Prkd1 (protein kinase D1) - Rat Genome Database

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Gene: Prkd1 (protein kinase D1) Rattus norvegicus
Analyze
Symbol: Prkd1
Name: protein kinase D1
RGD ID: 620964
Description: Enables heat shock protein binding activity; protein kinase C binding activity; and protein serine/threonine kinase activity. Involved in several processes, including cellular response to norepinephrine stimulus; cellular response to peptide hormone stimulus; and positive regulation of transport. Located in several cellular components, including Z disc; nucleus; and perinuclear region of cytoplasm. Biomarker of myocardial infarction. Human ortholog(s) of this gene implicated in congenital heart disease. Orthologous to human PRKD1 (protein kinase D1); PARTICIPATES IN insulin-like growth factor signaling pathway; INTERACTS WITH (R)-noradrenaline; 2,3',4,4',5-Pentachlorobiphenyl; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: nPKC-D1; nPKC-mu; Pkcm; Prkcm; protein kinase C mu type; protein kinase C, mu; protein kinase D; serine/threonine-protein kinase D1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8673,460,640 - 73,774,433 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl673,460,640 - 73,836,509 (-)EnsemblGRCr8
mRatBN7.2667,725,193 - 68,039,002 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl667,725,905 - 68,039,042 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx668,177,553 - 68,489,871 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0668,484,172 - 68,796,501 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0667,919,348 - 68,237,248 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0671,035,017 - 71,349,531 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl671,035,332 - 71,349,249 (-)Ensemblrn6Rnor6.0
Rnor_5.0680,600,725 - 80,914,319 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4670,364,135 - 70,682,006 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera666,643,414 - 66,954,727 (-)NCBICelera
RGSC_v3.1670,393,721 - 70,394,895 (-)NCBI
Cytogenetic Map6q22NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-epigallocatechin 3-gallate  (ISO)
(1->4)-beta-D-glucan  (ISO)
(R)-noradrenaline  (EXP,ISO)
1,1-dichloroethene  (ISO)
1,2-dimethylhydrazine  (ISO)
17beta-estradiol  (ISO)
2,3',4,4',5-Pentachlorobiphenyl  (EXP,ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP)
2-methoxyethanol  (EXP)
3-\{1-[3-(dimethylamino)propyl]-1H-indol-3-yl\}-4-(1H-indol-3-yl)-1H-pyrrole-2,5-dione  (ISO)
4,4'-diaminodiphenylmethane  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
aflatoxin B1  (ISO)
Aflatoxin B2 alpha  (ISO)
aldrin  (ISO)
all-trans-retinoic acid  (ISO)
ammonium chloride  (EXP)
angiotensin II  (EXP)
antirheumatic drug  (ISO)
aristolochic acid A  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
atrazine  (EXP)
benzo[a]pyrene  (ISO)
benzo[e]pyrene  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (ISO)
bisphenol F  (ISO)
butanal  (ISO)
Butylbenzyl phthalate  (ISO)
cadmium dichloride  (ISO)
calcitriol  (ISO)
calcium atom  (EXP,ISO)
calcium(0)  (EXP,ISO)
capsaicin  (EXP,ISO)
chlorpyrifos  (EXP)
cisplatin  (ISO)
dapsone  (ISO)
DDT  (EXP)
dibutyl phthalate  (ISO)
dibutylstannane  (ISO)
dioxygen  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
Endothelin-1  (EXP)
entinostat  (ISO)
ethanol  (ISO)
fenamidone  (ISO)
fenvalerate  (EXP)
FR900359  (ISO)
gentamycin  (EXP)
Goe 6976  (ISO)
Ingenol 3,20-dibenzoate  (ISO)
lipopolysaccharide  (ISO)
lysophosphatidic acid  (EXP)
malathion  (ISO)
manganese atom  (ISO)
manganese(0)  (ISO)
manganese(II) chloride  (ISO)
methapyrilene  (ISO)
methoxyacetic acid  (EXP)
methoxychlor  (EXP)
methylmercury chloride  (ISO)
N-methyl-N'-nitro-N-nitrosoguanidine  (ISO)
noradrenaline  (EXP)
ozone  (ISO)
paracetamol  (EXP)
paraquat  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (ISO)
phenylephrine  (EXP,ISO)
phorbol 13-acetate 12-myristate  (EXP,ISO)
potassium chromate  (ISO)
progesterone  (ISO)
quercetin  (ISO)
resveratrol  (EXP,ISO)
SB 431542  (ISO)
serpentine asbestos  (ISO)
silicon dioxide  (ISO)
sodium arsenate  (ISO)
sunitinib  (ISO)
testosterone  (ISO)
tetrachloromethane  (ISO)
titanium dioxide  (ISO)
tributylstannane  (ISO)
urethane  (ISO)
valproic acid  (ISO)
vanadium atom  (ISO)
vanadium(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
angiogenesis  (IEA)
apoptotic process  (IEA)
cell differentiation  (IEA)
cellular response to amino acid starvation  (IEA,ISO)
cellular response to angiotensin  (IDA)
cellular response to endothelin  (IDA)
cellular response to hydroperoxide  (IEA,ISO)
cellular response to norepinephrine stimulus  (IDA)
cellular response to oxidative stress  (IEA,ISO,ISS)
cellular response to phorbol 13-acetate 12-myristate  (IDA)
cellular response to vascular endothelial growth factor stimulus  (IEA,ISO,ISS)
defense response to Gram-negative bacterium  (IEA,ISO)
Golgi organization  (IEA,ISO,ISS)
Golgi vesicle transport  (IEA,ISO,ISS)
immune system process  (IEA)
inflammatory response  (IEA)
innate immune response  (IEA)
intracellular signal transduction  (IBA,IDA,IEA,ISO)
nervous system development  (IEA)
phospholipase C-activating G protein-coupled receptor signaling pathway  (IBA)
positive regulation of angiogenesis  (IEA,ISO,ISS)
positive regulation of autophagy  (IEA,ISO)
positive regulation of blood vessel endothelial cell migration  (IEA,ISO)
positive regulation of canonical NF-kappaB signal transduction  (IEA,ISO,ISS)
positive regulation of cell communication  (IEA)
positive regulation of cell size  (IMP)
positive regulation of endothelial cell chemotaxis  (IEA,ISO)
positive regulation of endothelial cell migration  (IEA,ISO,ISS)
positive regulation of endothelial cell proliferation  (IEA,ISO)
positive regulation of gene expression  (IMP)
positive regulation of neuron projection development  (IEA,ISO,ISS)
positive regulation of NLRP3 inflammasome complex assembly  (IEA,ISO,ISS)
positive regulation of osteoblast differentiation  (IEA,ISO,ISS)
positive regulation of peptide hormone secretion  (IMP)
positive regulation of peptidyl-serine phosphorylation  (IMP)
positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction  (IEA,ISO)
positive regulation of protein export from nucleus  (IMP)
positive regulation of protein import into nucleus  (IEA,ISO)
positive regulation of sarcomere organization  (IMP)
positive regulation of signaling  (IEA)
positive regulation of transcription by RNA polymerase II  (IEA,ISO)
protein autophosphorylation  (ISO,ISS)
regulation of keratinocyte proliferation  (IEA,ISO,ISS)
regulation of release of sequestered calcium ion into cytosol  (ISO)
regulation of skeletal muscle contraction by modulation of calcium ion sensitivity of myofibril  (IMP)
response to norepinephrine  (IDA)
transepithelial transport  (IEA,ISO)
vascular endothelial growth factor receptor signaling pathway  (IEA,ISO)

Cellular Component
autophagosome membrane  (IEA,ISO)
cell cortex  (IEA,ISO)
cell-cell junction  (IEA,ISO)
cytoplasm  (IDA,IEA,ISO)
cytosol  (IBA,IEA,ISO,ISS)
Golgi apparatus  (IEA,ISO)
membrane  (IDA,IEA)
nucleus  (IDA,IEA,ISO)
perinuclear region of cytoplasm  (IDA)
plasma membrane  (IEA,ISO,ISS)
trans-Golgi network  (IEA,ISO,ISS)
Z disc  (IDA)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Protein Kinase D1 Regulates Cardiac Hypertrophy, Potassium Channel Remodeling, and Arrhythmias in Heart Failure. Bossuyt J, etal., J Am Heart Assoc. 2022 Oct 4;11(19):e027573. doi: 10.1161/JAHA.122.027573. Epub 2022 Sep 29.
2. P2X7 receptors activate protein kinase D and p42/p44 mitogen-activated protein kinase (MAPK) downstream of protein kinase C. Bradford MD and Soltoff SP, Biochem J 2002 Sep 15;366(Pt 3):745-55.
3. Protein kinase-D1 overexpression prevents lipid-induced cardiac insulin resistance. Dirkx E, etal., J Mol Cell Cardiol. 2014 Nov;76:208-17. doi: 10.1016/j.yjmcc.2014.08.017. Epub 2014 Aug 28.
4. Requirement of protein kinase D1 for pathological cardiac remodeling. Fielitz J, etal., Proc Natl Acad Sci U S A. 2008 Feb 26;105(8):3059-63. doi: 10.1073/pnas.0712265105. Epub 2008 Feb 14.
5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
6. Novel function of cardiac protein kinase D1 as a dynamic regulator of Ca2+ sensitivity of contraction. Goodall MH, etal., J Biol Chem. 2010 Dec 31;285(53):41686-700. doi: 10.1074/jbc.M110.179648. Epub 2010 Nov 1.
7. Regulation of cardiac stress signaling by protein kinase d1. Harrison BC, etal., Mol Cell Biol. 2006 May;26(10):3875-88. doi: 10.1128/MCB.26.10.3875-3888.2006.
8. PKCepsilon-PKD1 signaling complex at Z-discs plays a pivotal role in the cardiac hypertrophy induced by G-protein coupling receptor agonists. Iwata M, etal., Biochem Biophys Res Commun. 2005 Feb 25;327(4):1105-13. doi: 10.1016/j.bbrc.2004.12.128.
9. Compatibility of Astragalus and Salvia extract inhibits myocardial fibrosis and ventricular remodeling by regulation of protein kinase D1 protein. Mao B, etal., Int J Clin Exp Med. 2015 Mar 15;8(3):3716-24. eCollection 2015.
10. Novel Autosomal Recessive Splice-Altering Variant in PRKD1 Is Associated with Congenital Heart Disease. Massadeh S, etal., Genes (Basel). 2021 Apr 21;12(5):612. doi: 10.3390/genes12050612.
11. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
12. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
13. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
14. GOA pipeline RGD automated data pipeline
15. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
16. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
17. Distinct genetic architectures for syndromic and nonsyndromic congenital heart defects identified by exome sequencing. Sifrim A, etal., Nat Genet. 2016 Sep;48(9):1060-5. doi: 10.1038/ng.3627. Epub 2016 Aug 1.
18. Small heat shock protein 20 (Hsp20) facilitates nuclear import of protein kinase D 1 (PKD1) during cardiac hypertrophy. Sin YY, etal., Cell Commun Signal. 2015 Mar 7;13:16. doi: 10.1186/s12964-015-0094-x.
19. The C-terminus of the long AKAP13 isoform (AKAP-Lbc) is critical for development of compensatory cardiac hypertrophy. Taglieri DM, etal., J Mol Cell Cardiol. 2014 Jan;66:27-40. doi: 10.1016/j.yjmcc.2013.10.010. Epub 2013 Oct 23.
20. Thrombin rapidly induces protein kinase D phosphorylation, and protein kinase C delta mediates the activation. Tan M, etal., J Biol Chem 2003 Jan 31;278(5):2824-8.
21. PLCε, PKD1, and SSH1L transduce RhoA signaling to protect mitochondria from oxidative stress in the heart. Xiang SY, etal., Sci Signal. 2013 Dec 17;6(306):ra108. doi: 10.1126/scisignal.2004405.
22. Angiotensin II stimulates protein kinase D-dependent histone deacetylase 5 phosphorylation and nuclear export leading to vascular smooth muscle cell hypertrophy. Xu X, etal., Arterioscler Thromb Vasc Biol. 2007 Nov;27(11):2355-62. doi: 10.1161/ATVBAHA.107.151704. Epub 2007 Sep 6.
Additional References at PubMed
PMID:10831594   PMID:10882525   PMID:11239398   PMID:11884618   PMID:12359306   PMID:12505989   PMID:12637538   PMID:12891705   PMID:13679307   PMID:15096499   PMID:15471852   PMID:17306383  
PMID:18059339   PMID:18164589   PMID:18296710   PMID:18332134   PMID:18378685   PMID:18440775   PMID:18784310   PMID:18845574   PMID:19029091   PMID:19059215   PMID:19211839   PMID:19875622  
PMID:20018189   PMID:20177824   PMID:20463010   PMID:20497126   PMID:20725733   PMID:20937274   PMID:22076634   PMID:22095288   PMID:22158620   PMID:22593072   PMID:22636676   PMID:23159540  
PMID:23479225   PMID:24219103   PMID:24623306   PMID:24647541   PMID:24740233   PMID:25931508   PMID:26443497   PMID:27184844   PMID:27369082   PMID:27782176   PMID:28428613   PMID:31759056  
PMID:36525926   PMID:37963515  


Genomics

Comparative Map Data
Prkd1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8673,460,640 - 73,774,433 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl673,460,640 - 73,836,509 (-)EnsemblGRCr8
mRatBN7.2667,725,193 - 68,039,002 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl667,725,905 - 68,039,042 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx668,177,553 - 68,489,871 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0668,484,172 - 68,796,501 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0667,919,348 - 68,237,248 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0671,035,017 - 71,349,531 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl671,035,332 - 71,349,249 (-)Ensemblrn6Rnor6.0
Rnor_5.0680,600,725 - 80,914,319 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4670,364,135 - 70,682,006 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera666,643,414 - 66,954,727 (-)NCBICelera
RGSC_v3.1670,393,721 - 70,394,895 (-)NCBI
Cytogenetic Map6q22NCBI
PRKD1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381429,576,479 - 29,927,847 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1429,576,479 - 30,191,898 (-)Ensemblhg38GRCh38
GRCh371430,045,685 - 30,397,053 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361429,115,436 - 29,466,650 (-)NCBIBuild 36Build 36hg18NCBI36
Build 341429,115,439 - 29,466,652NCBI
Celera149,911,927 - 10,263,081 (-)NCBICelera
Cytogenetic Map14q12NCBI
HuRef1410,161,470 - 10,512,671 (-)NCBIHuRef
CHM1_11430,044,967 - 30,396,713 (-)NCBICHM1_1
T2T-CHM13v2.01423,774,515 - 24,125,722 (-)NCBIT2T-CHM13v2.0
Prkd1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391250,388,009 - 50,696,075 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1250,388,014 - 50,695,881 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381250,341,226 - 50,649,271 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1250,341,231 - 50,649,098 (-)Ensemblmm10GRCm38
MGSCv371251,442,218 - 51,750,210 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361251,217,854 - 51,571,105 (-)NCBIMGSCv36mm8
Celera1251,654,217 - 51,955,593 (-)NCBICelera
Cytogenetic Map12B3NCBI
cM Map1221.78NCBI
Prkd1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540930,554,013 - 30,860,649 (+)Ensembl
ChiLan1.0NW_00495540930,554,095 - 30,860,588 (+)NCBIChiLan1.0ChiLan1.0
PRKD1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21530,905,194 - 31,258,408 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11430,122,170 - 30,474,871 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01410,353,284 - 10,707,841 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11428,499,753 - 28,650,036 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1428,496,282 - 28,650,030 (-)EnsemblpanPan2panpan1.1
PRKD1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.189,004,641 - 9,327,054 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl89,005,115 - 9,328,358 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha88,933,899 - 9,256,073 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.089,106,948 - 9,429,506 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl89,107,422 - 9,430,511 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.188,787,713 - 9,109,715 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.088,868,816 - 9,191,637 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.089,140,306 - 9,462,703 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Prkd1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440864040,963,196 - 41,207,484 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364944,469,089 - 4,601,214 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049364944,469,092 - 4,601,183 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PRKD1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl769,527,811 - 69,872,863 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1769,527,743 - 69,872,374 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2774,585,433 - 74,730,165 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PRKD1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1 Ensembl246,446,722 - 6,594,998 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Prkd1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248202,408,360 - 2,726,606 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046248202,408,562 - 2,726,199 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Prkd1
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1763,010,273 - 63,308,093 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Prkd1
1671 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:22
Count of miRNA genes:21
Interacting mature miRNAs:22
Transcripts:ENSRNOT00000068077
Prediction methods:Miranda, Rnahybrid
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.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
9590290Uminl2Urine mineral level QTL 23.960.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)64451097489510974Rat
2293088Iddm28Insulin dependent diabetes mellitus QTL 285.21blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)668767270135411972Rat
4889933Bss88Bone structure and strength QTL 883.8tibia size trait (VT:0100001)tibia total bone volume (CMO:0001724)65368492198684921Rat
634307Bp141Blood pressure QTL 1414arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)64095756485957564Rat
1331743Uae28Urinary albumin excretion QTL 284.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)64515378690153786Rat
5684992Bmd83Bone mineral density QTL 824.8tibia mineral mass (VT:1000283)bone mineral content (CMO:0001554)65368492198684921Rat
1331779Rf38Renal function QTL 382.876kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)63118500276185002Rat
4145119Mcs25Mammary carcinoma susceptibility QTL 250.0001mammary gland integrity trait (VT:0010552)ratio of deaths to total study population during a period of time (CMO:0001023)671278722116278722Rat
70176Mcsm1Mammary carcinoma susceptibility modifier QTL 1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)664367996109367996Rat
1558641Cm47Cardiac mass QTL 472.90.001heart mass (VT:0007028)heart wet weight (CMO:0000069)66345744194939581Rat
737827Hcar11Hepatocarcinoma resistance QTL 114.4liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)646050607116278722Rat
724513Uae14Urinary albumin excretion QTL 146.5urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)64604735391047353Rat
2293839Kiddil2Kidney dilation QTL 24.8kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)62661831486868070Rat
1576309Emca7Estrogen-induced mammary cancer QTL 74mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)620859430113082285Rat
9590140Scort4Serum corticosterone level QTL 414.490.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)64451097489510974Rat
2301964Bp323Blood pressure QTL 3234.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)6186868070Rat
9590306Scort18Serum corticosterone level QTL 182.880.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)64451097489510974Rat
1578665Bss16Bone structure and strength QTL 164.4femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)63332884178328841Rat
2293841Kiddil4Kidney dilation QTL 44.4kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)62661831486868070Rat
4889848Pur25Proteinuria QTL 25140.003urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)66303731995934232Rat
1641898Colcr4Colorectal carcinoma resistance QTL43.710.0007intestine integrity trait (VT:0010554)well differentiated malignant colorectal tumor surface area measurement (CMO:0002077)63093763275937632Rat
1578668Bmd14Bone mineral density QTL 143.8femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)63332884178328841Rat
6893340Cm77Cardiac mass QTL 770.260.57heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)63902865986867923Rat
5684963Bss99Bone structure and strength QTL 993.1tibia area (VT:1000281)tibia area measurement (CMO:0001382)65368492198684921Rat
1300143Rf14Renal function QTL 142.92renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)64016318385163183Rat
6893332Cm74Cardiac mass QTL 740.40.64heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)66345744194939581Rat

Markers in Region
D6Got79  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2668,030,865 - 68,031,133 (+)MAPPERmRatBN7.2
mRatBN7.2668,030,865 - 68,031,246 (+)MAPPERmRatBN7.2
Rnor_6.0671,341,109 - 71,341,685NCBIRnor6.0
Rnor_6.0671,341,109 - 71,341,376NCBIRnor6.0
Rnor_5.0680,905,903 - 80,906,479UniSTSRnor5.0
Rnor_5.0680,905,903 - 80,906,170UniSTSRnor5.0
RGSC_v3.4670,674,174 - 70,674,442RGDRGSC3.4
RGSC_v3.4670,674,175 - 70,674,442UniSTSRGSC3.4
RGSC_v3.1670,677,301 - 70,677,568RGD
RH 3.4 Map6491.4RGD
RH 3.4 Map6491.4UniSTS
RH 2.0 Map6664.5RGD
Cytogenetic Map6q22UniSTS
Prkcm  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2667,725,799 - 67,726,005 (+)MAPPERmRatBN7.2
Rnor_6.0671,035,620 - 71,035,825NCBIRnor6.0
Rnor_5.0680,600,837 - 80,601,042UniSTSRnor5.0
RGSC_v3.4670,363,966 - 70,364,171UniSTSRGSC3.4
Celera666,643,245 - 66,643,450UniSTS
Cytogenetic Map6q22UniSTS
BQ209938  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2667,728,118 - 67,728,268 (+)MAPPERmRatBN7.2
Rnor_6.0671,037,939 - 71,038,088NCBIRnor6.0
Rnor_5.0680,603,156 - 80,603,305UniSTSRnor5.0
RGSC_v3.4670,366,285 - 70,366,434UniSTSRGSC3.4
Celera666,645,564 - 66,645,713UniSTS
RH 3.4 Map6489.3UniSTS
Cytogenetic Map6q22UniSTS
UniSTS:224841  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2667,725,747 - 67,725,901 (+)MAPPERmRatBN7.2
Rnor_6.0671,035,568 - 71,035,721NCBIRnor6.0
Rnor_5.0680,600,785 - 80,600,938UniSTSRnor5.0
RGSC_v3.4670,363,914 - 70,364,067UniSTSRGSC3.4
Celera666,643,193 - 66,643,346UniSTS
Cytogenetic Map6q22UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 160 91 90 59 72 59 6 336 172 11 139 81 92 31 17 17

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001276715 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001412095 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594389 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039113014 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039113015 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039113017 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039113018 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039113019 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039113020 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039113021 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039113022 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063262561 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063262562 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063262563 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063262564 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005505595 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AB020616 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473947 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000006 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000068077   ⟹   ENSRNOP00000063159
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl673,460,640 - 73,774,698 (-)Ensembl
mRatBN7.2 Ensembl667,725,905 - 68,039,042 (-)Ensembl
Rnor_6.0 Ensembl671,035,789 - 71,349,249 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000081883   ⟹   ENSRNOP00000074836
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl673,460,640 - 73,629,105 (-)Ensembl
mRatBN7.2 Ensembl667,725,905 - 67,889,169 (-)Ensembl
Rnor_6.0 Ensembl671,035,332 - 71,199,110 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000100654   ⟹   ENSRNOP00000089750
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl673,460,640 - 73,774,698 (-)Ensembl
mRatBN7.2 Ensembl667,725,905 - 68,039,042 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000127848   ⟹   ENSRNOP00000105176
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl673,460,640 - 73,565,640 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000151102   ⟹   ENSRNOP00000104733
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl673,460,640 - 73,836,509 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000158394   ⟹   ENSRNOP00000100144
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl673,460,640 - 73,774,588 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000171559   ⟹   ENSRNOP00000100485
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl673,460,640 - 73,629,722 (-)Ensembl
RefSeq Acc Id: NM_001276715   ⟹   NP_001263644
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8673,460,640 - 73,774,406 (-)NCBI
mRatBN7.2667,725,197 - 68,038,978 (-)NCBI
Rnor_6.0671,035,789 - 71,349,249 (-)NCBI
Rnor_5.0680,600,725 - 80,914,319 (-)NCBI
Celera666,643,414 - 66,954,727 (-)NCBI
Sequence:
RefSeq Acc Id: NM_001412095   ⟹   NP_001399024
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8673,460,640 - 73,774,406 (-)NCBI
mRatBN7.2667,725,197 - 68,038,978 (-)NCBI
RefSeq Acc Id: XM_039113014   ⟹   XP_038968942
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8673,461,119 - 73,774,432 (-)NCBI
mRatBN7.2667,725,193 - 68,039,000 (-)NCBI
RefSeq Acc Id: XM_039113015   ⟹   XP_038968943
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8673,461,119 - 73,774,432 (-)NCBI
mRatBN7.2667,725,193 - 68,039,000 (-)NCBI
RefSeq Acc Id: XM_039113017   ⟹   XP_038968945
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8673,461,119 - 73,629,382 (-)NCBI
mRatBN7.2667,725,193 - 67,893,935 (-)NCBI
RefSeq Acc Id: XM_039113018   ⟹   XP_038968946
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8673,461,119 - 73,629,412 (-)NCBI
mRatBN7.2667,725,193 - 67,893,977 (-)NCBI
RefSeq Acc Id: XM_039113019   ⟹   XP_038968947
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8673,461,119 - 73,642,466 (-)NCBI
mRatBN7.2667,725,193 - 67,907,036 (-)NCBI
RefSeq Acc Id: XM_039113020   ⟹   XP_038968948
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8673,461,119 - 73,532,579 (-)NCBI
mRatBN7.2667,725,193 - 67,797,125 (-)NCBI
RefSeq Acc Id: XM_039113021   ⟹   XP_038968949
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8673,461,119 - 73,532,579 (-)NCBI
mRatBN7.2667,725,193 - 67,797,124 (-)NCBI
RefSeq Acc Id: XM_039113022   ⟹   XP_038968950
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8673,461,119 - 73,530,232 (-)NCBI
mRatBN7.2667,725,193 - 67,794,811 (-)NCBI
RefSeq Acc Id: XM_063262561   ⟹   XP_063118631
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8673,470,282 - 73,774,433 (-)NCBI
RefSeq Acc Id: XM_063262562   ⟹   XP_063118632
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8673,461,119 - 73,629,412 (-)NCBI
RefSeq Acc Id: XM_063262563   ⟹   XP_063118633
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8673,461,119 - 73,532,579 (-)NCBI
RefSeq Acc Id: XM_063262564   ⟹   XP_063118634
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8673,461,119 - 73,532,579 (-)NCBI
RefSeq Acc Id: XR_005505595
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8673,487,336 - 73,774,433 (-)NCBI
mRatBN7.2667,751,895 - 68,039,002 (-)NCBI
RefSeq Acc Id: NP_001263644   ⟸   NM_001276715
- Peptide Label: isoform 1
- UniProtKB: Q9WTQ1 (UniProtKB/Swiss-Prot),   A6HBG5 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000074836   ⟸   ENSRNOT00000081883
Ensembl Acc Id: ENSRNOP00000063159   ⟸   ENSRNOT00000068077
RefSeq Acc Id: XP_038968943   ⟸   XM_039113015
- Peptide Label: isoform X2
- UniProtKB: A6HBG5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038968942   ⟸   XM_039113014
- Peptide Label: isoform X1
- UniProtKB: A6HBG5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038968947   ⟸   XM_039113019
- Peptide Label: isoform X4
- UniProtKB: A6HBG5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038968946   ⟸   XM_039113018
- Peptide Label: isoform X4
- UniProtKB: A6HBG5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038968945   ⟸   XM_039113017
- Peptide Label: isoform X4
- UniProtKB: A6HBG5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038968948   ⟸   XM_039113020
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038968949   ⟸   XM_039113021
- Peptide Label: isoform X8
RefSeq Acc Id: XP_038968950   ⟸   XM_039113022
- Peptide Label: isoform X8
Ensembl Acc Id: ENSRNOP00000089750   ⟸   ENSRNOT00000100654
RefSeq Acc Id: NP_001399024   ⟸   NM_001412095
- Peptide Label: isoform 2
- UniProtKB: A0A8I6A9E1 (UniProtKB/TrEMBL),   A6HBG5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063118632   ⟸   XM_063262562
- Peptide Label: isoform X5
- UniProtKB: A0A0G2K928 (UniProtKB/TrEMBL),   A6HBG5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063118633   ⟸   XM_063262563
- Peptide Label: isoform X7
RefSeq Acc Id: XP_063118634   ⟸   XM_063262564
- Peptide Label: isoform X8
RefSeq Acc Id: XP_063118631   ⟸   XM_063262561
- Peptide Label: isoform X3
- UniProtKB: A6HBG5 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000104733   ⟸   ENSRNOT00000151102
Ensembl Acc Id: ENSRNOP00000100485   ⟸   ENSRNOT00000171559
Ensembl Acc Id: ENSRNOP00000105176   ⟸   ENSRNOT00000127848
Ensembl Acc Id: ENSRNOP00000100144   ⟸   ENSRNOT00000158394
Protein Domains
PH   Phorbol-ester/DAG-type   Protein kinase

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9WTQ1-F1-model_v2 AlphaFold Q9WTQ1 1-918 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620964 AgrOrtholog
BioCyc Gene G2FUF-37607 BioCyc
Ensembl Genes ENSRNOG00000004165 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000068077 ENTREZGENE
  ENSRNOT00000068077.3 UniProtKB/Swiss-Prot
  ENSRNOT00000081883 ENTREZGENE
  ENSRNOT00000100654 ENTREZGENE
Gene3D-CATH 2.30.29.30 UniProtKB/Swiss-Prot
  3.30.60.20 UniProtKB/Swiss-Prot
  Transferase(Phosphotransferase) domain 1 UniProtKB/Swiss-Prot
InterPro C1-like_sf UniProtKB/Swiss-Prot
  DAG/PE-bd UniProtKB/Swiss-Prot
  Kinase-like_dom_sf UniProtKB/Swiss-Prot
  PE/DAG-bd UniProtKB/Swiss-Prot
  PH-like_dom_sf UniProtKB/Swiss-Prot
  PH_domain UniProtKB/Swiss-Prot
  Prot_kinase_dom UniProtKB/Swiss-Prot
  Protein_kinase_ATP_BS UniProtKB/Swiss-Prot
  Protein_Kinase_C_mu-related UniProtKB/Swiss-Prot
  Ser/Thr_kinase_AS UniProtKB/Swiss-Prot
KEGG Report rno:85421 UniProtKB/Swiss-Prot
NCBI Gene 85421 ENTREZGENE
PANTHER PTHR22968 UniProtKB/Swiss-Prot
  SERINE/THREONINE-PROTEIN KINASE D1 UniProtKB/Swiss-Prot
Pfam C1_1 UniProtKB/Swiss-Prot
  PF00169 UniProtKB/Swiss-Prot
  Pkinase UniProtKB/Swiss-Prot
PhenoGen Prkd1 PhenoGen
PIRSF PKC_mu_nu_D2 UniProtKB/Swiss-Prot
PRINTS DAGPEDOMAIN UniProtKB/Swiss-Prot
PROSITE PH_DOMAIN 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
RatGTEx ENSRNOG00000004165 RatGTEx
SMART S_TKc UniProtKB/Swiss-Prot
  SM00109 UniProtKB/Swiss-Prot
  SM00233 UniProtKB/Swiss-Prot
Superfamily-SCOP PH domain-like UniProtKB/Swiss-Prot
  SSF56112 UniProtKB/Swiss-Prot
  SSF57889 UniProtKB/Swiss-Prot
UniProt A0A0G2K928 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6A9E1 ENTREZGENE, UniProtKB/TrEMBL
  A0ABK0KZ16_RAT UniProtKB/TrEMBL
  A0ABK0L5P6_RAT UniProtKB/TrEMBL
  A0ABK0LH09_RAT UniProtKB/TrEMBL
  A0ABK0LRH4_RAT UniProtKB/TrEMBL
  A6HBG5 ENTREZGENE, UniProtKB/TrEMBL
  KPCD1_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-17 Prkd1  protein kinase D1  Prkcm  protein kinase C, mu  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-09-10 Prkcm  protein kinase C, mu  Pkcm    Symbol updated 1299863 APPROVED
2002-08-07 Pkcm  protein kinase C, mu      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_cellular_localization localized to Golgi apparatus and cytosol 724658
gene_regulation activation mediated by P2X7 receptors 724658