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

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Gene: Pkd2 (polycystin 2, transient receptor potential cation channel) Ictidomys tridecemlineatus
Analyze
Symbol: Pkd2
Name: polycystin 2, transient receptor potential cation channel
RGD ID: 12477465
Description: ENCODES a protein that exhibits actinin binding (ortholog); alpha-actinin binding (ortholog); calcium channel activity (ortholog); INVOLVED IN aorta development (ortholog); branching involved in ureteric bud morphogenesis (ortholog); calcium ion transport (ortholog); ASSOCIATED WITH acute kidney failure (ortholog); autosomal dominant polycystic kidney disease (ortholog); autosomal recessive polycystic kidney disease (ortholog); FOUND IN basal plasma membrane (ortholog); cation channel complex (ortholog); cytoplasmic side of endoplasmic reticulum membrane (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: polycystin-2
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
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
JBrowse: View Region in Genome Browser (JBrowse)
Model


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)
calcium ion transport  (IEA,ISO)
cell surface receptor signaling pathway  (ISO)
cell surface receptor signaling pathway via JAK-STAT  (IEA,ISO)
cellular response to calcium ion  (IEA)
cellular response to cAMP  (ISO)
cellular response to fluid shear stress  (IEA)
cellular response to hydrostatic pressure  (ISO)
cellular response to osmotic stress  (ISO)
cilium organization  (ISO)
detection of mechanical stimulus  (IEA,ISO)
detection of nodal flow  (IEA)
determination of left/right symmetry  (IEA,ISO)
determination of liver left/right asymmetry  (ISO)
embryonic placenta development  (IEA,ISO)
establishment of localization in cell  (IEA,ISO)
heart development  (IEA,ISO)
heart looping  (ISO)
inorganic cation transmembrane transport  (ISO)
intracellular calcium ion homeostasis  (IEA,ISO)
kidney development  (IEA,ISO)
liver development  (IEA,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)
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  (IEA)
positive regulation of cytosolic calcium ion concentration  (ISO)
positive regulation of gene expression  (IEA)
positive regulation of inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity  (ISO)
positive regulation of nitric oxide biosynthetic process  (IEA)
positive regulation of transcription by RNA polymerase II  (ISO)
potassium ion transmembrane transport  (IEA)
potassium ion transport  (IEA)
protein heterotetramerization  (ISO)
protein homotetramerization  (ISO)
protein tetramerization  (ISO)
regulation of calcium ion import  (ISO)
regulation of cell cycle  (IEA,ISO)
regulation of cell population proliferation  (ISO)
release of sequestered calcium ion into cytosol  (IEA,ISO)
renal artery morphogenesis  (ISO)
renal tubule morphogenesis  (IEA)
sodium ion transmembrane transport  (IEA)
sodium ion transport  (IEA)
spinal cord development  (ISO)
Wnt signaling pathway  (IEA)

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
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
(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
(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
(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
(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


Expression

RNA-SEQ Expression


Sequence


RefSeq Acc Id: XM_040292164   ⟹   XP_040148098
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_0244052851,657,007 - 1,709,229 (-)NCBI
Protein Sequences
Protein RefSeqs XP_040148098 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSTOP00000003516.3
GenBank Protein KAG3276298 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: XP_040148098   ⟸   XM_040292164
- UniProtKB: I3M398 (UniProtKB/TrEMBL)
Protein Domains
EF-hand


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000003921 UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000003924.3 UniProtKB/TrEMBL
Gene3D-CATH 1.20.120.350 UniProtKB/TrEMBL
  1.20.5.340 UniProtKB/TrEMBL
  EF-hand UniProtKB/TrEMBL
InterPro EF-hand-dom_pair UniProtKB/TrEMBL
  EF_hand_dom UniProtKB/TrEMBL
  PKD1_2_channel UniProtKB/TrEMBL
  PKD_2 UniProtKB/TrEMBL
  Polycystin UniProtKB/TrEMBL
  Polycystin_dom UniProtKB/TrEMBL
  Volt_channel_dom_sf UniProtKB/TrEMBL
NCBI Gene Pkd2 ENTREZGENE
PANTHER POLYCYSTIN FAMILY MEMBER UniProtKB/TrEMBL
  POLYCYSTIN-2 UniProtKB/TrEMBL
Pfam Fer4_24 UniProtKB/TrEMBL
  PKD_channel UniProtKB/TrEMBL
  Polycystin_dom UniProtKB/TrEMBL
PRINTS POLYCYSTIN2 UniProtKB/TrEMBL
PROSITE EF_HAND_2 UniProtKB/TrEMBL
Superfamily-SCOP SSF47473 UniProtKB/TrEMBL
  Voltage-gated potassium channels UniProtKB/TrEMBL
UniProt I3M398 ENTREZGENE, UniProtKB/TrEMBL