Pkd1 (polycystin 1, transient receptor potential channel interacting) - Rat Genome Database

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Gene: Pkd1 (polycystin 1, transient receptor potential channel interacting) Mus musculus
Analyze
Symbol: Pkd1
Name: polycystin 1, transient receptor potential channel interacting
RGD ID: 11105
MGI Page MGI
Description: Enables calcium channel activity and transcription regulator inhibitor activity. Involved in several processes, including cell surface receptor signaling pathway via JAK-STAT; placenta blood vessel development; and protein export from nucleus. Acts upstream of or within several processes, including cartilage condensation; circulatory system development; and regulation of mitotic spindle organization. Located in several cellular components, including Golgi apparatus; cell surface; and motile cilium. Part of polycystin complex. Is expressed in several structures, including alimentary system; cardiovascular system; central nervous system; genitourinary system; and respiratory system. Used to study autosomal recessive polycystic kidney disease; hypertrophic cardiomyopathy; and polycystic kidney disease 1. Human ortholog(s) of this gene implicated in autosomal dominant polycystic kidney disease; intracranial aneurysm; and polycystic kidney disease 1. Orthologous to human PKD1 (polycystin 1, transient receptor potential channel interacting).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: autosomal dominant polycystic kidney disease 1 protein homolog; FLJ00285; mFLJ00285; MGC118471; PC; PC-; PC1; polycystic kidney disease 1 homolog; polycystin 1; polycystin 1, transient receptor poteintial channel interacting; polycystin-1
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391724,767,657 - 24,815,457 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1724,768,808 - 24,815,482 (+)EnsemblGRCm39 Ensembl
GRCm381724,548,689 - 24,596,514 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1724,549,834 - 24,596,508 (+)EnsemblGRCm38mm10GRCm38
MGSCv371724,686,895 - 24,733,459 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361724,277,550 - 24,324,083 (+)NCBIMGSCv36mm8
Celera1725,067,435 - 25,114,509 (+)NCBICelera
Cytogenetic Map17A3.3NCBI
cM Map1712.4NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(1->4)-beta-D-glucan  (EXP)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (EXP,ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2-acetamidofluorene  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-sulfonyldiphenol  (EXP,ISO)
acetylcholine  (EXP)
acrylamide  (EXP)
aflatoxin B1  (EXP,ISO)
ammonium chloride  (ISO)
antirheumatic drug  (ISO)
aristolochic acid A  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
atrazine  (EXP)
benzo[a]pyrene  (ISO)
Benzo[k]fluoranthene  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
cadmium atom  (EXP,ISO)
cadmium dichloride  (EXP,ISO)
caffeine  (EXP)
calcium atom  (EXP,ISO)
calcium(0)  (EXP,ISO)
carbon nanotube  (EXP)
clofibrate  (EXP)
copper(II) sulfate  (ISO)
dexamethasone  (ISO)
diazinon  (ISO)
dicrotophos  (ISO)
dioxygen  (EXP)
disodium selenite  (ISO)
elemental selenium  (ISO)
ethanol  (EXP)
flavonoids  (ISO)
FR900359  (ISO)
gentamycin  (ISO)
indometacin  (ISO)
ketamine  (ISO)
N-benzyloxycarbonyl-L-leucyl-L-leucyl-L-leucinal  (EXP)
N-ethyl-N-nitrosourea  (EXP)
N-methyl-4-phenylpyridinium  (ISO)
nitrofen  (ISO)
oxaliplatin  (ISO)
ozone  (ISO)
paracetamol  (EXP,ISO)
perfluorononanoic acid  (ISO)
perfluorooctane-1-sulfonic acid  (EXP)
perfluorooctanoic acid  (ISO)
phenylephrine  (EXP)
pirinixic acid  (EXP)
potassium chloride  (EXP)
progesterone  (EXP)
selenium atom  (ISO)
sodium arsenite  (EXP,ISO)
sulindac  (ISO)
tamoxifen  (EXP)
testosterone  (EXP)
thapsigargin  (EXP)
thioacetamide  (ISO)
thiram  (ISO)
titanium dioxide  (EXP)
triphenyl phosphate  (ISO)
troglitazone  (ISO)
urethane  (ISO)
vitamin E  (ISO)
xylitol  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
blood vessel development  (IMP)
branching involved in lymph vessel morphogenesis  (ISO)
branching morphogenesis of an epithelial tube  (IDA,ISO)
calcium ion transmembrane transport  (IMP)
calcium ion transport  (IBA,IDA,IMP,ISO)
cartilage condensation  (IMP)
cartilage development  (ISO)
cell surface receptor signaling pathway  (ISO)
cell surface receptor signaling pathway via JAK-STAT  (EXP,IDA)
cell-cell adhesion  (IMP)
detection of mechanical stimulus  (IDA,IMP)
digestive tract development  (IEA)
embryonic placenta development  (IMP)
establishment of cell polarity  (IMP)
genitalia development  (IEA)
heart development  (IMP,ISO)
in utero embryonic development  (IGI,IMP)
kidney development  (IGI,IMP)
liver development  (IGI)
lung epithelium development  (IEA)
lymph vessel morphogenesis  (IMP)
mesonephric duct development  (IEA)
mesonephric tubule development  (ISO)
metanephric ascending thin limb development  (IEA)
metanephric collecting duct development  (IEA)
metanephric distal tubule morphogenesis  (IEA)
metanephric proximal tubule development  (IEA)
mitocytosis  (ISO,ISS)
neural tube development  (IEA)
nitrogen cycle metabolic process  (IGI)
peptidyl-serine phosphorylation  (IMP)
placenta blood vessel development  (IMP)
positive regulation of cytosolic calcium ion concentration  (IEA,ISO)
positive regulation of transcription by RNA polymerase II  (IEA,ISO)
protein export from nucleus  (IMP)
protein heterotetramerization  (ISO,ISS)
regulation of cell adhesion  (IMP)
regulation of cell cycle  (IDA)
regulation of G1/S transition of mitotic cell cycle  (IEA,ISO)
regulation of mitotic spindle organization  (IMP)
regulation of proteasomal protein catabolic process  (IMP,ISO)
response to fluid shear stress  (IMP)
skin development  (IEA)
spinal cord development  (IEA)
Wnt signaling pathway  (ISO)

Cellular Component

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
abnormal adipose tissue development  (IAGP)
abnormal amniotic fluid composition  (IAGP)
abnormal basicranium morphology  (IAGP)
abnormal bile duct morphology  (IAGP)
abnormal blood vessel morphology  (IAGP)
abnormal bone marrow cavity morphology  (IAGP)
abnormal bone marrow morphology  (IAGP)
abnormal bone mineralization  (IAGP)
abnormal brain vasculature morphology  (IAGP)
abnormal brain ventricle morphology  (IAGP)
abnormal cartilage development  (IAGP)
abnormal circulating creatinine level  (IAGP)
abnormal circulating mineral level  (IAGP)
abnormal common bile duct morphology  (IAGP)
abnormal compact bone morphology  (IAGP)
abnormal conotruncal ridge morphology  (IAGP)
abnormal craniofacial bone morphology  (IAGP)
abnormal exocrine pancreas morphology  (IAGP)
abnormal fluid regulation  (IAGP)
abnormal kidney collecting duct morphology  (IAGP)
abnormal kidney epithelial cell primary cilium physiology  (IAGP)
abnormal kidney epithelium morphology  (IAGP)
abnormal kidney morphology  (IAGP)
abnormal kidney physiology  (IAGP)
abnormal liver morphology  (IAGP)
abnormal loop of Henle ascending limb thick segment morphology  (IAGP)
abnormal Meckel's cartilage morphology  (IAGP)
abnormal mitotic spindle morphology  (IAGP)
abnormal myocardial trabeculae morphology  (IAGP)
abnormal osteoblast differentiation  (IAGP)
abnormal pancreatic acinus morphology  (IAGP)
abnormal perichondrium morphology  (IAGP)
abnormal peroxisome morphology  (IAGP)
abnormal placenta development  (IAGP)
abnormal placenta morphology  (IAGP)
abnormal placenta vasculature  (IAGP)
abnormal presphenoid synchondrosis  (IAGP)
abnormal radius morphology  (IAGP)
abnormal redox activity  (IAGP)
abnormal skeleton development  (IAGP)
abnormal sphenoid bone morphology  (IAGP)
abnormal sphenooccipital synchondrosis  (IAGP)
abnormal spine curvature  (IAGP)
abnormal thyroid cartilage morphology  (IAGP)
abnormal ulna morphology  (IAGP)
abnormal vertebrae morphology  (IAGP)
aortic aneurysm  (IAGP)
aortic dissection  (IAGP)
atrial septal defect  (IAGP)
bile duct inflammation  (IAGP)
biliary cyst  (IAGP)
chondrodystrophy  (IAGP)
common atrioventricular valve  (IAGP)
decreased blood urea nitrogen level  (IAGP)
decreased body size  (IAGP)
decreased body weight  (IAGP)
decreased bone mineral density  (IAGP)
decreased bone mineralization  (IAGP)
decreased chondrocyte proliferation  (IAGP)
decreased circulating alkaline phosphatase level  (IEA)
decreased circulating creatinine level  (IAGP)
decreased circulating glucose level  (IAGP)
decreased circulating total protein level  (IEA)
decreased compact bone mass  (IAGP)
decreased compact bone thickness  (IAGP)
decreased embryo size  (IAGP)
decreased erythrocyte cell number  (IEA)
decreased fatty acid oxidation  (IAGP)
decreased hematocrit  (IEA)
decreased kidney cell proliferation  (IAGP)
decreased kidney weight  (IAGP)
decreased length of long bones  (IAGP)
decreased liver function  (IAGP)
decreased pancreatic islet number  (IAGP)
decreased trabecular bone mass  (IAGP)
decreased trabecular bone volume  (IAGP)
decreased width of hypertrophic chondrocyte zone  (IAGP)
delayed bone ossification  (IAGP)
delayed endochondral bone ossification  (IAGP)
delayed intramembranous bone ossification  (IAGP)
dilated bile duct  (IAGP)
dilated kidney collecting duct  (IAGP)
dilated lateral ventricle  (IAGP)
dilated pancreatic duct  (IAGP)
dilated proximal convoluted tubule  (IAGP)
dilated renal tubule  (IAGP)
dilated third ventricle  (IAGP)
disproportionate dwarf  (IAGP)
dissociated hepatocytes  (IAGP)
distended abdomen  (IAGP)
domed cranium  (IAGP)
double outlet right ventricle  (IAGP)
edema  (IAGP)
embryonic lethality during organogenesis  (IAGP)
embryonic lethality during organogenesis, incomplete penetrance  (IAGP)
enlarged kidney  (IAGP)
enlarged pancreas  (IAGP)
exocrine pancreas atrophy  (IAGP)
failure of atrioventricular cushion closure  (IAGP)
heart left ventricle hypertrophy  (IAGP)
heart right ventricle hypertrophy  (IEA)
hemopericardium  (IAGP)
hemorrhage  (IAGP)
hydrocephaly  (IAGP)
hydrops fetalis  (IAGP)
impaired osteoblast differentiation  (IAGP)
increased activity of parathyroid  (IAGP)
increased blood urea nitrogen level  (IAGP)
increased cell proliferation  (IAGP)
increased circulating cholesterol level  (IAGP)
increased circulating creatinine level  (IAGP)
increased circulating parathyroid hormone level  (IAGP)
increased circulating phosphate level  (IAGP)
increased fatty acid oxidation  (IAGP)
increased heart weight  (IAGP)
increased kidney apoptosis  (IAGP)
increased kidney cell proliferation  (IAGP)
increased kidney epithelial cell primary cilium length  (IAGP)
increased kidney weight  (IAGP)
increased neutrophil cell number  (IEA)
increased osteoblast proliferation  (IAGP)
increased renal hamartoma incidence  (IAGP)
increased renal tubule apoptosis  (IAGP)
infertility  (IAGP)
kidney cortex cyst  (IAGP)
kidney cyst  (IAGP)
kidney failure  (IAGP)
kidney inflammation  (IAGP)
kidney medulla cyst  (IAGP)
lethality throughout fetal growth and development, complete penetrance  (IAGP)
lethality throughout fetal growth and development, incomplete penetrance  (IAGP)
lethality, complete penetrance  (IAGP)
liver cyst  (IAGP)
malocclusion  (IAGP)
maxilla hypoplasia  (IAGP)
micrognathia  (IEA)
nasal bone hypoplasia  (IAGP)
neonatal lethality, complete penetrance  (IAGP)
no abnormal phenotype detected  (IAGP)
oxidative stress  (IAGP)
pale kidney  (IAGP)
pallor  (IAGP)
pancreas cyst  (IAGP)
pancreas fibrosis  (IAGP)
pancreas lipomatosis  (IAGP)
perinatal lethality  (IAGP)
perinatal lethality, complete penetrance  (IAGP)
perinatal lethality, incomplete penetrance  (IAGP)
polycystic kidney  (IAGP)
polyhydramnios  (IAGP)
postnatal growth retardation  (IAGP)
postnatal lethality  (IAGP)
postnatal lethality, complete penetrance  (IAGP)
postnatal lethality, incomplete penetrance  (IAGP)
premature cranial synchondrosis closure  (IAGP)
premature death  (IAGP)
premature presphenoid synchondrosis closure  (IAGP)
premature sphenooccipital synchondrosis closure  (IAGP)
prenatal lethality, complete penetrance  (IAGP)
prenatal lethality, incomplete penetrance  (IAGP)
preweaning lethality, complete penetrance  (IEA)
pulmonary hypoplasia  (IAGP)
renal fibrosis  (IAGP)
renal interstitial fibrosis  (IAGP)
respiratory distress  (IAGP)
respiratory failure  (IAGP)
short femur  (IAGP)
short frontal bone  (IAGP)
short mandible  (IAGP)
short maxilla  (IAGP)
short nasal bone  (IAGP)
short premaxilla  (IAGP)
short presphenoid bone  (IAGP)
short snout  (IAGP)
skin edema  (IAGP)
slow postnatal weight gain  (IAGP)
small lung  (IAGP)
spina bifida occulta  (IAGP)
thick myocardium  (IAGP)
thin myocardium  (IAGP)
uremia  (IAGP)
ventricular septal defect  (IAGP)
weight loss  (IAGP)
References

References - curated
# Reference Title Reference Citation
1. A genetic interaction network of five genes for human polycystic kidney and liver diseases defines polycystin-1 as the central determinant of cyst formation. Fedeles SV, etal., Nat Genet. 2011 Jun 19;43(7):639-47. doi: 10.1038/ng.860.
2. Novel PKD1 and PKD2 mutations in autosomal dominant polycystic kidney disease (ADPKD). Hoefele J, etal., Nephrol Dial Transplant. 2011 Jul;26(7):2181-8. Epub 2010 Nov 29.
3. Functional polycystin-1 dosage governs autosomal dominant polycystic kidney disease severity. Hopp K, etal., J Clin Invest. 2012 Nov 1;122(11):4257-73. doi: 10.1172/JCI64313. Epub 2012 Oct 15.
4. Functional annotation of a full-length mouse cDNA collection. Kawai J, etal., Nature. 2001 Feb 8;409(6821):685-90.
5. Late onset of renal and hepatic cysts in Pkd1-targeted heterozygotes. Lu W, etal., Nat Genet. 1999 Feb;21(2):160-1. doi: 10.1038/5944.
6. Electronic Transfer of Homolog Data MGD and Homologene mouse data transfer
7. MGDs mouse GO annotations MGD data from the GO Consortium
8. MGD IEA MGD IEA
9. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
10. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
11. Screening the 3' region of the polycystic kidney disease 1 (PKD1) gene reveals six novel mutations. Peral B, etal., Am J Hum Genet. 1996 Jan;58(1):86-96.
12. Mouse MP Annotation Import Pipeline RGD automated import pipeline
13. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
14. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
15. Association of mutation position in polycystic kidney disease 1 (PKD1) gene and development of a vascular phenotype. Rossetti S, etal., Lancet. 2003 Jun 28;361(9376):2196-201.
Additional References at PubMed
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PMID:19879844   PMID:19887454   PMID:19945952   PMID:19959710   PMID:19966229   PMID:20053665   PMID:20075061   PMID:20139063   PMID:20181743   PMID:20215348   PMID:20375015   PMID:20388565  
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PMID:28615245   PMID:28701314   PMID:28747357   PMID:28800037   PMID:28826940   PMID:28887310   PMID:28903946   PMID:28993480   PMID:29021226   PMID:29074972   PMID:29107072   PMID:29202470  
PMID:29273751   PMID:29357432   PMID:29401581   PMID:29443690   PMID:29463793   PMID:29483507   PMID:29513071   PMID:29716997   PMID:29717938   PMID:29767557   PMID:29875161   PMID:29891559  
PMID:29925518   PMID:29931260   PMID:30042193   PMID:30209078   PMID:30280600   PMID:30332302   PMID:30372813   PMID:30388220   PMID:30480096   PMID:30692602   PMID:30760828   PMID:30768374  
PMID:30799240   PMID:30818997   PMID:30872773   PMID:30952430   PMID:31038742   PMID:31059522   PMID:31141402   PMID:31157564   PMID:31183407   PMID:31220931   PMID:31260458   PMID:31301888  
PMID:31475747   PMID:31570523   PMID:31589480   PMID:31601454   PMID:31625572   PMID:31631001   PMID:31757932   PMID:31773180   PMID:31808745   PMID:31937827   PMID:31990681   PMID:32015419  
PMID:32182218   PMID:32185407   PMID:32238474   PMID:32239723   PMID:32300065   PMID:32592332   PMID:32651191   PMID:32724471   PMID:32727915   PMID:32859916   PMID:32949996   PMID:32967521  
PMID:33046531   PMID:33065236   PMID:33106477   PMID:33122431   PMID:33490963   PMID:33639177   PMID:33705824   PMID:33737325   PMID:33802342   PMID:33852874   PMID:33886581   PMID:34174014  
PMID:34199520   PMID:34262092   PMID:34324238   PMID:34473378   PMID:34611276   PMID:35059607   PMID:35218894   PMID:35229718   PMID:35273098   PMID:35372986   PMID:35955634   PMID:35961787  
PMID:35965273   PMID:36093769   PMID:36293397   PMID:36523654   PMID:36611841   PMID:36614108   PMID:36681161   PMID:36794754   PMID:37332102   PMID:37345660   PMID:37540694   PMID:37579949  
PMID:37845212   PMID:37884491   PMID:37953472   PMID:37982452   PMID:38070582   PMID:38191531   PMID:38355793   PMID:38561249   PMID:38646641   PMID:38653356   PMID:38901424   PMID:38912583  


Genomics

Comparative Map Data
Pkd1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391724,767,657 - 24,815,457 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1724,768,808 - 24,815,482 (+)EnsemblGRCm39 Ensembl
GRCm381724,548,689 - 24,596,514 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1724,549,834 - 24,596,508 (+)EnsemblGRCm38mm10GRCm38
MGSCv371724,686,895 - 24,733,459 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361724,277,550 - 24,324,083 (+)NCBIMGSCv36mm8
Celera1725,067,435 - 25,114,509 (+)NCBICelera
Cytogenetic Map17A3.3NCBI
cM Map1712.4NCBI
PKD1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38162,088,708 - 2,135,898 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl162,088,708 - 2,135,898 (-)EnsemblGRCh38hg38GRCh38
GRCh37162,138,709 - 2,185,899 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36162,078,712 - 2,125,900 (-)NCBINCBI36Build 36hg18NCBI36
Build 34162,078,711 - 2,125,900NCBI
Celera162,350,824 - 2,400,282 (-)NCBICelera
Cytogenetic Map16p13.3NCBI
HuRef162,063,439 - 2,112,133 (-)NCBIHuRef
CHM1_1162,138,626 - 2,185,837 (-)NCBICHM1_1
T2T-CHM13v2.0162,108,809 - 2,158,372 (-)NCBIT2T-CHM13v2.0
Pkd1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81014,077,733 - 14,125,682 (+)NCBIGRCr8
mRatBN7.21013,573,779 - 13,621,138 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1013,573,021 - 13,621,128 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1018,320,767 - 18,367,923 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01017,809,613 - 17,856,769 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01013,308,806 - 13,355,967 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01013,914,057 - 13,962,008 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1013,915,214 - 13,962,008 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01013,731,035 - 13,778,993 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41013,801,445 - 13,848,212 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11013,801,471 - 13,848,236 (+)NCBI
Celera1013,254,601 - 13,301,131 (+)NCBICelera
Cytogenetic Map10q12NCBI
Pkd1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544215,145,640 - 15,178,377 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495544215,132,555 - 15,178,377 (+)NCBIChiLan1.0ChiLan1.0
LOC100972297
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21832,327,012 - 32,348,526 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11637,144,981 - 37,166,519 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v016604,927 - 1,697,831 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1162,176,778 - 2,185,337 (-)NCBIpanpan1.1PanPan1.1panPan2
PKD1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1638,811,051 - 38,865,503 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl638,837,964 - 38,865,503 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha640,062,677 - 40,104,408 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0639,132,038 - 39,173,761 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl639,132,038 - 39,173,760 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1638,816,853 - 38,858,566 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0638,789,176 - 38,830,884 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0639,267,946 - 39,309,679 (+)NCBIUU_Cfam_GSD_1.0
Pkd1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344104,751,303 - 104,783,237 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366941,930,621 - 1,957,179 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366941,923,383 - 1,958,160 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PKD1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl339,849,609 - 39,899,455 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1339,849,579 - 39,899,455 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2342,282,099 - 42,331,966 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PKD1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.151,985,165 - 2,031,518 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl51,983,632 - 2,015,551 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366606829,031,552 - 29,079,001 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Pkd1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624913118,733 - 165,859 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624913118,520 - 166,939 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Pkd1
2037 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:473
Count of miRNA genes:298
Interacting mature miRNAs:355
Transcripts:ENSMUST00000035565
Prediction methods: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.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1558807Ceat1_mchronic experimental autoimmune thyroiditis 1 (mouse)Not determined171263668226401133Mouse
12910528Nrq1_mnoise-induced hearing loss resistant QTL 1 (mouse)17129198453Mouse
1302038Radpf1_mradiation pulmonary fibrosis 1 (mouse)Not determined171683545533819843Mouse
1300890Bhr3_mbronchial hyperresponsiveness 3 (mouse)Not determined17397489048866091Mouse
1300995Fembrs4_mfemur breaking strength 4 (mouse)Not determined171506165249061760Mouse
4142507Obrq13_mobesity resistance QTL 13 (mouse)Not determined1219832925076769Mouse
1300613Pcyts4_mplasmacytoma susceptibility 4 (mouse)Not determined17127081639Mouse
4141608Phl1_mprogressive hearing loss 1 (mouse)Not determined17787584329487423Mouse
1302152Skull25_mskull morphology 25 (mouse)Not determined171681972150819843Mouse
1302028Asbb3_mautoimmune susceptibility in C57BL/6J and BALB/c 3 (mouse)Not determined171087811944878219Mouse
15039354Nmrs36_mNAFLD-associated magnetic resonance shift 36 (mouse)171914502553145025Mouse
4141215Mnic1_mmacronutrient intake, carbohydrate 1 (mouse)Not determined485475245670266Mouse
1300787Cd8mts5_mCD8 memory T cell subset 5 (mouse)Not determined17858491442585149Mouse
13524847Asrq8a_macoustic startle response 8a (mouse)171264696146646961Mouse
1300914Pcir4_mperiosteal circumference 4 (mouse)Not determined171506165249061760Mouse
13452396Leusq3_mleucocytosis susceptibility QTL 3 (mouse)171746220851462345Mouse
13452399Leusq6_mleucocytosis susceptibility QTL 6 (mouse)171746220851462345Mouse
1300535Char3_mP. chabaudi malaria resistance QTL 3 (mouse)Not determined171746220851462345Mouse
1302070Tbbmd7_mtotal body bone mineral density 7 (mouse)Not determined171506165249061760Mouse
10412214Sxbq3_mSGC/Knj cross B6 QTL 3 (mouse)Not determined171746220851462345Mouse
10412083Sm2_msusceptibility to Schistosoma mansoni infection 2 (mouse)Not determined171702994351030078Mouse
10043949Pbft7_mpercent body fat 7 (mouse)Not determined17689393640893936Mouse
4141067Hbnr2_mHeligmosomoides bakeri nematode resistance 2 (mouse)Not determined1188597145886119Mouse
12904946Tammq8_mtibialis anterior muscle mass QTL 8 (mouse)171245178746451787Mouse
4142342Lfnq4_mlung function QTL 4 (mouse)Not determined1120648439364059Mouse
1357743Lith3_mlithogenic gene 3 (mouse)Not determined17126194456Mouse
1301935Skull24_mskull morphology 24 (mouse)Not determined17858491442585149Mouse
13524851Asrq8_macoustic startle response 8 (mouse)17131030170Mouse
1301331Lbw1_mlupus NZB x NZW 1 (mouse)Not determined171841835752420983Mouse
12910982Pifs2_mpeptide-induced fatal syndrome 2 (mouse)17126189355Mouse
1301840Ssial4_msusceptibility to sialadenitiss 4 (mouse)Not determined171817541252178214Mouse
1302100Circp2_mcircadian photosensitivity 2 (mouse)Not determined17129198453Mouse
1357789Kdnw3_mkidney weight 3 (mouse)Not determined17485475247885665Mouse
1301338Lmr1_mleishmaniasis resistance 1 (mouse)Not determined171008134086996400Mouse
1301056Pas2_mpulmonary adenoma susceptibility 2 (mouse)Not determined171842214152424327Mouse
1357902Obq19_mobesity QTL 19 (mouse)Not determined17125662076Mouse
1301327Lmr7_mleishmaniasis resistance 7 (mouse)Not determined17485475227715939Mouse
1301454Eae5_msusceptibility to experimental allergic encephalomyelitis 5 (mouse)Not determined172461275058612864Mouse
14747010Mancz14_mmandible centroid size 14 (mouse)171199818445998184Mouse
1357680Idd23_minsulin dependent diabetes susceptibility 23 (mouse)Not determined17397489026401133Mouse
4141272Tfv1_mtotal food volume 1 (mouse)Not determined485475265637357Mouse
10412276Leci2_mleukocyte endothelial cell interactions 2 (mouse)Not determined17334817537348299Mouse
1302140Wta4_mweight adult 4 (mouse)Not determined171681972150819843Mouse
1300706Alan1_malloantigen response 1 (mouse)Not determined17485475246469702Mouse
1558886Lgth9_mbody length 9 (mouse)Not determined171506165249061760Mouse
12910769Rtmq1_mrenal tumor modifier QTL 1 (mouse)172290003625721472Mouse
4142150Stheal11_msoft tissue heal 11 (mouse)Not determined171228621183361768Mouse
11081168Tir7_mtrypanosome infection response 7 (mouse)171412337248123496Mouse
12910527Nrq1a_mnoise-induced hearing loss resistant QTL 1a (mouse)17129198453Mouse
1301615Cfld3_mcystic fibrosis lung disease 3 (mouse)Not determined17127081639Mouse

Markers in Region
Pkd1  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381724,592,613 - 24,593,290UniSTSGRCm38
MGSCv371724,729,558 - 24,730,235UniSTSGRCm37
Celera1725,110,600 - 25,111,277UniSTS
Cytogenetic Map17A3.3UniSTS
cM Map1710.4UniSTS
Pkd1  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381724,595,694 - 24,595,804UniSTSGRCm38
MGSCv371724,732,639 - 24,732,749UniSTSGRCm37
Celera1725,113,689 - 25,113,799UniSTS
Cytogenetic Map17A3.3UniSTS
Pkd1  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map17A3.3UniSTS
Pkd1  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381724,564,169 - 24,565,545UniSTSGRCm38
Celera1725,081,989 - 25,083,365UniSTS
Cytogenetic Map17A3.3UniSTS
Tsc2  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381724,596,587 - 24,596,891UniSTSGRCm38
MGSCv371724,733,532 - 24,733,836UniSTSGRCm37
Celera1725,114,582 - 25,114,886UniSTS
Cytogenetic Map17A3.3UniSTS


Expression

RNA-SEQ Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NM_013630 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006523841 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006523842 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006523843 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006523844 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006523845 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006523846 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006523847 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006523852 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_030249577 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_030249578 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_030249579 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_030249580 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_030249581 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_030249582 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_030249583 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_030249584 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_030249585 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_030249586 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_030249587 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_030249588 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_030249589 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_036160405 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_036160406 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC132367 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF333927 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK014622 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK147429 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK154998 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK161088 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK161158 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK202858 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK220312 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY332760 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BB805513 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC099589 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH466606 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U38921 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U70209 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U82557 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSMUST00000035565   ⟹   ENSMUSP00000049296
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1724,768,924 - 24,815,482 (+)Ensembl
GRCm38.p6 Ensembl1724,549,950 - 24,596,508 (+)Ensembl
Ensembl Acc Id: ENSMUST00000226178
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1724,798,134 - 24,802,337 (+)Ensembl
GRCm38.p6 Ensembl1724,579,160 - 24,583,363 (+)Ensembl
Ensembl Acc Id: ENSMUST00000226883   ⟹   ENSMUSP00000154668
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1724,797,000 - 24,799,409 (+)Ensembl
GRCm38.p6 Ensembl1724,578,026 - 24,580,435 (+)Ensembl
Ensembl Acc Id: ENSMUST00000227058   ⟹   ENSMUSP00000153867
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1724,810,168 - 24,812,477 (+)Ensembl
GRCm38.p6 Ensembl1724,591,194 - 24,593,503 (+)Ensembl
Ensembl Acc Id: ENSMUST00000227107   ⟹   ENSMUSP00000154792
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1724,795,518 - 24,815,481 (+)Ensembl
GRCm38.p6 Ensembl1724,576,544 - 24,596,507 (+)Ensembl
Ensembl Acc Id: ENSMUST00000227836   ⟹   ENSMUSP00000154626
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1724,804,820 - 24,806,716 (+)Ensembl
GRCm38.p6 Ensembl1724,585,846 - 24,587,742 (+)Ensembl
Ensembl Acc Id: ENSMUST00000228550   ⟹   ENSMUSP00000154062
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1724,768,808 - 24,769,857 (+)Ensembl
GRCm38.p6 Ensembl1724,549,834 - 24,550,883 (+)Ensembl
Ensembl Acc Id: ENSMUST00000228581   ⟹   ENSMUSP00000154141
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1724,810,378 - 24,812,222 (+)Ensembl
GRCm38.p6 Ensembl1724,591,404 - 24,593,248 (+)Ensembl
Ensembl Acc Id: ENSMUST00000228745   ⟹   ENSMUSP00000153873
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1724,787,310 - 24,788,329 (+)Ensembl
GRCm38.p6 Ensembl1724,568,336 - 24,569,355 (+)Ensembl
Ensembl Acc Id: ENSMUST00000228750
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1724,806,593 - 24,810,390 (+)Ensembl
GRCm38.p6 Ensembl1724,587,619 - 24,591,416 (+)Ensembl
RefSeq Acc Id: NM_013630   ⟹   NP_038658
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391724,769,028 - 24,815,457 (+)NCBI
GRCm381724,549,950 - 24,596,514 (+)ENTREZGENE
MGSCv371724,686,895 - 24,733,459 (+)RGD
Celera1725,067,435 - 25,114,509 (+)RGD
cM Map17 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_006523841   ⟹   XP_006523904
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391724,767,657 - 24,815,457 (+)NCBI
GRCm381724,548,689 - 24,596,483 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006523842   ⟹   XP_006523905
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391724,767,657 - 24,815,457 (+)NCBI
GRCm381724,548,689 - 24,596,483 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006523843   ⟹   XP_006523906
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391724,767,657 - 24,815,457 (+)NCBI
GRCm381724,548,689 - 24,596,483 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006523844   ⟹   XP_006523907
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391724,767,657 - 24,815,457 (+)NCBI
GRCm381724,548,689 - 24,596,483 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006523845   ⟹   XP_006523908
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391724,767,657 - 24,815,457 (+)NCBI
GRCm381724,548,689 - 24,596,483 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006523846   ⟹   XP_006523909
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391724,767,657 - 24,815,457 (+)NCBI
GRCm381724,548,689 - 24,596,483 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006523847   ⟹   XP_006523910
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391724,767,657 - 24,815,457 (+)NCBI
GRCm381724,548,689 - 24,596,483 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006523852   ⟹   XP_006523915
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391724,767,657 - 24,815,457 (+)NCBI
GRCm381724,548,689 - 24,596,483 (+)NCBI
Sequence:
RefSeq Acc Id: XM_030249577   ⟹   XP_030105437
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391724,767,657 - 24,815,457 (+)NCBI
GRCm381724,548,689 - 24,596,483 (+)NCBI
Sequence:
RefSeq Acc Id: XM_030249578   ⟹   XP_030105438
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391724,767,657 - 24,815,457 (+)NCBI
GRCm381724,548,689 - 24,596,483 (+)NCBI
Sequence:
RefSeq Acc Id: XM_030249579   ⟹   XP_030105439
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391724,767,657 - 24,815,457 (+)NCBI
GRCm381724,548,689 - 24,596,483 (+)NCBI
Sequence:
RefSeq Acc Id: XM_030249580   ⟹   XP_030105440
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391724,767,657 - 24,815,457 (+)NCBI
GRCm381724,548,689 - 24,596,483 (+)NCBI
Sequence:
RefSeq Acc Id: XM_030249581   ⟹   XP_030105441
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391724,767,657 - 24,815,457 (+)NCBI
GRCm381724,548,689 - 24,596,483 (+)NCBI
Sequence:
RefSeq Acc Id: XM_030249582   ⟹   XP_030105442
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391724,767,657 - 24,815,457 (+)NCBI
GRCm381724,548,689 - 24,596,483 (+)NCBI
Sequence: