - 49,478,796 (-)NCBI
ChlSab1.1 Ensembl749,148,933 - 49,321,013 (-)Ensembl
Vero_WHO_p1.0NW_02366603727,622,035 - 27,951,191 (-)NCBI
Ppp3ca
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248306,318,352 - 6,584,232 (+)NCBI

Position Markers
J05479  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22225,438,482 - 225,438,647 (+)MAPPER
Rnor_6.02242,184,363 - 242,184,527NCBIRnor6.0
Rnor_5.02260,734,797 - 260,734,961UniSTSRnor5.0
RGSC_v3.42234,408,733 - 234,408,897UniSTSRGSC3.4
Celera2217,629,841 - 217,630,005UniSTS
Cytogenetic Map2q43UniSTS
BF415569  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22225,329,115 - 225,329,214 (+)MAPPER
Rnor_6.02242,074,892 - 242,074,990NCBIRnor6.0
Rnor_5.02260,625,878 - 260,625,976UniSTSRnor5.0
RGSC_v3.42234,294,573 - 234,294,671UniSTSRGSC3.4
Celera2217,521,077 - 217,521,175UniSTS
RH 3.4 Map21592.7UniSTS
Cytogenetic Map2q43UniSTS
SHGC-67255  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22225,438,449 - 225,438,555 (+)MAPPER
Rnor_6.02242,184,330 - 242,184,435NCBIRnor6.0
Rnor_5.02260,734,764 - 260,734,869UniSTSRnor5.0
RGSC_v3.42234,408,700 - 234,408,805UniSTSRGSC3.4
Celera2217,629,808 - 217,629,913UniSTS
Cytogenetic Map2q43UniSTS
RH142476  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22225,303,513 - 225,303,669 (+)MAPPER
Rnor_6.02242,049,287 - 242,049,442NCBIRnor6.0
Rnor_5.02260,600,273 - 260,600,428UniSTSRnor5.0
RGSC_v3.42234,268,968 - 234,269,123UniSTSRGSC3.4
Celera2217,495,936 - 217,496,091UniSTS
RH 3.4 Map21581.1UniSTS
Cytogenetic Map2q43UniSTS
RH137817  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22225,214,161 - 225,214,379 (+)MAPPER
Rnor_6.02241,957,922 - 241,958,139NCBIRnor6.0
Rnor_5.02260,511,207 - 260,511,424UniSTSRnor5.0
RGSC_v3.42234,178,055 - 234,178,272UniSTSRGSC3.4
Celera2217,407,561 - 217,407,778UniSTS
RH 3.4 Map21567.6UniSTS
Cytogenetic Map2q43UniSTS
RH138256  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22225,298,708 - 225,298,881 (+)MAPPER
Rnor_6.02242,044,484 - 242,044,656NCBIRnor6.0
Rnor_5.02260,595,470 - 260,595,642UniSTSRnor5.0
RGSC_v3.42234,264,165 - 234,264,337UniSTSRGSC3.4
Celera2217,491,135 - 217,491,307UniSTS
RH 3.4 Map21573.6UniSTS
Cytogenetic Map2q43UniSTS
BF416075  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22225,322,033 - 225,322,249 (+)MAPPER
Rnor_6.02242,067,810 - 242,068,025NCBIRnor6.0
Rnor_5.02260,618,796 - 260,619,011UniSTSRnor5.0
RGSC_v3.42234,287,491 - 234,287,706UniSTSRGSC3.4
Celera2217,513,995 - 217,514,210UniSTS
RH 3.4 Map21580.0UniSTS
Cytogenetic Map2q43UniSTS
BE119888  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22225,421,869 - 225,422,064 (+)MAPPER
Rnor_6.02242,167,753 - 242,167,947NCBIRnor6.0
Rnor_5.02260,718,187 - 260,718,381UniSTSRnor5.0
RGSC_v3.42234,392,123 - 234,392,317UniSTSRGSC3.4
Celera2217,613,225 - 217,613,419UniSTS
RH 3.4 Map21592.8UniSTS
Cytogenetic Map2q43UniSTS
PPP3CA  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22225,380,592 - 225,380,703 (+)MAPPER
Rnor_6.02242,126,349 - 242,126,459NCBIRnor6.0
Rnor_5.02260,677,565 - 260,677,675UniSTSRnor5.0
RGSC_v3.42234,347,230 - 234,347,340UniSTSRGSC3.4
Celera2217,572,533 - 217,572,643UniSTS
Cytogenetic Map2q43UniSTS
PPP3CA  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22225,438,480 - 225,438,848 (+)MAPPER
Rnor_6.02242,184,361 - 242,184,728NCBIRnor6.0
Rnor_5.02260,734,795 - 260,735,162UniSTSRnor5.0
RGSC_v3.42234,408,731 - 234,409,098UniSTSRGSC3.4
Celera2217,629,839 - 217,630,206UniSTS
Cytogenetic Map2q43UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2293833Kiddil8Kidney dilation QTL 82.9kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)2236318496264899009Rat
2293844Kiddil7Kidney dilation QTL 73.5kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)2236318496264899009Rat
1331767Hrtrt12Heart rate QTL 123.373heart pumping trait (VT:2000009)heart rate (CMO:0000002)2235289967257110527Rat
1298075Scl17Serum cholesterol level QTL 173.4blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)2228712271266435125Rat
1581499Esta2Estrogen-induced thymic atrophy QTL 2thymus mass (VT:0004954)thymus wet weight (CMO:0000855)2204585642243689611Rat
2317885Alcrsp28Alcohol response QTL 282.10.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2229793522266435125Rat
738013Alc15Alcohol consumption QTL 154.10.00022consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)2199380312244380312Rat
631514Scl8Serum cholesterol level QTL84.4blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)2231621666266435125Rat
1300126Bp175Blood pressure QTL 1753.46arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2229606682264899009Rat
1641891Alcrsp17Alcohol response QTL 17response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2155965557254121739Rat
1598813Memor9Memory QTL 92.7exploratory behavior trait (VT:0010471)average horizontal distance in proximity to the target during voluntary locomotion in an experimental apparatus (CMO:0002674)2214870793251212353Rat
1598835Anxrr18Anxiety related response QTL 182.98body movement coordination trait (VT:0005424)number of rearing movements in an experimental apparatus (CMO:0001752)2217743855262743855Rat
2301408Kidm36Kidney mass QTL 360.002kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)2205583921243562243Rat
2298479Eau5Experimental allergic uveoretinitis QTL 50.0021uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)2217498545254132424Rat
1354648Bp239Blood pressure QTL 2390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)266828236243550655Rat
1354649Kidm17Kidney mass QTL 172.9kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)283819608243901375Rat
2299161Iddm33Insulin dependent diabetes mellitus QTL 332.98blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)2221488355254121739Rat
1359019Hrtrt19Heart rate QTL 192.9heart pumping trait (VT:2000009)heart rate (CMO:0000002)2236318496243026643Rat
1549836Bss2Bone structure and strength QTL 27.5femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)2228712271266435125Rat
2306901Bp337Blood pressure QTL 3370.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2177680772243901375Rat
2313073Bmd75Bone mineral density QTL 754.10.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)2231224020254132424Rat
2317752Glom23Glomerulus QTL 233.6urine protein amount (VT:0005160)urine protein level (CMO:0000591)2208594330263179188Rat
61366Iddm3Insulin dependent diabetes mellitus QTL 34.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)2204585642249585642Rat
61398Bp50Blood pressure QTL 504.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2204585642249585642Rat
8693622Alc26Alcohol consumption QTL 262.40.667drinking behavior trait (VT:0001422)calculated ethanol drink intake rate (CMO:0001615)2237712398257579826Rat
8694435Bw166Body weight QTL 16614.080.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)2197253963242253963Rat
9587428Epfw6Epididymal fat weight QTL 67.470.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)2240679103266435125Rat
9589044Scfw1Subcutaneous fat weight QTL 15.80.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)2197253963242253963Rat
8694383Bw158Body weight QTL 1587.690.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)2197253963242253963Rat
7207490Bss111Bone structure and strength QTL 1116.4femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)2228712271266435125Rat
7411555Bw132Body weight QTL 1320.001body mass (VT:0001259)body weight gain (CMO:0000420)2240679103266435125Rat
8662843Vetf9Vascular elastic tissue fragility QTL 92.05thoracic aorta molecular composition trait (VT:0010568)aorta wall extracellular elastin dry weight to aorta wall extracellular collagen weight ratio (CMO:0002003)2169852670243026643Rat
7207482Bss107Bone structure and strength QTL 1077femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)2228712271266435125Rat
7207484Bss108Bone structure and strength QTL 1085.3femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)2228712271266435125Rat
8694194Abfw1Abdominal fat weight QTL 111.70.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)2197253963242253963Rat
8693697Alc36Alcohol consumption QTL 3620.592drinking behavior trait (VT:0001422)calculated ethanol drink intake rate (CMO:0001615)2233013605253626471Rat
10755499Bp389Blood pressure QTL 3892.61arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)216679272245624402Rat

miRNA Target Status

Confirmed Target Of
miRNA GeneMature miRNAMethod NameResult TypeData TypeSupport TypePMID
Mir499arno-miR-499-5pMirtarbaseexternal_infoLuciferase reporter assay//qRT-PCR//Western blotFunctional MTI21186368

Predicted Target Of
Summary Value
Count of predictions:188
Count of miRNA genes:138
Interacting mature miRNAs:160
Transcripts:ENSRNOT00000047975
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 3 43 57 41 19 41 8 11 74 35 38 11 8
Low 3
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_017041 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006233363 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006233364 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039101742 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AF452728 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY724517 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473952 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  D90035 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ212108 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ212355 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ212693 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ212817 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ213738 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ230188 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000079 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M29275 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M58440 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X57115 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000047975   ⟹   ENSRNOP00000049674
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl2241,909,832 - 242,184,854 (+)Ensembl
RefSeq Acc Id: NM_017041   ⟹   NP_058737
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22225,166,111 - 225,438,982 (+)NCBI
Rnor_6.02241,909,832 - 242,184,862 (+)NCBI
Rnor_5.02260,463,144 - 260,737,186 (+)NCBI
RGSC_v3.42234,130,176 - 234,409,232 (+)RGD
Celera2217,359,756 - 217,630,340 (+)RGD
Sequence:
RefSeq Acc Id: XM_006233363   ⟹   XP_006233425
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22225,165,981 - 225,440,106 (+)NCBI
Rnor_6.02241,909,332 - 242,186,858 (+)NCBI
Rnor_5.02260,463,144 - 260,737,186 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039101742   ⟹   XP_038957670
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22225,167,101 - 225,440,978 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_058737   ⟸   NM_017041
- UniProtKB: P63329 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006233425   ⟸   XM_006233363
- Peptide Label: isoform X1
- UniProtKB: P63329 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000049674   ⟸   ENSRNOT00000047975
RefSeq Acc Id: XP_038957670   ⟸   XM_039101742
- Peptide Label: isoform X2

Transcriptome

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

Promoters
RGD ID:13691775
Promoter ID:EPDNEW_R2300
Type:initiation region
Name:Ppp3ca_1
Description:protein phosphatase 3 catalytic subunit alpha
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_6.02241,909,882 - 241,909,942EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/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)
ACI/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
ACI/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
BBDP/Wor (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
BN/SsN (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
Buf/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
COP/CrCrl (MCW & UW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
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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
F344/NRrrc (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
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)
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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
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/Ox (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
LE/Stm (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
LEW/Crl (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
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
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
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
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
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
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 (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
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)
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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)
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
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 (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 (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)
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
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 (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 (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/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 (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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:3382 AgrOrtholog
Ensembl Genes ENSRNOG00000009882 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000049674 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000047975 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 3.60.21.10 UniProtKB/Swiss-Prot
InterPro Calcineurin-like_PHP_ApaH UniProtKB/Swiss-Prot
  Metallo-depent_PP-like UniProtKB/Swiss-Prot
  MPP_PP2B UniProtKB/Swiss-Prot
  PP2B UniProtKB/Swiss-Prot
  Ser/Thr-sp_prot-phosphatase UniProtKB/Swiss-Prot
KEGG Report rno:24674 UniProtKB/Swiss-Prot
NCBI Gene 24674 ENTREZGENE
PANTHER PTHR45673 UniProtKB/Swiss-Prot
Pfam Metallophos UniProtKB/Swiss-Prot
PhenoGen Ppp3ca PhenoGen
PRINTS STPHPHTASE UniProtKB/Swiss-Prot
PROSITE SER_THR_PHOSPHATASE UniProtKB/Swiss-Prot
SMART PP2Ac UniProtKB/Swiss-Prot
UniProt P63329 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary P12816 UniProtKB/Swiss-Prot
  P20652 UniProtKB/Swiss-Prot
  Q6LDJ8 UniProtKB/Swiss-Prot
  Q9WUV7 UniProtKB/Swiss-Prot
  Q9Z1I5 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-17 Ppp3ca  protein phosphatase 3 catalytic subunit alpha  Ppp3ca  protein phosphatase 3, catalytic subunit, alpha isozyme  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-06-26 Ppp3ca  protein phosphatase 3, catalytic subunit, alpha isozyme  Ppp3ca  protein phosphatase 3, catalytic subunit, alpha isoform  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-04-23 Ppp3ca  protein phosphatase 3, catalytic subunit, alpha isoform  Ppp3ca  protein phosphatase 3 (formerly 2B), catalytic subunit, alpha isoform  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-12-15 Ppp3ca  protein phosphatase 3 (formerly 2B), catalytic subunit, alpha isoform  Ppp3ca  protein phosphatase 3, catalytic subunit, alpha isoform  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2001-10-24 Ppp3ca  protein phosphatase 3, catalytic subunit, alpha isoform      Name updated to reflect Human and Mouse nomenclature 68913 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_disease inhibition results in whole kidney hypertrophy and abolishes glomerular hypertrophy in diabetic rats 628556
gene_drugs cyclosporin acts as a inhibitor partially blocking the muscle size 628556
gene_drugs cyclosporin A affects protein accumulation and activity 628556
gene_function serine/threonine phosphatase 628556
gene_process may play an important role in glomerular hypertrophy and extracellular matrix accumulation in deabetic nephropathy 628556
gene_process mediates T cell signal transduction 628556
gene_process mediates hypertropic response of muscle cells 628556
gene_process catalytic and calmodulin binding phosphatase subunit is activated by intracellular calcium anions 628398
gene_process increases phosphatase activity by binding to calcium and calmodulin  
gene_protein alpha:beta and CaN:substrate ratios may determine the levels of phosphatase activity toward specific substrates 729536
gene_protein heterodimer of 58-64 kDa 628398
gene_regulation activated by intracellular calcuim and dephosphorylates nuclear factors of activated T cells (NFATs) 628556