PKD2 (polycystin 2, transient receptor potential cation channel) - Rat Genome Database

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Gene: PKD2 (polycystin 2, transient receptor potential cation channel) Sus scrofa
Analyze
Symbol: PKD2
Name: polycystin 2, transient receptor potential cation channel
RGD ID: 13937083
Description: ENCODES a protein that exhibits alpha-actinin binding (ortholog); calcium channel activity (ortholog); muscle alpha-actinin binding (ortholog); INVOLVED IN calcium ion transport (ortholog); cell surface receptor signaling pathway via JAK-STAT (ortholog); cilium organization (ortholog); ASSOCIATED WITH acute kidney failure (ortholog); autosomal dominant polycystic kidney disease (ortholog); autosomal recessive polycystic kidney disease (ortholog); FOUND IN microtubule cytoskeleton; mitotic spindle; non-motile cilium; INTERACTS WITH deoxynivalenol
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: PC2; polycystin-2; TRPP2
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
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
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

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

References
Additional References at PubMed
PMID:14681463   PMID:16135816   PMID:17145712   PMID:19812035   PMID:21277361   PMID:22301074   PMID:24104765   PMID:30032202  


Genomics

Comparative Map Data
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
(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
(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
(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
2861 total Variants

Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
circulatory system
ectoderm
endocrine system
hemolymphoid system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
10 4 23 3 5 14 12 23 3 6 1

Sequence


Ensembl Acc Id: ENSSSCT00000010093   ⟹   ENSSSCP00000009827
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl8131,005,407 - 131,058,932 (-)Ensembl
Ensembl Acc Id: ENSSSCT00000065380   ⟹   ENSSSCP00000049464
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl8131,005,409 - 131,025,594 (-)Ensembl
RefSeq Acc Id: NM_001245979   ⟹   NP_001232908
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.18131,005,387 - 131,058,932 (-)NCBI
Sequence:
RefSeq Acc Id: XM_005667011   ⟹   XP_005667068
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.18131,002,973 - 131,058,760 (-)NCBI
Sequence:
RefSeq Acc Id: XP_005667068   ⟸   XM_005667011
- Peptide Label: isoform X1
- UniProtKB: A0A287ABF0 (UniProtKB/TrEMBL),   A0A8D1D0T2 (UniProtKB/TrEMBL),   A0A8D1EDT8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001232908   ⟸   NM_001245979
- UniProtKB: F2VYA1 (UniProtKB/TrEMBL),   A0A4X1U842 (UniProtKB/TrEMBL),   F1RW49 (UniProtKB/TrEMBL),   A0A8D1D0T2 (UniProtKB/TrEMBL),   A0A8D1EDT8 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSSSCP00000009827   ⟸   ENSSSCT00000010093
Ensembl Acc Id: ENSSSCP00000049464   ⟸   ENSSSCT00000065380
Protein Domains
EF-hand


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000009217 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00015023336 UniProtKB/TrEMBL
  ENSSSCG00025040026 UniProtKB/TrEMBL
  ENSSSCG00030038542 UniProtKB/TrEMBL
  ENSSSCG00035062151 UniProtKB/TrEMBL
  ENSSSCG00040033952 UniProtKB/TrEMBL
  ENSSSCG00050020722 UniProtKB/TrEMBL
  ENSSSCG00055026183 UniProtKB/TrEMBL
  ENSSSCG00060011266 UniProtKB/TrEMBL
  ENSSSCG00070014711 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000010093 ENTREZGENE
  ENSSSCT00000010093.4 UniProtKB/TrEMBL
  ENSSSCT00000065380.3 UniProtKB/TrEMBL
  ENSSSCT00015031221.1 UniProtKB/TrEMBL
  ENSSSCT00025054465.1 UniProtKB/TrEMBL
  ENSSSCT00025054616.1 UniProtKB/TrEMBL
  ENSSSCT00030053666.1 UniProtKB/TrEMBL
  ENSSSCT00035083556.1 UniProtKB/TrEMBL
  ENSSSCT00040045693.1 UniProtKB/TrEMBL
  ENSSSCT00040045751.1 UniProtKB/TrEMBL
  ENSSSCT00050027969.1 UniProtKB/TrEMBL
  ENSSSCT00055052268.1 UniProtKB/TrEMBL
  ENSSSCT00060014699.1 UniProtKB/TrEMBL
  ENSSSCT00060014710.1 UniProtKB/TrEMBL
  ENSSSCT00070028871.1 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-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
KEGG Report ssc:641309 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 A0A287ABF0 ENTREZGENE, UniProtKB/TrEMBL
  A0A287B038_PIG UniProtKB/TrEMBL
  A0A4X1U842 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D0RX98_PIG UniProtKB/TrEMBL
  A0A8D0S520_PIG UniProtKB/TrEMBL
  A0A8D1D0T2 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D1EDT8 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D1RZP7_PIG UniProtKB/TrEMBL
  A0A8D1UI53_PIG UniProtKB/TrEMBL
  F1RW49 ENTREZGENE
  F2VYA1 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary F1RW49 UniProtKB/TrEMBL
VGNC ID VGNC:91472 ENTREZGENE