Prkcb (protein kinase C, beta) - Rat Genome Database

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Gene: Prkcb (protein kinase C, beta) Rattus norvegicus
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Symbol: Prkcb
Name: protein kinase C, beta
RGD ID: 3396
Description: Enables protein kinase C activity. Involved in several processes, including dibenzo-p-dioxin metabolic process; positive regulation of odontogenesis of dentin-containing tooth; and response to vitamin D. Located in brush border membrane; centrosome; and cytosol. Used to study hyperglycemia; hypertension; and silicosis. Biomarker of congestive heart failure; obesity; and status epilepticus. Human ortholog(s) of this gene implicated in dilated cardiomyopathy and lung non-small cell carcinoma. Orthologous to human PRKCB (protein kinase C beta); PARTICIPATES IN insulin signaling pathway; interleukin-2 signaling pathway; protein kinase C (PKC) signaling pathway; INTERACTS WITH (+)-pilocarpine; (9R)-9-[(dimethylamino)methyl]-6,7,10,11-tetrahydro-9H,18H-5,21:12,17-dimethenodibenzo[e,k]pyrrolo[3,4-h][1,4,13]oxadiazacyclohexadecine-18,20-dione; 1-naphthyl isothiocyanate.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: PKC-beta; Pkcb; Prkcb1; Protein kinase C beta; protein kinase C beta I; protein kinase C beta II; protein kinase C beta type; protein kinase C, beta 1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21176,832,173 - 177,163,539 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1176,832,226 - 177,163,536 (+)Ensembl
Rnor_6.01192,233,569 - 192,575,339 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1192,233,910 - 192,574,831 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01199,295,067 - 199,639,140 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41181,117,512 - 181,459,856 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11181,257,931 - 181,599,763 (+)NCBI
Celera1174,677,501 - 174,871,327 (+)NCBICelera
Cytogenetic Map1q36NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-pilocarpine  (EXP,ISO)
(9R)-9-[(dimethylamino)methyl]-6,7,10,11-tetrahydro-9H,18H-5,21:12,17-dimethenodibenzo[e,k]pyrrolo[3,4-h][1,4,13]oxadiazacyclohexadecine-18,20-dione  (EXP,ISO)
(S)-naringenin  (ISO)
(S)-nicotine  (ISO)
1,1-dichloroethene  (ISO)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
1,4-benzoquinone  (ISO)
1-chloro-2,4-dinitrobenzene  (ISO)
1-naphthyl isothiocyanate  (EXP)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,6-dinitrotoluene  (EXP)
3,4-methylenedioxymethamphetamine  (ISO)
3-\{1-[3-(dimethylamino)propyl]-1H-indol-3-yl\}-4-(1H-indol-3-yl)-1H-pyrrole-2,5-dione  (ISO)
3-chloropropane-1,2-diol  (EXP)
3H-1,2-dithiole-3-thione  (EXP)
4,4'-diaminodiphenylmethane  (EXP)
4-hydroxyphenyl retinamide  (ISO)
5-aza-2'-deoxycytidine  (ISO)
7,12-dimethyltetraphene  (ISO)
acetaldehyde  (ISO)
acetamide  (EXP)
acetylsalicylic acid  (ISO)
acrylamide  (EXP)
aflatoxin B1  (EXP)
aldehydo-D-glucose  (EXP,ISO)
all-trans-retinoic acid  (ISO)
alpha-naphthoflavone  (EXP)
alpha-Zearalanol  (ISO)
ammonium chloride  (EXP)
amphetamine  (EXP)
antimycin A  (ISO)
antirheumatic drug  (ISO)
Aroclor 1254  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
Bandrowski's base  (ISO)
benzo[a]pyrene  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bisphenol A  (EXP)
bryostatin 1  (ISO)
bupivacaine  (EXP)
buta-1,3-diene  (ISO)
butan-1-ol  (ISO)
butanal  (ISO)
cadmium dichloride  (EXP)
calcium atom  (ISO)
calcium(0)  (ISO)
cannabidiol  (ISO)
cannabigerol  (ISO)
carbon nanotube  (ISO)
chlordecone  (ISO)
chloroprene  (ISO)
chlorpyrifos  (EXP)
choline  (EXP,ISO)
cisplatin  (EXP,ISO)
clobetasol  (ISO)
clopidogrel  (ISO)
clozapine  (EXP)
cobalt dichloride  (EXP)
cocaine  (EXP,ISO)
copper atom  (ISO)
copper(0)  (ISO)
crocidolite asbestos  (ISO)
cycloheximide  (ISO)
cyclosporin A  (ISO)
D-glucose  (EXP,ISO)
D-mannitol  (ISO)
daidzein  (EXP)
deoxycholic acid  (ISO)
dexamethasone  (EXP)
dexmedetomidine  (EXP)
dextran sulfate  (ISO)
diarsenic trioxide  (ISO)
dicofol  (ISO)
diethyl maleate  (ISO)
diethylstilbestrol  (EXP,ISO)
diuron  (EXP)
dorsomorphin  (ISO)
doxorubicin  (EXP,ISO)
elemental selenium  (ISO)
entinostat  (ISO)
ethanol  (EXP,ISO)
ethyl methanesulfonate  (ISO)
fenvalerate  (EXP)
flavonoids  (EXP)
fluorescein 5-isothiocyanate  (ISO)
fluvoxamine  (EXP)
folic acid  (ISO)
formaldehyde  (ISO)
furan  (EXP)
gentamycin  (EXP)
glucose  (EXP,ISO)
haloperidol  (EXP)
hydrogen peroxide  (EXP)
indometacin  (ISO)
inulin  (ISO)
irinotecan  (ISO)
isoprenaline  (ISO)
ivermectin  (ISO)
L-ascorbic acid  (ISO)
L-methionine  (ISO)
lactacystin  (ISO)
lead diacetate  (EXP)
lead(0)  (EXP,ISO)
lead(2+)  (EXP,ISO)
leflunomide  (ISO)
lidocaine  (EXP)
lipopolysaccharide  (ISO)
lithocholic acid  (ISO)
losartan  (EXP)
mercury dibromide  (ISO)
metformin  (ISO)
methapyrilene  (EXP)
methotrexate  (EXP)
methoxychlor  (EXP)
methyl methanesulfonate  (ISO)
methylmercury chloride  (ISO)
methylseleninic acid  (ISO)
Mezerein  (ISO)
ML-7  (EXP)
morphine  (ISO)
N,N,N',N'-tetrakis(2-pyridylmethyl)ethylenediamine  (ISO)
N,N-diethyl-m-toluamide  (EXP)
N-benzyloxycarbonyl-L-leucyl-L-leucyl-L-leucinal  (ISO)
N-methyl-4-phenylpyridinium  (EXP)
N-nitrosodiethylamine  (ISO)
N-nitrosodimethylamine  (EXP)
nickel atom  (ISO)
nickel subsulfide  (EXP)
nicotine  (ISO)
ochratoxin A  (ISO)
oxaliplatin  (EXP)
p-chloromercuribenzoic acid  (ISO)
panobinostat  (ISO)
paracetamol  (EXP,ISO)
perfluorooctanoic acid  (EXP)
permethrin  (EXP)
phenethyl isothiocyanate  (ISO)
phenylephrine  (EXP)
phenylmercury acetate  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
potassium dichromate  (ISO)
pregnenolone 16alpha-carbonitrile  (EXP)
pterostilbene  (ISO)
quercetin  (EXP,ISO)
quercitrin  (ISO)
resveratrol  (ISO)
Riluzole  (ISO)
rotenone  (ISO)
S-butyl-DL-homocysteine (S,R)-sulfoximine  (EXP)
sarin  (ISO)
SB 431542  (ISO)
selenium atom  (ISO)
serpentine asbestos  (ISO)
silicon dioxide  (EXP,ISO)
sodium arsenate  (ISO)
sodium arsenite  (EXP)
sodium fluoride  (ISO)
sotrastaurin  (ISO)
streptozocin  (EXP)
succimer  (ISO)
sulforaphane  (ISO)
sunitinib  (ISO)
superoxide  (ISO)
T-2 toxin  (EXP)
tamibarotene  (ISO)
tetrachloromethane  (EXP,ISO)
tetraphene  (ISO)
tetrodotoxin  (EXP)
thapsigargin  (ISO)
thiabendazole  (EXP)
thiram  (ISO)
titanium dioxide  (ISO)
toluene  (EXP)
topotecan  (EXP)
tributylstannane  (ISO)
Tributyltin oxide  (ISO)
trichostatin A  (ISO)
troglitazone  (ISO)
tungsten  (ISO)
ursodeoxycholic acid  (ISO)
valproic acid  (ISO)
vanadium atom  (ISO)
vanadium(0)  (ISO)
vorinostat  (ISO)
zinc atom  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
adaptive immune response  (IEA)
apoptotic process  (IEA)
B cell activation  (IEA,ISO,ISS)
B cell receptor signaling pathway  (IEA,ISO,ISS)
calcium ion transport  (IEA,ISO)
cellular calcium ion homeostasis  (IEA,ISO)
cellular response to carbohydrate stimulus  (IEA,ISO)
dibenzo-p-dioxin metabolic process  (IEP)
histone H3-T6 phosphorylation  (IEA,ISO,ISS)
intracellular signal transduction  (IBA,IEA,NAS)
negative regulation of glucose transmembrane transport  (IEA,ISO,ISS)
negative regulation of insulin receptor signaling pathway  (IDA)
peptidyl-serine phosphorylation  (IBA)
positive regulation of angiogenesis  (IEA,ISO,ISS)
positive regulation of B cell receptor signaling pathway  (IEA,ISO,ISS)
positive regulation of I-kappaB kinase/NF-kappaB signaling  (IEA,ISO,ISS)
positive regulation of NF-kappaB transcription factor activity  (IEA,ISO,ISS)
positive regulation of odontogenesis of dentin-containing tooth  (IEP)
positive regulation of transcription, DNA-templated  (IEA)
positive regulation of vascular endothelial growth factor receptor signaling pathway  (IEA,ISO,ISS)
presynaptic modulation of chemical synaptic transmission  (IEA,ISO)
protein phosphorylation  (IEA,ISO)
regulation of dopamine secretion  (IMP)
regulation of glucose transmembrane transport  (ISO,ISS)
regulation of growth  (IMP)
regulation of synaptic vesicle exocytosis  (IEA,ISO)
regulation of transcription by RNA polymerase II  (IEA,ISO,ISS)
response to ethanol  (IEP)
response to glucose  (IEP)
response to hypoxia  (ISO)
response to vitamin D  (IEP)
response to xenobiotic stimulus  (IMP)

Cellular Component
brush border membrane  (IDA)
calyx of Held  (IEA,ISO)
centrosome  (IDA)
cytoplasm  (IEA,ISO)
cytosol  (IDA,ISO)
membrane  (IEA,ISO)
nucleoplasm  (IEA,ISO)
nucleus  (IEA,ISO,ISS)
plasma membrane  (IDA,IEA,ISO)
presynaptic cytosol  (IEA,ISO)
spectrin  (IEA,ISO)

References

References - curated
1. Amemiya T, etal., Brain Res. 2005 Apr 8;1040(1-2):129-36.
2. Boesch DM and Garvin JL, Am J Physiol Regul Integr Comp Physiol 2001 Sep;281(3):R861-7.
3. Bowling N, etal., Circulation. 1999 Jan 26;99(3):384-91.
4. Chen D, etal., J Biol Chem. 2004 Feb 6;279(6):4829-39. Epub 2003 Nov 1.
5. Chen D, etal., J Biol Chem. 2007 Nov 16;282(46):33776-87. Epub 2007 Sep 24.
6. Corsini E, etal., Br J Dermatol. 2009 Jan;160(1):16-25. Epub 2008 Oct 11.
7. Corsini E, etal., Chem Res Toxicol. 2003 Dec;16(12):1520-7.
8. Devaraj S, etal., Diabetes. 2005 Jan;54(1):85-91.
9. Facchinetti MM and de Boland AR, Cell Signal. 1999 Jan;11(1):39-44.
10. Gareskog M and Wentzel P, Pediatr Res. 2004 Dec;56(6):849-57. Epub 2004 Oct 20.
11. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
12. Ghanim H, etal., Diabetologia. 2007 Feb;50(2):278-85. Epub 2006 Dec 16.
13. GOA data from the GO Consortium
14. Goldberg HJ, etal., J Biol Chem 2002 Sep 13;277(37):33833-41.
15. Holmes K, etal., Cell Signal. 2007 Oct;19(10):2003-12. Epub 2007 Jun 12.
16. Housey GM, etal., Cell 1988 Feb 12;52(3):343-54.
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18. Igwe OJ Neuroscience. 2006;138(1):313-28. Epub 2005 Dec 19.
19. Inagaki K, etal., J Mol Cell Cardiol. 2002 Oct;34(10):1377-85.
20. Johnson LA, etal., J Biol Chem. 2005 Mar 25;280(12):10914-9. Epub 2005 Jan 12.
21. Kaneto H, etal., J Biol Chem. 2002 Feb 1;277(5):3680-5. Epub 2001 Nov 19.
22. Kawai Y, etal., IUBMB Life. 2002 Dec;54(6):365-70.
23. Kelly DJ, etal., Diabetes 2003 Feb;52(2):512-8.
24. Knopf JL, etal., Cell 1986 Aug 15;46(4):491-502.
25. Koide Y, etal., Hypertens Res. 2003 May;26(5):421-6.
26. Kumar S, etal., J Pharmacol Exp Ther. 2006 Dec;319(3):1366-75. Epub 2006 Sep 22.
27. Kuroda S, etal., J Biol Chem 1996 Dec 6;271(49):31029-32.
28. Lee HG, etal., Neurotoxicology. 2007 Mar;28(2):408-14. Epub 2006 May 5.
29. Liu S, etal., Oncotarget. 2017 May 30;8(22):36354-36367. doi: 10.18632/oncotarget.16754.
30. Mahadev K and Vemuri MC, Arch Biochem Biophys. 1998 Aug 15;356(2):249-57.
31. MGD data from the GO Consortium
32. Miluzio A, etal., EMBO Rep. 2009 May;10(5):459-65. doi: 10.1038/embor.2009.70. Epub 2009 Apr 17.
33. Morgan EL, etal., J Physiol. 2007 Apr 15;580(Pt. 2):593-604. Epub 2007 Feb 1.
34. NCBI rat LocusLink and RefSeq merged data July 26, 2002
35. Newton AC Am J Physiol Endocrinol Metab. 2010 Mar;298(3):E395-402. Epub 2009 Nov 24.
36. Omiyi D, etal., J Pharmacol Exp Ther. 2005 Aug;314(2):542-51. Epub 2005 May 5.
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40. Patel NA, etal., Arch Biochem Biophys 2002 Jul 1;403(1):111-20.
41. Pipeline to import KEGG annotations from KEGG into RGD
42. Pipeline to import Pathway Interaction Database annotations from NCI into RGD
43. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
44. RGD automated import pipeline for gene-chemical interactions
45. Rodriguez MM, etal., FEBS Lett 1999 Jul 9;454(3):240-6.
46. Sentex E, etal., Can J Physiol Pharmacol. 2006 Feb;84(2):227-38.
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Additional References at PubMed
PMID:1299012   PMID:3576226   PMID:7929424   PMID:7961692   PMID:8034726   PMID:8327493   PMID:8631738   PMID:8749392   PMID:8889548   PMID:9514928   PMID:9817842   PMID:10365161  
PMID:10499500   PMID:10534118   PMID:10617144   PMID:10722046   PMID:10871288   PMID:11118818   PMID:11123317   PMID:11278415   PMID:11306676   PMID:11738801   PMID:11805327   PMID:11880265  
PMID:12391145   PMID:12551925   PMID:12618484   PMID:12766174   PMID:12826667   PMID:12904329   PMID:14613966   PMID:14682474   PMID:14715497   PMID:15037605   PMID:15042584   PMID:15322124  
PMID:15545601   PMID:15632189   PMID:15737652   PMID:15741241   PMID:16051606   PMID:16131649   PMID:16179609   PMID:16301747   PMID:16585392   PMID:16837815   PMID:17118565   PMID:17363743  
PMID:17531159   PMID:17678882   PMID:17694297   PMID:17711990   PMID:18001287   PMID:18056970   PMID:18315563   PMID:18323529   PMID:18440322   PMID:18497307   PMID:19057126   PMID:19091746  
PMID:19351495   PMID:19587355   PMID:19605547   PMID:19854265   PMID:19900507   PMID:20197783   PMID:20228790   PMID:20458337   PMID:20599775   PMID:20874717   PMID:21071702   PMID:21215369  
PMID:21228767   PMID:21424759   PMID:21575103   PMID:21658591   PMID:21700703   PMID:21704734   PMID:22479367   PMID:22531886   PMID:22587992   PMID:22797313   PMID:22865386   PMID:22871113  
PMID:23295407   PMID:23403203   PMID:23686852   PMID:23775122   PMID:24151077   PMID:24269213   PMID:24355769   PMID:24466133   PMID:25659900   PMID:25678708   PMID:25849791   PMID:25915883  
PMID:25982116   PMID:26199377   PMID:26660275   PMID:27402227   PMID:28534945   PMID:30053369   PMID:30701683   PMID:32048876   PMID:32866516  


Genomics

Comparative Map Data
Prkcb
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21176,832,173 - 177,163,539 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1176,832,226 - 177,163,536 (+)Ensembl
Rnor_6.01192,233,569 - 192,575,339 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1192,233,910 - 192,574,831 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01199,295,067 - 199,639,140 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41181,117,512 - 181,459,856 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11181,257,931 - 181,599,763 (+)NCBI
Celera1174,677,501 - 174,871,327 (+)NCBICelera
Cytogenetic Map1q36NCBI
PRKCB
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1623,835,983 - 24,220,611 (+)EnsemblGRCh38hg38GRCh38
GRCh381623,835,983 - 24,220,611 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371623,847,304 - 24,231,932 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361623,754,823 - 24,139,063 (+)NCBINCBI36hg18NCBI36
Build 341623,754,822 - 24,139,063NCBI
Celera1622,625,642 - 23,009,889 (+)NCBI
Cytogenetic Map16p12.2-p12.1NCBI
HuRef1621,938,281 - 22,322,666 (+)NCBIHuRef
CHM1_11624,859,040 - 25,244,985 (+)NCBICHM1_1
Prkcb
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm397121,888,327 - 122,233,625 (+)NCBIGRCm39mm39
GRCm39 Ensembl7121,887,974 - 122,233,625 (+)Ensembl
GRCm387122,289,104 - 122,634,402 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl7122,288,751 - 122,634,402 (+)EnsemblGRCm38mm10GRCm38
MGSCv377129,432,639 - 129,777,916 (+)NCBIGRCm37mm9NCBIm37
MGSCv367122,080,445 - 122,419,795 (+)NCBImm8
Celera7122,177,656 - 122,520,472 (+)NCBICelera
Cytogenetic Map7F2NCBI
cM Map765.75NCBI
Prkcb
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554932,395,109 - 2,710,934 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554932,395,494 - 2,710,522 (+)NCBIChiLan1.0ChiLan1.0
PRKCB
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11624,091,284 - 24,466,701 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1624,091,289 - 24,466,203 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01613,888,936 - 14,268,759 (-)NCBIMhudiblu_PPA_v0panPan3
PRKCB
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1621,742,970 - 22,064,360 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl621,742,973 - 22,065,185 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha623,304,828 - 23,630,068 (-)NCBI
ROS_Cfam_1.0621,880,650 - 22,206,417 (-)NCBI
UMICH_Zoey_3.1621,685,773 - 22,010,753 (-)NCBI
UNSW_CanFamBas_1.0621,587,647 - 21,912,745 (-)NCBI
UU_Cfam_GSD_1.0621,982,425 - 22,308,075 (-)NCBI
Prkcb
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344120,339,861 - 120,631,378 (+)NCBI
SpeTri2.0NW_0049365018,410,273 - 8,729,238 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PRKCB
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl321,995,231 - 22,383,264 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1321,995,227 - 22,383,628 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2322,949,682 - 23,174,763 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PRKCB
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1521,558,608 - 21,940,536 (+)NCBI
ChlSab1.1 Ensembl521,558,441 - 21,943,864 (+)Ensembl
Vero_WHO_p1.0NW_0236660687,834,678 - 8,241,859 (-)NCBI
Prkcb
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247828,974,995 - 9,287,609 (+)NCBI

Position Markers
D1Smu9  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21177,061,421 - 177,061,592 (+)MAPPERmRatBN7.2
Rnor_6.01192,471,881 - 192,472,051NCBIRnor6.0
Rnor_5.01199,535,728 - 199,535,898UniSTSRnor5.0
RGSC_v3.41181,356,209 - 181,356,379UniSTSRGSC3.4
Celera1174,768,747 - 174,768,917UniSTS
Cytogenetic Map1q36UniSTS
D1Rat170  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21177,061,447 - 177,061,563 (+)MAPPERmRatBN7.2
Rnor_6.01192,471,907 - 192,472,022NCBIRnor6.0
Rnor_5.01199,535,754 - 199,535,869UniSTSRnor5.0
RGSC_v3.41181,356,234 - 181,356,350RGDRGSC3.4
RGSC_v3.41181,356,235 - 181,356,350UniSTSRGSC3.4
RGSC_v3.11181,496,149 - 181,496,265RGD
Celera1174,768,773 - 174,768,888UniSTS
SHRSP x BN Map189.1199RGD
SHRSP x BN Map189.1199UniSTS
Cytogenetic Map1q36UniSTS
D1Got399  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21176,968,788 - 176,968,947 (+)MAPPERmRatBN7.2
Rnor_6.01192,379,361 - 192,379,519NCBIRnor6.0
Rnor_5.01199,443,417 - 199,443,575UniSTSRnor5.0
RGSC_v3.41181,263,910 - 181,264,068UniSTSRGSC3.4
Celera1174,676,987 - 174,677,145UniSTS
Cytogenetic Map1q36UniSTS
RH144428  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21176,900,557 - 176,900,794 (+)MAPPERmRatBN7.2
Rnor_6.01192,303,475 - 192,303,711NCBIRnor6.0
Rnor_5.01199,367,739 - 199,367,975UniSTSRnor5.0
Rnor_5.01199,012,168 - 199,012,404UniSTSRnor5.0
RGSC_v3.41181,195,201 - 181,195,437UniSTSRGSC3.4
Celera1174,609,316 - 174,609,552UniSTS
Cytogenetic Map1q36UniSTS
BE108217  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21177,157,000 - 177,157,150 (+)MAPPERmRatBN7.2
Rnor_6.01192,568,801 - 192,568,950NCBIRnor6.0
Rnor_5.01199,632,602 - 199,632,751UniSTSRnor5.0
RGSC_v3.41181,453,321 - 181,453,470UniSTSRGSC3.4
Celera1174,864,789 - 174,864,938UniSTS
Cytogenetic Map1q36UniSTS
AI044240  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21177,163,226 - 177,163,429 (+)MAPPERmRatBN7.2
Rnor_6.01192,575,027 - 192,575,229NCBIRnor6.0
Rnor_5.01199,638,828 - 199,639,030UniSTSRnor5.0
RGSC_v3.41181,459,547 - 181,459,749UniSTSRGSC3.4
Celera1174,871,015 - 174,871,217UniSTS
RH 3.4 Map11378.39UniSTS
Cytogenetic Map1q36UniSTS
RH94487  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21177,163,390 - 177,163,490 (+)MAPPERmRatBN7.2
Rnor_6.01192,575,191 - 192,575,290NCBIRnor6.0
Rnor_5.01199,638,992 - 199,639,091UniSTSRnor5.0
RGSC_v3.41181,459,711 - 181,459,810UniSTSRGSC3.4
Celera1174,871,179 - 174,871,278UniSTS
Cytogenetic Map1q36UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70209Niddm23Non-insulin dependent diabetes mellitus QTL 232.82blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)194494440198324465Rat
71118Thym1Thymus enlargement QTL 110.170.001thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)1136829932181829932Rat
619613Bp77Blood pressure QTL 770.01arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)1164747424209747424Rat
619613Bp77Blood pressure QTL 770.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1164747424209747424Rat
619614Bp78Blood pressure QTL 780.001arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)1169112897197261052Rat
619614Bp78Blood pressure QTL 780.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1169112897197261052Rat
631205Bp196Blood pressure QTL 19640.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1118944897199050459Rat
631214Bw61Body weight QTL613.40.0001intramuscular adipose amount (VT:0010044)intramuscular fat area (CMO:0001162)1173108781218108781Rat
2302378Insul11Insulin level QTL 113.25blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1144267353251128347Rat
70160Bw18Body weight QTL 185.7body mass (VT:0001259)body weight (CMO:0000012)1144267353196383635Rat
70163Bw20Body weight QTL 205.1body mass (VT:0001259)body weight (CMO:0000012)1174133260219133260Rat
724531Uae5Urinary albumin excretion QTL 54urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)1150700142252085212Rat
724550Thym3Thymus enlargement QTL 37.820.001thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)1136829932181829932Rat
724562Rends1Renal damage susceptibility QTL 10.05kidney glomerulus integrity trait (VT:0010546)index of glomerular damage (CMO:0001135)1169537671214537671Rat
1331749Hrtrt11Heart rate QTL 112.973heart pumping trait (VT:2000009)heart rate (CMO:0000002)194494440198211706Rat
1331751Bp199Blood pressure QTL 1993.60022arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)194494440181830018Rat
737828Hcas3Hepatocarcinoma susceptibility QTL 34.9liver integrity trait (VT:0010547)liver tumorous lesion volume to total liver volume ratio (CMO:0001082)1144267353222987745Rat
631670Iddm10Insulin dependent diabetes mellitus QTL 101.9blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)1174133260196383635Rat
737974Bp161Blood pressure QTL 1610.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1164747558181133855Rat
1354580Scort1Serum corticosterone level QTL 13.4blood corticosterone amount (VT:0005345)blood corticosterone level (CMO:0001172)1156677124256448636Rat
731168Bp154Blood pressure QTL 1543.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)194642722214537671Rat
738032Hcas5Hepatocarcinoma susceptibility QTL 53.12liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1176426412257976495Rat
631519Pia11Pristane induced arthritis QTL 115.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1136830018181830018Rat
631544Bp84Blood pressure QTL 845.6arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1123350408181759564Rat
631549Bp89Blood pressure QTL 895.7arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1123350581201284552Rat
1641895Bp298Blood pressure QTL 298arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1123350408182418476Rat
1598853Memor3Memory QTL 34.5exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)1143506580212458660Rat
2300161Bmd43Bone mineral density QTL 438.40.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)1171629477216629477Rat
2300174Bmd42Bone mineral density QTL 428.40.0001lumbar vertebra mineral mass (VT:0010511)bone mineral density (CMO:0001226)1171629477216629477Rat
2300187Bmd41Bone mineral density QTL 418.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)1171629477216629477Rat
2293654Bss30Bone structure and strength QTL 3032.650.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1171629477216629477Rat
2293673Bss27Bone structure and strength QTL 2718.630.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)1171629477216629477Rat
2293677Bss41Bone structure and strength QTL 419.380.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra cross-sectional area (CMO:0001689)1171629477216629477Rat
2293689Bss47Bone structure and strength QTL 477.250.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra trabecular cross-sectional area (CMO:0001692)1171629477216629477Rat
2293693Bss22Bone structure and strength QTL 2233.520.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1171629477216629477Rat
634314Niddm44Non-insulin dependent diabetes mellitus QTL 44blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)149393289199050459Rat
1600380Niddm70Non-insulin dependent diabetes mellitus QTL 703.10.0008blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)1176550523221550523Rat
1578759Uae30Urinary albumin excretion QTL 303.30.003urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1150700247252085048Rat
1578770Stresp23Stress response QTL 23kidney sympathetic nerve activity (VT:0004050)stimulated renal sympathetic nerve activity to basal renal sympathetic nerve activity ratio (CMO:0001786)1123350408182418476Rat
1578778Pur4Proteinuria QTL 43.30.003total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)1150700247252085048Rat
1578780Cm52Cardiac mass QTL 523.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)181591954219808434Rat
1300158Bp173Blood pressure QTL 1733.48arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)1115540693185145286Rat
1354591Cm36Cardiac mass QTL 364.1heart left ventricle mass (VT:0007031)calculated heart weight (CMO:0000073)1102813953201278233Rat
1354602Bw35Body weight QTL 3512.2body mass (VT:0001259)body weight (CMO:0000012)1151162512201278233Rat
1354606Bp246Blood pressure QTL 2463.6arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)1102813953218753816Rat
1354610Bw34Body weight QTL 344.1body mass (VT:0001259)body weight (CMO:0000012)1151162512256448636Rat
1354615Cm32Cardiac mass QTL 325.2heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)1102813953201278233Rat
1354618Kidm15Kidney mass QTL 155kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)1156677124201278233Rat
1354620Kidm19Kidney mass QTL 194kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1151162512201278233Rat
1354634Kidm12Kidney mass QTL 123.9kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)1151162512201278233Rat
1354636Lmblg1Limb length QTL 16.4tibia length (VT:0004357)tibia length (CMO:0000450)1151162512201278233Rat
1354646Kidm18Kidney mass QTL 185.7kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1151162512256448636Rat
1354653Despr9Despair related QTL 90.00019locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)1167909849212909849Rat
1354661Bw33Body weight QTL 335.2body mass (VT:0001259)body weight (CMO:0000012)1151162512256448636Rat
1558645Bw55Body weight QTL 553.20.004body mass (VT:0001259)body weight (CMO:0000012)1133680936178680936Rat
1549837Hcar15Hepatocarcinoma resistance QTL 150.05liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1153136852260522016Rat
1358189Cstrr1Cold stress response QTL 10.0001catecholamine amount (VT:0010543)urine norepinephrine level (CMO:0001629)1123350408182418476Rat
2292220Bp306Blood pressure QTL 3063.470.00087arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1164310393243914901Rat
2292222Bp307Blood pressure QTL 3073.060.0014arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1164310393213533942Rat
2312420Pur17Proteinuria QTL 177.10.0001urine protein amount (VT:0005160)urine total protein excretion rate (CMO:0000756)1156677124218753816Rat
2312558Glom17Glomerulus QTL 173.90.001kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)1166532971191278129Rat
2303622Vencon6Ventilatory control QTL 60.001respiration trait (VT:0001943)respiration rate (CMO:0000289)1154561505199561505Rat
1358886Bp260Blood pressure QTL 2603.67arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1151162766225824951Rat
1358902Bw47Body weight QTL 471.67body mass (VT:0001259)body weight (CMO:0000012)190508614180359386Rat
1549830Bss1Bone structure and strength QTL 14.8femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)1172609619217609619Rat
1358294Bw37Body weight QTL 3750.000011body mass (VT:0001259)body weight (CMO:0000012)1171310381216310381Rat
61326Eae6Experimental allergic encephalomyelitis QTL 65.3body mass (VT:0001259)change in body weight (CMO:0002045)1172949660181830018Rat
61341Bp26Blood pressure QTL 26arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1169537671214537671Rat
61343Bp28Blood pressure QTL 28arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1151646613196646613Rat
61347Bp197Blood pressure QTL 1974.2arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)1158633083203633083Rat
61348Bp30Blood pressure QTL 302.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1144017057197814409Rat
4889428Stresp24Stress response QTL 240.05heart pumping trait (VT:2000009)absolute change in electrocardiographic low frequency R-R spectral component to high frequency R-R spectral component ratio (CMO:0002162)1155866514200866514Rat
6893347Bw98Body weight QTL 980.20.53body mass (VT:0001259)body weight (CMO:0000012)1133680936178680936Rat
6893361Bw104Body weight QTL 1040.590.27body mass (VT:0001259)body weight (CMO:0000012)1133680936178680936Rat
8655649Arrd1Age-related retinal degeneration QTL 14.89retinal layer morphology trait (VT:0003727)percentage of study population developing retinopathy during a period of time (CMO:0002453)1100357752183970443Rat
7794788Mcs32Mammary carcinoma susceptibility QTL 322.61mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)1115540693238914717Rat
7771612Cm80Cardiac mass QTL 808.4heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)1149448574221264292Rat
7421630Bp362Blood pressure QTL 3620.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1118608292241799120Rat
10059597Bp377Blood pressure QTL 3773.420.025arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)132737458199368955Rat
10059600Bp378Blood pressure QTL 3783.080.05arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1176869060221869060Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:412
Count of miRNA genes:221
Interacting mature miRNAs:275
Transcripts:ENSRNOT00000016418, ENSRNOT00000016442
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 2 8 19 60 18 10
Low 1 41 49 41 41 8 11 14 35 23 1 8
Below cutoff 2

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001172305 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_012713 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017588799 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039101232 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039101234 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039101236 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AH002228 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BM383786 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CB576043 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473956 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CK838368 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ212401 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ227780 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ233088 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ234325 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ234728 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000044 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M13706 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M15522 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M16829 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M19007 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U62762 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X04139 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X04439 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X04440 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000016418   ⟹   ENSRNOP00000016417
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1176,832,730 - 177,163,528 (+)Ensembl
Rnor_6.0 Ensembl1192,233,910 - 192,568,687 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000016442   ⟹   ENSRNOP00000016442
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1176,832,815 - 177,129,783 (+)Ensembl
Rnor_6.0 Ensembl1192,233,910 - 192,574,831 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000078705   ⟹   ENSRNOP00000073511
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1176,832,226 - 177,163,536 (+)Ensembl
Rnor_6.0 Ensembl1192,379,543 - 192,568,745 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000094409   ⟹   ENSRNOP00000081034
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1176,832,226 - 177,163,536 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000096083   ⟹   ENSRNOP00000077705
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1176,832,815 - 177,163,536 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000110215   ⟹   ENSRNOP00000082450
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1176,832,226 - 177,163,536 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000116223   ⟹   ENSRNOP00000094736
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1176,832,226 - 177,125,024 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000117718   ⟹   ENSRNOP00000077459
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1176,832,730 - 177,163,528 (+)Ensembl
RefSeq Acc Id: NM_001172305   ⟹   NP_001165776
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21176,832,685 - 177,163,539 (+)NCBI
Rnor_6.01192,233,780 - 192,575,339 (+)NCBI
Rnor_5.01199,295,067 - 199,639,140 (+)NCBI
Celera1174,677,501 - 174,871,327 (+)NCBI
Sequence:
RefSeq Acc Id: NM_012713   ⟹   NP_036845
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21176,832,685 - 177,157,748 (+)NCBI
Rnor_6.01192,233,780 - 192,569,544 (+)NCBI
Rnor_5.01199,295,067 - 199,639,140 (+)NCBI
RGSC_v3.41181,117,512 - 181,459,856 (+)RGD
Celera1174,677,501 - 174,865,532 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039101232   ⟹   XP_038957160
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21176,832,174 - 177,163,539 (+)NCBI
RefSeq Acc Id: XM_039101234   ⟹   XP_038957162
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21176,832,173 - 177,163,539 (+)NCBI
RefSeq Acc Id: XM_039101236   ⟹   XP_038957164
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21176,960,297 - 177,163,539 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_036845   ⟸   NM_012713
- Peptide Label: isoform 1
- Sequence:
RefSeq Acc Id: NP_001165776   ⟸   NM_001172305
- Peptide Label: isoform 2
- UniProtKB: P68403 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000016442   ⟸   ENSRNOT00000016442
RefSeq Acc Id: ENSRNOP00000016417   ⟸   ENSRNOT00000016418
RefSeq Acc Id: ENSRNOP00000073511   ⟸   ENSRNOT00000078705
RefSeq Acc Id: XP_038957162   ⟸   XM_039101234
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038957160   ⟸   XM_039101232
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038957164   ⟸   XM_039101236
- Peptide Label: isoform X3
RefSeq Acc Id: ENSRNOP00000081034   ⟸   ENSRNOT00000094409
RefSeq Acc Id: ENSRNOP00000082450   ⟸   ENSRNOT00000110215
RefSeq Acc Id: ENSRNOP00000094736   ⟸   ENSRNOT00000116223
RefSeq Acc Id: ENSRNOP00000077459   ⟸   ENSRNOT00000117718
RefSeq Acc Id: ENSRNOP00000077705   ⟸   ENSRNOT00000096083
Transcriptome

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

Promoters
RGD ID:13690386
Promoter ID:EPDNEW_R903
Type:multiple initiation site
Name:Prkcb_1
Description:protein kinase C, beta
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_6.01192,379,538 - 192,379,598EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/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
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 (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
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-Lx/CubMcwi (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
BN/NHsdMcwi (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
BN/NHsdMcwi (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
BN/SsN (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
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 (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
BXH2/CubMcwi (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
BXH3/CubMcwi (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
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)
DA/OlaHsd (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: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (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
F344/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
F344/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
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
F344/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
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)
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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
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)
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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
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)
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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 (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)
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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
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)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
M520/NRrrcMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (MCW)
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)
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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
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)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (RGD)
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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 (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:3396 AgrOrtholog
BIND 134040
Ensembl Genes ENSRNOG00000012061 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000016417 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000016442 UniProtKB/TrEMBL
  ENSRNOP00000073511 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000016418 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000016442 UniProtKB/TrEMBL
  ENSRNOT00000078705 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.150 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro AGC-kinase_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  C2_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  C2_domain_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  cPKC_beta UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  DAG/PE-bd UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Kinase-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PE/DAG-bd UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Pkinase_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Prot_kinase_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Protein_kinase_ATP_BS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Protein_kinase_C_a/b/g UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ser/Thr_kinase_AS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:25023 UniProtKB/Swiss-Prot
NCBI Gene 25023 ENTREZGENE
Pfam C1_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PF00168 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Pkinase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Pkinase_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Prkcb PhenoGen
PIRSF PKC_alpha UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PRINTS C2DOMAIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  DAGPEDOMAIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE AGC_KINASE_CTER UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PROTEIN_KINASE_ATP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PROTEIN_KINASE_DOM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PROTEIN_KINASE_ST UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PS50004 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ZF_DAG_PE_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ZF_DAG_PE_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART S_TK_X UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  S_TKc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SM00109 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SM00239 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF56112 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2K5Q0_RAT UniProtKB/TrEMBL
  F1LS36_RAT UniProtKB/TrEMBL
  F1LS42_RAT UniProtKB/TrEMBL
  KPCB_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary P04410 UniProtKB/Swiss-Prot
  P04411 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-10-24 Prkcb  protein kinase C, beta  Prkcb1  protein kinase C, beta 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2003-04-09 Prkcb1  protein kinase C, beta 1    Protein kinase C beta  Name updated 629478 APPROVED
2002-06-10 Prkcb1  Protein kinase C beta      Symbol and Name status set to approved 70586 APPROVED