Prkcz (protein kinase C, zeta) - Rat Genome Database

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Gene: Prkcz (protein kinase C, zeta) Rattus norvegicus
Analyze
Symbol: Prkcz
Name: protein kinase C, zeta
RGD ID: 3399
Description: Exhibits several functions, including 14-3-3 protein binding activity; enzyme binding activity; and protein kinase C activity. Involved in several processes, including activation of phospholipase D activity; activation of protein kinase B activity; and positive regulation of cell communication. Localizes to several cellular components, including Schaffer collateral - CA1 synapse; glutamatergic synapse; and stress fiber. Used to study hyperglycemia. Biomarker of type 2 diabetes mellitus. Orthologous to human PRKCZ (protein kinase C zeta); PARTICIPATES IN angiotensin II signaling pathway; epidermal growth factor/neuregulin signaling pathway; protein kinase C (PKC) signaling pathway; INTERACTS WITH (+)-pilocarpine; 2,4-dinitrotoluene; 2-methoxyethanol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: 14 - 3 - 3 - zeta isoform; 14-3-3-zetaisoform; nPKC-zeta; Pkcz; protein kinase C zeta type; r14-3-3
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
mRatBN7.25165,817,786 - 165,930,386 (-)NCBI
Rnor_6.0 Ensembl5172,658,748 - 172,769,421 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.05172,658,071 - 172,769,492 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.05176,116,787 - 176,228,206 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45172,061,825 - 172,172,793 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.15172,072,319 - 172,179,534 (-)NCBI
Celera5164,023,257 - 164,132,959 (-)NCBICelera
Cytogenetic Map5q36NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-pilocarpine  (EXP)
(S)-nicotine  (ISO)
1,1-dichloroethene  (ISO)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
2,4-dinitrotoluene  (EXP)
2-methoxyethanol  (EXP)
2-methylcholine  (ISO)
2-nitrotoluene  (EXP)
3,4-methylenedioxymethamphetamine  (ISO)
4,4'-diaminodiphenylmethane  (ISO)
4-amino-2,6-dinitrotoluene  (EXP)
4-hydroxyphenyl retinamide  (ISO)
5-fluorouracil  (ISO)
6-propyl-2-thiouracil  (EXP)
afimoxifene  (ISO)
aflatoxin B1  (ISO)
aflatoxin B2  (ISO)
AICA ribonucleotide  (EXP)
aldehydo-D-glucose  (EXP)
ammonium chloride  (EXP)
amphetamine  (EXP)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
atorvastatin calcium  (EXP)
benzo[a]pyrene  (ISO)
benzo[e]pyrene  (ISO)
bisphenol A  (EXP,ISO)
bromochloroacetic acid  (EXP)
butan-1-ol  (EXP,ISO)
cadmium atom  (ISO)
capsaicin  (ISO)
carbachol  (ISO)
carbon nanotube  (ISO)
CGS-21680  (EXP)
chromium(6+)  (ISO)
cisplatin  (ISO)
clofibrate  (ISO)
clozapine  (EXP)
cocaine  (ISO)
crocidolite asbestos  (ISO)
cycloheximide  (ISO)
cyclosporin A  (ISO)
cytarabine  (ISO)
D-glucose  (EXP)
daunorubicin  (ISO)
deoxycholic acid  (ISO)
diarsenic trioxide  (ISO)
diazinon  (ISO)
dibenzo[a,l]pyrene  (ISO)
dimethylarsinic acid  (EXP)
disodium selenite  (ISO)
doxorubicin  (ISO)
endosulfan  (EXP)
ethanol  (EXP,ISO)
etoposide  (ISO)
formaldehyde  (ISO)
fructose  (EXP)
genistein  (EXP)
glucose  (EXP)
haloperidol  (EXP)
hydrogen peroxide  (ISO)
lipopolysaccharide  (ISO)
LY294002  (ISO)
maneb  (ISO)
methapyrilene  (ISO)
methoxyacetic acid  (EXP)
methylazoxymethanol  (ISO)
mitomycin C  (ISO)
myriocin  (ISO)
N-nitrosodiethylamine  (EXP)
N-nitrosodimethylamine  (EXP)
nickel atom  (ISO)
nicotine  (ISO)
Nor-9-carboxy-delta9-THC  (ISO)
paracetamol  (ISO)
paraquat  (ISO)
phenethyl isothiocyanate  (ISO)
phenylephrine  (EXP)
phorbol 12,13-dibutanoate  (ISO)
phorbol 13-acetate 12-myristate  (EXP,ISO)
phosphatidic acid  (EXP,ISO)
pirinixic acid  (ISO)
progesterone  (ISO)
protein kinase inhibitor  (EXP,ISO)
quercetin  (ISO)
raloxifene  (ISO)
riddelliine  (EXP)
Se-methyl-L-selenocysteine  (ISO)
Se-methylselenocysteine  (ISO)
selenomethionine  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenite  (ISO)
T-2 toxin  (EXP)
tamoxifen  (ISO)
testosterone  (ISO)
tetrachloromethane  (EXP)
toluene  (EXP)
trichostatin A  (ISO)
troglitazone  (ISO)
valproic acid  (ISO)
vanadium atom  (ISO)
vanadium(0)  (ISO)
vancomycin  (ISO)
vinclozolin  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
activation of phospholipase D activity  (IMP)
activation of protein kinase B activity  (IMP)
cell migration  (IMP)
cell surface receptor signaling pathway  (IMP)
cellular protein localization  (IMP)
cellular response to insulin stimulus  (IMP)
establishment of cell polarity  (IMP)
inflammatory response  (IEA)
intracellular signal transduction  (IBA,IDA)
long-term memory  (IMP)
long-term synaptic potentiation  (IMP)
membrane depolarization  (IMP)
membrane hyperpolarization  (IMP)
microtubule cytoskeleton organization  (ISO)
negative regulation of apoptotic process  (IDA)
negative regulation of hydrolase activity  (IDA)
negative regulation of insulin receptor signaling pathway  (ISO)
negative regulation of peptidyl-tyrosine phosphorylation  (ISO)
negative regulation of protein-containing complex assembly  (ISO)
neuron projection extension  (ISO)
peptidyl-serine phosphorylation  (IBA,IDA,ISO)
positive regulation of cell population proliferation  (IMP)
positive regulation of cell-matrix adhesion  (IMP)
positive regulation of ERK1 and ERK2 cascade  (IMP,ISO,ISS)
positive regulation of excitatory postsynaptic potential  (IDA)
positive regulation of insulin receptor signaling pathway  (IMP)
positive regulation of interleukin-10 production  (ISO,ISS)
positive regulation of interleukin-13 production  (ISO,ISS)
positive regulation of interleukin-4 production  (ISO,ISS)
positive regulation of interleukin-5 production  (ISO,ISS)
positive regulation of NF-kappaB transcription factor activity  (IMP)
positive regulation of protein transport  (IMP)
positive regulation of synaptic transmission  (IMP)
positive regulation of T-helper 2 cell cytokine production  (ISO,ISS)
positive regulation of T-helper 2 cell differentiation  (ISO,ISS)
protein kinase C signaling  (IMP)
protein localization to plasma membrane  (ISO)
protein phosphorylation  (IDA,ISO)
regulation of neurotransmitter receptor localization to postsynaptic specialization membrane  (IDA,IMP)
signal transduction  (IDA)
vesicle transport along microtubule  (IMP)

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
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2. Barros SA, etal., J Biol Chem. 2009 Jan 30;284(5):2672-9. Epub 2008 Nov 21.
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4. Charruyer A, etal., Biochem J. 2007 Jul 1;405(1):77-83.
5. Chou MM, etal., Curr Biol. 1998 Sep 24;8(19):1069-77.
6. Croci C, etal., J Biol Chem 2003 Feb 21;278(8):6128-35.
7. Esteve PO, etal., J Biol Chem 2002 Sep 20;277(38):35150-5.
8. Etienne-Manneville S and Hall A, Cell. 2001 Aug 24;106(4):489-98.
9. Fox TE, etal., J Biol Chem. 2007 Apr 27;282(17):12450-7. Epub 2007 Feb 17.
10. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
11. GOA data from the GO Consortium
12. Gong J, etal., Science. 1999 Sep 3;285(5433):1565-9.
13. Gonzalez IH, etal., Apoptosis. 2007 Apr;12(4):769-79.
14. Hennige AM, etal., Biochem Biophys Res Commun 2002 Jan 11;290(1):85-90.
15. Hernández AI, etal., Philos Trans R Soc Lond B Biol Sci. 2013 Dec 2;369(1633):20130140. doi: 10.1098/rstb.2013.0140. Print 2014 Jan 5.
16. Hodgkinson CP, etal., Biochem J. 2005 Jun 15;388(Pt 3):785-93.
17. Holmes K, etal., Cell Signal. 2007 Oct;19(10):2003-12. Epub 2007 Jun 12.
18. Kim Y, etal., Neuroscience. 2004;125(2):359-68.
19. Kim YB, etal., Diabetes. 2003 Aug;52(8):1935-42.
20. Kim YB, etal., J Biol Chem 2002 Sep 6;277(36):32915-22.
21. Kuroda S, etal., J Cell Biol 1999 Feb 8;144(3):403-11.
22. Lamark T, etal., J Biol Chem. 2003 Sep 5;278(36):34568-81. Epub 2003 Jun 17.
23. Ling DS, etal., Nat Neurosci. 2002 Apr;5(4):295-6.
24. Liu LZ, etal., Cell Signal. 2010 Oct;22(10):1513-22. Epub 2010 Jun 4.
25. Liu LZ, etal., Mol Biol Cell. 2006 May;17(5):2322-30. Epub 2006 Mar 8.
26. Mahadev K and Vemuri MC, Arch Biochem Biophys. 1998 Aug 15;356(2):249-57.
27. McConkey M, etal., J Biol Chem. 2004 May 14;279(20):20882-8. Epub 2004 Mar 8.
28. MGD data from the GO Consortium
29. Miura A, etal., Metabolism 2003 Jan;52(1):19-24.
30. Newton AC Am J Physiol Endocrinol Metab. 2010 Mar;298(3):E395-402. Epub 2009 Nov 24.
31. Ono Y, etal., J Biol Chem 1988 May 15;263(14):6927-32.
32. Ono Y, etal., Proc Natl Acad Sci U S A 1989 May;86(9):3099-103.
33. Parmentier JH, etal., Am J Physiol Heart Circ Physiol. 2006 Jan;290(1):H46-54. Epub 2005 Aug 19.
34. Parmentier JH, etal., Am J Physiol Heart Circ Physiol. 2006 Oct;291(4):H1602-13. Epub 2006 May 5.
35. Pipeline to import KEGG annotations from KEGG into RGD
36. Pipeline to import Pathway Interaction Database annotations from NCI into RGD
37. Pipeline to import SMPDB annotations from SMPDB into RGD
38. Ramstrom C, etal., Cell Signal. 2004 Dec;16(12):1417-24.
39. Ravichandran LV, etal., J Biol Chem. 2001 Feb 2;276(5):3543-9. Epub 2000 Nov 3.
40. RGD automated data pipeline
41. RGD automated import pipeline for gene-chemical interactions
42. Rohwer A, etal., Eur J Biochem. 1999 Jul;263(2):518-25.
43. Rosse C, etal., PLoS Biol. 2009 Nov;7(11):e1000235. Epub 2009 Nov 3.
44. Ryu J, etal., Arch Biochem Biophys 2002 Jul 1;403(1):71-82.
45. Sarkar S, etal., Traffic. 2006 Aug;7(8):1078-91. Epub 2006 May 25.
46. Seed Ahmed M, etal., PLoS One. 2015 Sep 23;10(9):e0135781. doi: 10.1371/journal.pone.0135781. eCollection 2015.
47. Sentex E, etal., Can J Physiol Pharmacol. 2006 Feb;84(2):227-38.
48. Serrano P, etal., J Neurosci. 2005 Feb 23;25(8):1979-84.
49. Shema R, etal., Science. 2007 Aug 17;317(5840):951-3.
50. Standaert ML, etal., J Biol Chem. 1997 Nov 28;272(48):30075-82.
51. Steiler TL, etal., Endocrinology. 2003 Dec;144(12):5259-67. Epub 2003 Aug 21.
52. Suzuki A and Ohno S, J Cell Sci. 2006 Mar 15;119(Pt 6):979-87.
53. Tokunaga C, etal., Biochem Biophys Res Commun 1998 Mar 17;244(2):353-9.
54. Vohra BP, etal., J Neurosci. 2007 Aug 29;27(35):9458-68.
55. Yao Y, etal., J Neurosci. 2008 Jul 30;28(31):7820-7. doi: 10.1523/JNEUROSCI.0223-08.2008.
Additional References at PubMed
PMID:3691811   PMID:7575416   PMID:8026469   PMID:8180127   PMID:8694767   PMID:9177193   PMID:10770950   PMID:10882525   PMID:11035106   PMID:11463795   PMID:11699875   PMID:11795668  
PMID:11805100   PMID:12169270   PMID:12242277   PMID:12391145   PMID:12527732   PMID:12551925   PMID:12590138   PMID:12857744   PMID:12871585   PMID:14499501   PMID:14500723   PMID:14580237  
PMID:14711829   PMID:14730360   PMID:15069075   PMID:15081397   PMID:15134463   PMID:15371429   PMID:15723051   PMID:15775979   PMID:15802290   PMID:15882626   PMID:15950600   PMID:15958741  
PMID:15987782   PMID:16085361   PMID:16316329   PMID:16455755   PMID:16510873   PMID:17284668   PMID:17313651   PMID:17416458   PMID:17531159   PMID:17558396   PMID:17653813   PMID:17699685  
PMID:17711990   PMID:17724026   PMID:17728398   PMID:17786270   PMID:17878344   PMID:17893151   PMID:17899301   PMID:17940884   PMID:17941087   PMID:18568943   PMID:18577579   PMID:18636965  
PMID:18640115   PMID:18662671   PMID:18702941   PMID:18815554   PMID:18984560   PMID:19056867   PMID:19088082   PMID:19108606   PMID:19241483   PMID:19254952   PMID:19273501   PMID:19380482  
PMID:19523145   PMID:19625676   PMID:19634944   PMID:19668197   PMID:19806657   PMID:19819945   PMID:20013954   PMID:20237282   PMID:20307614   PMID:20332120   PMID:20383136   PMID:20551175  
PMID:20979579   PMID:21131967   PMID:21248226   PMID:21257729   PMID:21258326   PMID:21385716   PMID:21633338   PMID:21949908   PMID:21975456   PMID:22054645   PMID:22123937   PMID:22153887  
PMID:22185613   PMID:22333836   PMID:22348011   PMID:22378786   PMID:22482911   PMID:22531886   PMID:22659643   PMID:22674720   PMID:22967481   PMID:23035087   PMID:23432726   PMID:24117625  
PMID:24141945   PMID:24312324   PMID:24691733   PMID:25713101   PMID:25722116   PMID:25781645   PMID:25822413   PMID:25948265   PMID:26199377   PMID:26205888   PMID:27076427   PMID:27094369  
PMID:27133433   PMID:27417578   PMID:27498875   PMID:27918276   PMID:28258221   PMID:29202853   PMID:29288797   PMID:30622166   PMID:31026567  


Genomics

Comparative Map Data
Prkcz
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.25165,817,786 - 165,930,386 (-)NCBI
Rnor_6.0 Ensembl5172,658,748 - 172,769,421 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.05172,658,071 - 172,769,492 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.05176,116,787 - 176,228,206 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45172,061,825 - 172,172,793 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.15172,072,319 - 172,179,534 (-)NCBI
Celera5164,023,257 - 164,132,959 (-)NCBICelera
Cytogenetic Map5q36NCBI
PRKCZ
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl12,050,411 - 2,185,395 (+)EnsemblGRCh38hg38GRCh38
GRCh3812,050,411 - 2,185,395 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh3711,981,850 - 2,116,834 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3611,971,769 - 2,106,694 (+)NCBINCBI36hg18NCBI36
Build 3412,014,070 - 2,148,996NCBI
Celera1476,373 - 611,123 (-)NCBI
Cytogenetic Map1p36.33NCBI
HuRef11,259,190 - 1,392,660 (+)NCBIHuRef
CHM1_111,969,035 - 2,101,756 (+)NCBICHM1_1
Prkcz
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm394155,344,575 - 155,445,885 (-)NCBIGRCm39mm39
GRCm39 Ensembl4155,344,586 - 155,445,818 (-)Ensembl
GRCm384155,260,118 - 155,361,428 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl4155,260,129 - 155,361,361 (-)EnsemblGRCm38mm10GRCm38
MGSCv374154,634,229 - 154,735,500 (-)NCBIGRCm37mm9NCBIm37
MGSCv364154,103,920 - 154,205,191 (-)NCBImm8
Celera4157,534,125 - 157,635,425 (-)NCBICelera
Cytogenetic Map4E2NCBI
cM Map486.17NCBI
Prkcz
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554868,947,579 - 9,021,702 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554868,947,579 - 9,021,702 (-)NCBIChiLan1.0ChiLan1.0
PRKCZ
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.111,918,653 - 2,046,236 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl11,920,219 - 2,045,855 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01763,942 - 901,531 (+)NCBIMhudiblu_PPA_v0panPan3
PRKCZ
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1557,012,020 - 57,113,346 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl557,012,070 - 57,112,664 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha557,089,028 - 57,190,338 (+)NCBI
ROS_Cfam_1.0557,215,092 - 57,316,595 (+)NCBI
UMICH_Zoey_3.1557,206,002 - 57,307,319 (+)NCBI
UNSW_CanFamBas_1.0557,098,518 - 57,199,838 (+)NCBI
UU_Cfam_GSD_1.0557,488,367 - 57,589,745 (+)NCBI
Prkcz
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505828,082,811 - 28,162,827 (+)NCBI
SpeTri2.0NW_0049367371,303,502 - 1,383,135 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PRKCZ
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl664,068,575 - 64,163,472 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1664,073,343 - 64,159,187 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2658,385,685 - 58,460,767 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PRKCZ
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.120129,367,309 - 129,502,681 (-)NCBI
ChlSab1.1 Ensembl20129,365,679 - 129,485,818 (-)Ensembl
Vero_WHO_p1.0NW_02366605433,720,444 - 33,872,633 (-)NCBI
Prkcz
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248187,758,192 - 7,846,950 (-)NCBI

Position Markers
BF387071  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25165,856,505 - 165,856,681 (+)MAPPER
Rnor_6.05172,695,873 - 172,696,048NCBIRnor6.0
Rnor_5.05176,154,587 - 176,154,762UniSTSRnor5.0
RGSC_v3.45172,097,807 - 172,097,982UniSTSRGSC3.4
Celera5164,059,333 - 164,059,508UniSTS
RH 3.4 Map51157.0UniSTS
Cytogenetic Map5q36UniSTS
AW526905  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25165,864,617 - 165,864,738 (+)MAPPER
Rnor_6.05172,703,775 - 172,703,895NCBIRnor6.0
Rnor_5.05176,162,489 - 176,162,609UniSTSRnor5.0
RGSC_v3.45172,106,891 - 172,107,011UniSTSRGSC3.4
Celera5164,067,325 - 164,067,445UniSTS
RH 3.4 Map51155.1UniSTS
Cytogenetic Map5q36UniSTS
AW529459  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25165,885,784 - 165,885,981 (+)MAPPER
Rnor_6.05172,724,910 - 172,725,105NCBIRnor6.0
Rnor_5.05176,183,624 - 176,183,819UniSTSRnor5.0
RGSC_v3.45172,128,239 - 172,128,434UniSTSRGSC3.4
Celera5164,088,355 - 164,088,550UniSTS
RH 3.4 Map51157.2UniSTS
Cytogenetic Map5q36UniSTS
Prkcz  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25165,820,203 - 165,820,573 (+)MAPPER
Rnor_6.05172,660,489 - 172,660,858NCBIRnor6.0
Rnor_5.05176,119,203 - 176,119,572UniSTSRnor5.0
RGSC_v3.45172,062,563 - 172,062,932UniSTSRGSC3.4
Celera5164,023,995 - 164,024,364UniSTS
Cytogenetic Map5q36UniSTS
Prkcz  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25165,819,856 - 165,820,078 (+)MAPPER
Rnor_6.05172,660,142 - 172,660,363NCBIRnor6.0
Rnor_5.05176,118,856 - 176,119,077UniSTSRnor5.0
RGSC_v3.45172,062,216 - 172,062,437UniSTSRGSC3.4
Celera5164,023,648 - 164,023,869UniSTS
Cytogenetic Map5q36UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61444Strs2Sensitivity to stroke QTL 24.7cerebrum integrity trait (VT:0010549)post-insult time to onset of cerebrovascular lesion (CMO:0002343)5142309061173707219Rat
724525Bp147Blood pressure QTL 1474.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5132551937173707219Rat
1331721Bp210Blood pressure QTL 2103.413arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)5149029982173687766Rat
631562Apr2Acute phase response QTL 23.7blood murinoglobulin 1 amount (VT:0010597)plasma murinoglobulin 1 level (CMO:0001931)5142307322173707219Rat
738018Anxrr4Anxiety related response QTL 45.1exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)5136354114173707219Rat
631272Lanf1Left ventricular atrial natriuretic factor QTL 112heart left ventricle natriuretic peptide A amount (VT:0010596)heart left ventricle natriuretic peptide A level (CMO:0002165)5157319671173707219Rat
1302790Scl20Serum cholesterol level QTL 206.40.0001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)584963058173504662Rat
1641920Colcs1Colorectal carcinoma susceptibility QTL 12.990.0055intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)5128687766173687766Rat
1598819Bp292Blood pressure QTL 2924.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5133943857173707219Rat
1598861Cm64Cardiac mass QTL 642.9heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)5133943857173707219Rat
634349Bp139Blood pressure QTL 1390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5134197905173707219Rat
1549904Neuinf1Neuroinflammation QTL 130nervous system integrity trait (VT:0010566)blood T lymphocyte count (CMO:0000110)5161084664173707219Rat
7794791Mcs33Mammary carcinoma susceptibility QTL 331.93mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)5136640731173707219Rat
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)5134712342173707219Rat
8694169Bw148Body weight QTL 14850.001body mass (VT:0001259)body weight gain (CMO:0000420)5134712342173707219Rat
10053720Scort26Serum corticosterone level QTL 262.060.0147blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)5131077716173707219Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:216
Count of miRNA genes:146
Interacting mature miRNAs:165
Transcripts:ENSRNOT00000021285
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 68 29 18 11
Low 43 57 41 19 41 8 11 6 6 23 8
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_022507 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006239535 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006239536 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008764337 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593161 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039109309 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039109310 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039109311 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039109312 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AH009282 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473968 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  J04532 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000162 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  L23321 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M18332 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U27191 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000021285   ⟹   ENSRNOP00000021285
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl5172,658,748 - 172,769,421 (-)Ensembl
RefSeq Acc Id: NM_022507   ⟹   NP_071952
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25165,819,466 - 165,930,367 (-)NCBI
Rnor_6.05172,659,751 - 172,769,492 (-)NCBI
Rnor_5.05176,116,787 - 176,228,206 (-)NCBI
RGSC_v3.45172,061,825 - 172,172,793 (-)RGD
Celera5164,023,257 - 164,132,959 (-)RGD
Sequence:
RefSeq Acc Id: XM_006239535   ⟹   XP_006239597
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.05172,658,071 - 172,750,708 (-)NCBI
Rnor_5.05176,116,787 - 176,228,206 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006239536   ⟹   XP_006239598
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25165,817,786 - 165,912,473 (-)NCBI
Rnor_6.05172,658,071 - 172,752,236 (-)NCBI
Rnor_5.05176,116,787 - 176,228,206 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008764337   ⟹   XP_008762559
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.05172,658,071 - 172,768,296 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017593161   ⟹   XP_017448650
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.05172,658,071 - 172,767,297 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039109309   ⟹   XP_038965237
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25165,817,786 - 165,930,386 (-)NCBI
RefSeq Acc Id: XM_039109310   ⟹   XP_038965238
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25165,817,786 - 165,865,727 (-)NCBI
RefSeq Acc Id: XM_039109311   ⟹   XP_038965239
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25165,817,786 - 165,911,500 (-)NCBI
RefSeq Acc Id: XM_039109312   ⟹   XP_038965240
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25165,817,786 - 165,912,473 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_071952   ⟸   NM_022507
- UniProtKB: P09217 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006239598   ⟸   XM_006239536
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_006239597   ⟸   XM_006239535
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_008762559   ⟸   XM_008764337
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017448650   ⟸   XM_017593161
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000021285   ⟸   ENSRNOT00000021285
RefSeq Acc Id: XP_038965237   ⟸   XM_039109309
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038965240   ⟸   XM_039109312
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038965239   ⟸   XM_039109311
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038965238   ⟸   XM_039109310
- Peptide Label: isoform X2
Protein Domains
AGC-kinase C-terminal   PB1   Protein kinase

Transcriptome

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

Promoters
RGD ID:13694319
Promoter ID:EPDNEW_R4843
Type:initiation region
Name:Prkcz_1
Description:protein kinase C, zeta
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_6.05172,769,430 - 172,769,490EPDNEW

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)
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 (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
Damaging Variants


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
5 172764256 172764257 C G snv Buf/N (MCW)
5 172765596 172765597 C T snv WN/N (MCW), F344/NRrrc (MCW), ACI/N (MCW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:3399 AgrOrtholog
Ensembl Genes ENSRNOG00000015480 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000021285 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000021285 ENTREZGENE, UniProtKB/Swiss-Prot
InterPro AGC-kinase_C UniProtKB/Swiss-Prot
  DAG/PE-bd UniProtKB/Swiss-Prot
  Kinase-like_dom_sf UniProtKB/Swiss-Prot
  PB1_aPKC UniProtKB/Swiss-Prot
  PB1_dom UniProtKB/Swiss-Prot
  PE/DAG-bd UniProtKB/Swiss-Prot
  PKC UniProtKB/Swiss-Prot
  Pkinase_C UniProtKB/Swiss-Prot
  Prot_kinase_dom UniProtKB/Swiss-Prot
  Protein_kinase_ATP_BS UniProtKB/Swiss-Prot
  Ser/Thr_kinase_AS UniProtKB/Swiss-Prot
KEGG Report rno:25522 UniProtKB/Swiss-Prot
NCBI Gene 25522 ENTREZGENE
Pfam C1_1 UniProtKB/Swiss-Prot
  PB1 UniProtKB/Swiss-Prot
  Pkinase UniProtKB/Swiss-Prot
  Pkinase_C UniProtKB/Swiss-Prot
PhenoGen Prkcz PhenoGen
PIRSF PKC_zeta UniProtKB/Swiss-Prot
PRINTS DAGPEDOMAIN UniProtKB/Swiss-Prot
PROSITE AGC_KINASE_CTER UniProtKB/Swiss-Prot
  PB1 UniProtKB/Swiss-Prot
  PROTEIN_KINASE_ATP UniProtKB/Swiss-Prot
  PROTEIN_KINASE_DOM UniProtKB/Swiss-Prot
  PROTEIN_KINASE_ST UniProtKB/Swiss-Prot
  ZF_DAG_PE_1 UniProtKB/Swiss-Prot
  ZF_DAG_PE_2 UniProtKB/Swiss-Prot
SMART PB1 UniProtKB/Swiss-Prot
  S_TK_X UniProtKB/Swiss-Prot
  S_TKc UniProtKB/Swiss-Prot
  SM00109 UniProtKB/Swiss-Prot
Superfamily-SCOP SSF56112 UniProtKB/Swiss-Prot
UniProt KPCZ_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2001-07-23 Prkcz  protein kinase C, zeta      Name updated to reflect Human and Mouse nomenclature 67952 APPROVED
2001-07-23 Prkcz  14 - 3 - 3 - zeta isoform      Name withdrawn 67952 WITHDRAWN

RGD Curation Notes
Note Type Note Reference
gene_expression expressed in pancreatic islets 70640
gene_process mediates basal and IGF-1-dependent mitogenesis 61695
gene_process mediates basal and IGF-1-dependent mitogenesis 70640
gene_process enhances PDX-1 transcription factor binding activity after stimulation of IGF-1 in RIN 1046-38 cells 61695
gene_process enhances PDX-1 transcription factor binding activity after stimulation of IGF-1 in RIN 1046-38 cells 70640
gene_regulation induced by IL-1 and TNF-alpha; calcium- and diacylglycerol-insensitive 729628