Pkd2 (polycystin 2, transient receptor potential cation channel) - Rat Genome Database

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Gene: Pkd2 (polycystin 2, transient receptor potential cation channel) Rattus norvegicus
Analyze
Symbol: Pkd2
Name: polycystin 2, transient receptor potential cation channel
RGD ID: 1559992
Description: Enables muscle alpha-actinin binding activity. Involved in positive regulation of cytosolic calcium ion concentration. Predicted to be located in several cellular components, including basal cortex; endoplasmic reticulum membrane; and microtubule cytoskeleton. Predicted to be part of cation channel complex and polycystin complex. Predicted to be active in membrane. Biomarker of acute kidney failure. Human ortholog(s) of this gene implicated in autosomal dominant polycystic kidney disease; intracranial aneurysm; polycystic kidney disease; polycystic kidney disease 2; and retinal degeneration. Orthologous to human PKD2 (polycystin 2, transient receptor potential cation channel); INTERACTS WITH 1-naphthyl isothiocyanate; 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC498328; polycystic kidney disease 2; polycystic kidney disease 2 (autosomal dominant); polycystic kidney disease 2 homolog; polycystic kidney disease 2 homolog (human); polycystin-2; RGD1559992; similar to polycystic kidney disease 2; Trpp2
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8145,541,821 - 5,585,140 (-)NCBIGRCr8
mRatBN7.2145,237,135 - 5,280,455 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl145,237,135 - 5,280,825 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx145,198,260 - 5,241,484 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0146,498,456 - 6,541,680 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0145,192,618 - 5,233,125 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0146,602,004 - 6,645,257 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl146,602,004 - 6,645,257 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0146,581,342 - 6,624,595 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4146,349,519 - 6,392,988 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera145,376,651 - 5,418,198 (-)NCBICelera
Cytogenetic Map14p22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-epigallocatechin 3-gallate  (ISO)
1,2-dimethylhydrazine  (ISO)
1-naphthyl isothiocyanate  (EXP)
17beta-estradiol  (EXP,ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
4,4'-sulfonyldiphenol  (ISO)
5-aza-2'-deoxycytidine  (ISO)
6-propyl-2-thiouracil  (EXP)
acetamide  (EXP)
acrolein  (ISO)
aflatoxin B1  (ISO)
alpha-pinene  (ISO)
alpha-Zearalanol  (ISO)
amiloride  (ISO)
antirheumatic drug  (ISO)
aristolochic acid A  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
benzo[a]pyrene  (ISO)
bisphenol A  (EXP)
bisphenol F  (ISO)
butanal  (ISO)
cadmium dichloride  (ISO)
calcium atom  (ISO)
calcium(0)  (ISO)
capecitabine  (ISO)
carbon nanotube  (ISO)
CGP 52608  (ISO)
cobalt dichloride  (ISO)
copper atom  (EXP,ISO)
copper(0)  (EXP,ISO)
crocidolite asbestos  (ISO)
cyclosporin A  (ISO)
DDE  (ISO)
diuron  (EXP)
doxifluridine  (ISO)
doxorubicin  (ISO)
endosulfan  (EXP)
ethanol  (ISO)
folic acid  (ISO)
FR900359  (ISO)
gentamycin  (EXP,ISO)
GSK-J4  (ISO)
hydrogen chloride  (ISO)
iron dichloride  (ISO)
isepamicin  (ISO)
leflunomide  (ISO)
N,N-diethyl-m-toluamide  (EXP)
okadaic acid  (ISO)
ozone  (ISO)
paclitaxel  (ISO)
paracetamol  (EXP,ISO)
perfluorooctane-1-sulfonic acid  (ISO)
permethrin  (EXP)
phenobarbital  (ISO)
pirinixic acid  (ISO)
potassium chromate  (ISO)
resveratrol  (ISO)
Salinomycin  (ISO)
senecionine  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
succimer  (ISO)
temozolomide  (ISO)
thioacetamide  (EXP)
thiram  (ISO)
titanium dioxide  (ISO)
triphenyl phosphate  (ISO)
tunicamycin  (ISO)
urethane  (ISO)
valproic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
aorta development  (ISO)
branching involved in ureteric bud morphogenesis  (ISO)
calcium ion transmembrane transport  (IEA,ISO)
calcium ion transport  (IEA,ISO)
calcium-mediated signaling  (IEA)
cell surface receptor signaling pathway  (ISO)
cell surface receptor signaling pathway via JAK-STAT  (ISO)
cellular response to calcium ion  (ISO)
cellular response to cAMP  (ISO)
cellular response to fluid shear stress  (ISO)
cellular response to hydrostatic pressure  (ISO)
cellular response to osmotic stress  (ISO)
cilium organization  (ISO)
detection of mechanical stimulus  (IBA,ISO)
detection of nodal flow  (ISO)
determination of left/right symmetry  (ISO)
determination of liver left/right asymmetry  (ISO)
embryonic placenta development  (ISO)
establishment of localization in cell  (ISO)
heart development  (ISO)
heart looping  (ISO)
inorganic cation transmembrane transport  (ISO)
intracellular calcium ion homeostasis  (ISO)
kidney development  (ISO)
liver development  (ISO)
mesonephric duct development  (ISO)
mesonephric tubule development  (ISO)
metanephric ascending thin limb development  (ISO)
metanephric cortex development  (ISO)
metanephric cortical collecting duct development  (ISO)
metanephric distal tubule development  (ISO)
metanephric mesenchyme development  (ISO)
metanephric part of ureteric bud development  (ISO)
metanephric S-shaped body morphogenesis  (ISO)
metanephric smooth muscle tissue development  (ISO)
monoatomic ion transmembrane transport  (IEA)
monoatomic ion transport  (IEA)
negative regulation of G1/S transition of mitotic cell cycle  (ISO)
negative regulation of ryanodine-sensitive calcium-release channel activity  (ISO)
neural tube development  (ISO)
placenta blood vessel development  (ISO)
positive regulation of cytosolic calcium ion concentration  (IMP)
positive regulation of gene expression  (ISO)
positive regulation of nitric oxide biosynthetic process  (ISO)
positive regulation of phospholipase C-activating G protein-coupled receptor signaling pathway  (ISO)
positive regulation of transcription by RNA polymerase II  (ISO)
potassium ion transmembrane transport  (IBA,IEA,ISO)
potassium ion transport  (IEA,ISO)
protein heterotetramerization  (ISO)
protein homotetramerization  (ISO)
protein tetramerization  (ISO)
regulation of calcium ion import  (ISO)
regulation of cell cycle  (ISO)
regulation of cell population proliferation  (ISO)
release of sequestered calcium ion into cytosol  (IBA,ISO)
renal artery morphogenesis  (ISO)
renal tubule morphogenesis  (ISO)
sodium ion transmembrane transport  (ISO)
sodium ion transport  (ISO)
spinal cord development  (ISO)
Wnt signaling pathway  (IEA,ISO)

References

References - curated
# Reference Title Reference Citation
1. A truncated polycystin-2 protein causes polycystic kidney disease and retinal degeneration in transgenic rats. Gallagher AR, etal., J Am Soc Nephrol. 2006 Oct;17(10):2719-30. doi: 10.1681/ASN.2005090979. Epub 2006 Aug 30.
2. 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.
3. 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.
4. Alpha-actinin associates with polycystin-2 and regulates its channel activity. Li Q, etal., Hum Mol Genet. 2005 Jun 15;14(12):1587-603. Epub 2005 Apr 20.
5. Cholangiocyte cilia detect changes in luminal fluid flow and transmit them into intracellular Ca2+ and cAMP signaling. Masyuk AI, etal., Gastroenterology. 2006 Sep;131(3):911-20.
6. Altered expression pattern of polycystin-2 in acute and chronic renal tubular diseases. Obermuller N, etal., J Am Soc Nephrol. 2002 Jul;13(7):1855-64.
7. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
8. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
9. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
10. Clinical utility of PKD2 mutation testing in a polycystic kidney disease cohort attending a specialist nephrology out-patient clinic. Robinson C, etal., BMC Nephrol. 2012 Aug 3;13:79. doi: 10.1186/1471-2369-13-79.
11. 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.
12. Polycystin-2 expression is increased following experimental ischaemic renal injury. Zhao Y, etal., Nephrol Dial Transplant. 2002 Dec;17(12):2138-44.
Additional References at PubMed
PMID:9192675   PMID:10097141   PMID:10615132   PMID:10760273   PMID:10770959   PMID:11252306   PMID:11854751   PMID:11891195   PMID:11901144   PMID:12007403   PMID:12062060   PMID:12062067  
PMID:12514735   PMID:12640140   PMID:12874107   PMID:15001556   PMID:15123714   PMID:15337773   PMID:15692563   PMID:15790956   PMID:15858826   PMID:16025301   PMID:16192288   PMID:16223735  
PMID:16301212   PMID:16311606   PMID:16316413   PMID:17404231   PMID:18178578   PMID:18235088   PMID:18552856   PMID:18721488   PMID:19056867   PMID:19158352   PMID:19265036   PMID:19556541  
PMID:19801576   PMID:19806208   PMID:19897428   PMID:20168298   PMID:20181743   PMID:20408813   PMID:20862291   PMID:21044049   PMID:21307093   PMID:21622852   PMID:21685914   PMID:21719175  
PMID:22031837   PMID:23398808   PMID:23755094   PMID:24990821   PMID:25114176   PMID:25351462   PMID:25367197   PMID:25405894   PMID:26269590   PMID:27071085   PMID:27214281   PMID:27760766  
PMID:27991905   PMID:28092368   PMID:28154160   PMID:29899465   PMID:30093605   PMID:35355482   PMID:36155344  


Genomics

Comparative Map Data
Pkd2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8145,541,821 - 5,585,140 (-)NCBIGRCr8
mRatBN7.2145,237,135 - 5,280,455 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl145,237,135 - 5,280,825 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx145,198,260 - 5,241,484 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0146,498,456 - 6,541,680 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0145,192,618 - 5,233,125 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0146,602,004 - 6,645,257 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl146,602,004 - 6,645,257 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0146,581,342 - 6,624,595 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4146,349,519 - 6,392,988 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera145,376,651 - 5,418,198 (-)NCBICelera
Cytogenetic Map14p22NCBI
PKD2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38488,007,635 - 88,077,777 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl488,007,635 - 88,077,777 (+)EnsemblGRCh38hg38GRCh38
GRCh37488,928,787 - 88,998,929 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36489,147,844 - 89,217,953 (+)NCBINCBI36Build 36hg18NCBI36
Build 34489,285,998 - 89,356,107NCBI
Celera486,220,746 - 86,290,863 (+)NCBICelera
Cytogenetic Map4q22.1NCBI
HuRef484,675,256 - 84,745,398 (+)NCBIHuRef
CHM1_1488,905,594 - 88,975,728 (+)NCBICHM1_1
T2T-CHM13v2.0491,334,123 - 91,404,269 (+)NCBIT2T-CHM13v2.0
Pkd2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm395104,599,379 - 104,653,685 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl5104,607,316 - 104,653,685 (+)EnsemblGRCm39 Ensembl
GRCm385104,453,982 - 104,505,819 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5104,459,450 - 104,505,819 (+)EnsemblGRCm38mm10GRCm38
MGSCv375104,888,476 - 104,934,838 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv365104,699,856 - 104,746,118 (+)NCBIMGSCv36mm8
Celera5101,769,092 - 101,817,838 (+)NCBICelera
Cytogenetic Map5E5NCBI
cM Map550.68NCBI
Pkd2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554741,833,701 - 1,868,817 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554741,831,221 - 1,868,170 (-)NCBIChiLan1.0ChiLan1.0
PKD2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2386,009,202 - 86,079,254 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1486,271,612 - 86,341,660 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0480,295,243 - 80,365,271 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1491,019,739 - 91,088,858 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl491,019,734 - 91,086,775 (+)Ensemblpanpan1.1panPan2
PKD2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13211,383,441 - 11,437,603 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3211,383,424 - 11,435,438 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3230,517,045 - 30,571,324 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03211,435,888 - 11,490,399 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3211,435,683 - 11,490,397 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13211,519,719 - 11,571,825 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03211,345,806 - 11,399,834 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03228,555,188 - 28,609,469 (-)NCBIUU_Cfam_GSD_1.0
Pkd2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244052851,657,007 - 1,709,229 (-)NCBIHiC_Itri_2
SpeTri2.0NW_00493690576,781 - 128,995 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PKD2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl8131,005,407 - 131,058,932 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.18131,002,973 - 131,058,932 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.28140,233,075 - 140,289,084 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PKD2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1736,369,226 - 36,445,713 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl736,369,524 - 36,443,612 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603715,121,642 - 15,193,435 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Pkd2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248724,539,847 - 4,594,793 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248724,539,965 - 4,592,004 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Pkd2
870 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:433
Count of miRNA genes:255
Interacting mature miRNAs:312
Transcripts:ENSRNOT00000002916
Prediction methods:Microtar, Miranda, 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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300114Srn2Serum renin concentration QTL 23.27blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)14381307421217635Rat
70195Mcs8Mammary carcinoma susceptibility QTL 84.28mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)14381307424531477Rat
2293089Iddm31Insulin dependent diabetes mellitus QTL 314.7blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)14381307418274691Rat
2300183Bmd60Bone mineral density QTL 605.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)14126541967Rat
724541Niddm53Non-insulin dependent diabetes mellitus QTL 530.001blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1438130749088978Rat
1331740Bw26Body weight QTL 263.028body mass (VT:0001259)body weight (CMO:0000012)14381307430767156Rat
634352Apr6Acute phase response QTL 63.7blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)14141131407Rat
619619Rf4Renal disease susceptibility QTL 44.10.002urine total protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)14132754612Rat
71115Niddm15Non-insulin dependent diabetes mellitus QTL 154.8blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)14121760611030812Rat
2300159Bmd61Bone mineral density QTL 615.30.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)14126541967Rat
70204Niddm20Non-insulin dependent diabetes mellitus QTL 205.10.000008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)14121760616960180Rat

Markers in Region
BI294486  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2145,238,913 - 5,239,086 (+)MAPPERmRatBN7.2
Rnor_6.0146,603,783 - 6,603,955NCBIRnor6.0
Rnor_5.0146,583,121 - 6,583,293UniSTSRnor5.0
RGSC_v3.4146,351,298 - 6,351,470UniSTSRGSC3.4
Celera145,378,430 - 5,378,602UniSTS
RH 3.4 Map14114.3UniSTS
Cytogenetic Map14p22UniSTS
RH141583  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2145,237,277 - 5,237,457 (+)MAPPERmRatBN7.2
Rnor_6.0146,602,147 - 6,602,326NCBIRnor6.0
Rnor_5.0146,581,485 - 6,581,664UniSTSRnor5.0
RGSC_v3.4146,349,662 - 6,349,841UniSTSRGSC3.4
Celera145,376,794 - 5,376,973UniSTS
RH 3.4 Map1485.7UniSTS
Cytogenetic Map14p22UniSTS
RH142028  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2145,253,831 - 5,254,049 (+)MAPPERmRatBN7.2
Rnor_6.0146,618,116 - 6,618,333NCBIRnor6.0
Rnor_5.0146,597,454 - 6,597,671UniSTSRnor5.0
RGSC_v3.4146,366,773 - 6,366,990UniSTSRGSC3.4
Celera145,392,929 - 5,393,146UniSTS
RH 3.4 Map14115.5UniSTS
Cytogenetic Map14p22UniSTS


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
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31

Sequence


Ensembl Acc Id: ENSRNOT00000002916   ⟹   ENSRNOP00000002916
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl145,237,135 - 5,280,825 (-)Ensembl
Rnor_6.0 Ensembl146,602,004 - 6,645,257 (-)Ensembl
RefSeq Acc Id: NM_001191934   ⟹   NP_001178863
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8145,541,821 - 5,585,140 (-)NCBI
mRatBN7.2145,237,135 - 5,280,455 (-)NCBI
Rnor_6.0146,602,004 - 6,645,257 (-)NCBI
Rnor_5.0146,581,342 - 6,624,595 (-)NCBI
Celera145,376,651 - 5,418,198 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001178863 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL99486 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000002916.4
RefSeq Acc Id: NP_001178863   ⟸   NM_001191934
- UniProtKB: D4A5F1 (UniProtKB/TrEMBL),   A6K5R6 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000002916   ⟸   ENSRNOT00000002916
Protein Domains
EF-hand

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4A5F1-F1-model_v2 AlphaFold D4A5F1 1-966 view protein structure

Transcriptome

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

Promoters
RGD ID:13699170
Promoter ID:EPDNEW_R9695
Type:initiation region
Name:Pkd2_1
Description:polycystin 2, transient receptor potential cation channel
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_6.0146,645,297 - 6,645,357EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1559992 AgrOrtholog
BioCyc Gene G2FUF-16514 BioCyc
Ensembl Genes ENSRNOG00000002146 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000002916.6 UniProtKB/TrEMBL
Gene3D-CATH 1.10.287.70 UniProtKB/TrEMBL
  1.20.120.350 UniProtKB/TrEMBL
  1.20.5.340 UniProtKB/TrEMBL
  EF-hand UniProtKB/TrEMBL
InterPro EF-hand-like_dom UniProtKB/TrEMBL
  EF_hand_Ca-bd UniProtKB/TrEMBL
  PKD1_2_channel UniProtKB/TrEMBL
  PKD_2 UniProtKB/TrEMBL
  Polycystin UniProtKB/TrEMBL
  Polycystin_dom UniProtKB/TrEMBL
  Volt_channel_dom_sf UniProtKB/TrEMBL
KEGG Report rno:498328 UniProtKB/TrEMBL
NCBI Gene 498328 ENTREZGENE
PANTHER POLYCYSTIN FAMILY MEMBER UniProtKB/TrEMBL
  POLYCYSTIN-2 UniProtKB/TrEMBL
Pfam Fer4_24 UniProtKB/TrEMBL
  PKD_channel UniProtKB/TrEMBL
  Polycystin_dom UniProtKB/TrEMBL
PhenoGen Pkd2 PhenoGen
PRINTS POLYCYSTIN2 UniProtKB/TrEMBL
PROSITE EF_HAND_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000002146 RatGTEx
Superfamily-SCOP SSF47473 UniProtKB/TrEMBL
  Voltage-gated potassium channels UniProtKB/TrEMBL
UniProt A6K5R6 ENTREZGENE, UniProtKB/TrEMBL
  D4A5F1 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-03 Pkd2  polycystin 2, transient receptor potential cation channel  Pkd2  polycystic kidney disease 2 (autosomal dominant)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-11-21 Pkd2  polycystic kidney disease 2 (autosomal dominant)  Pkd2  polycystic kidney disease 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-11-20 Pkd2  polycystic kidney disease 2  Pkd2  polycystic kidney disease 2 homolog (human)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-12-15 Pkd2  polycystic kidney disease 2 homolog (human)  Pkd2  polycystic kidney disease 2   Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Pkd2  polycystic kidney disease 2   Pkd2_predicted  polycystic kidney disease 2 (predicted)  'predicted' is removed 2292626 APPROVED
2006-08-30 Pkd2_predicted  polycystic kidney disease 2 (predicted)  RGD1559992_predicted  similar to polycystic kidney disease 2 (predicted)  Symbol and Name updated to reflect Human and Mouse nomenclature 1299863 APPROVED
2006-03-07 RGD1559992_predicted  similar to polycystic kidney disease 2 (predicted)  LOC498328  similar to polycystic kidney disease 2  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC498328  similar to polycystic kidney disease 2      Symbol and Name status set to provisional 70820 PROVISIONAL