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

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Pkd1 (polycystin 1, transient receptor potential channel interacting) Chinchilla lanigera
Analyze
Symbol: Pkd1
Name: polycystin 1, transient receptor potential channel interacting
RGD ID: 8968612
Description: ENCODES a protein that exhibits calcium channel activity (ortholog); cation channel activity (ortholog); protein domain specific binding (ortholog); INVOLVED IN blood vessel development (ortholog); branching morphogenesis of an epithelial tube (ortholog); calcium ion transmembrane transport (ortholog); ASSOCIATED WITH Animal Disease Models (ortholog); autosomal dominant polycystic kidney disease (ortholog); autosomal recessive polycystic kidney disease (ortholog); FOUND IN basolateral plasma membrane (ortholog); calcium channel complex (ortholog); cation channel complex (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Also known as: polycystic kidney disease 1 (autosomal dominant); polycystin-1
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChiLan1.0 - Chinchilla ChiLan1.0 Assembly
NCBI Annotation Information: Annotation category: partial on reference assembly
Position:
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
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

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

References


Genomics

Comparative Map Data
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
PKD1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl162,088,708 - 2,135,898 (-)EnsemblGRCh38hg38GRCh38
GRCh38162,088,708 - 2,135,898 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37162,138,709 - 2,185,899 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36162,078,712 - 2,125,900 (-)NCBINCBI36hg18NCBI36
Build 34162,078,711 - 2,125,900NCBI
Celera162,350,824 - 2,400,282 (-)NCBI
Cytogenetic Map16p13.3NCBI
HuRef162,063,439 - 2,112,133 (-)NCBIHuRef
CHM1_1162,138,626 - 2,185,837 (-)NCBICHM1_1
Pkd1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391724,767,657 - 24,815,488 (+)NCBIGRCm39mm39
GRCm39 Ensembl1724,768,808 - 24,815,482 (+)Ensembl
GRCm381724,548,689 - 24,596,514 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1724,549,834 - 24,596,508 (+)EnsemblGRCm38mm10GRCm38
MGSCv371724,686,895 - 24,733,459 (+)NCBIGRCm37mm9NCBIm37
MGSCv361724,277,550 - 24,324,083 (+)NCBImm8
Celera1725,067,435 - 25,114,509 (+)NCBICelera
Cytogenetic Map17A3.3NCBI
cM Map1712.4NCBI
Pkd1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21013,573,779 - 13,621,138 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1013,573,021 - 13,621,128 (+)Ensembl
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 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11013,801,471 - 13,848,236 (+)NCBI
Celera1013,254,601 - 13,301,131 (+)NCBICelera
Cytogenetic Map10q12NCBI
LOC100972297
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1162,176,778 - 2,185,337 (-)NCBIpanpan1.1PanPan1.1panPan2
Mhudiblu_PPA_v016604,927 - 1,697,831 (+)NCBIMhudiblu_PPA_v0panPan3
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 (+)NCBI
ROS_Cfam_1.0639,132,038 - 39,173,761 (+)NCBI
ROS_Cfam_1.0 Ensembl639,132,038 - 39,173,760 (+)Ensembl
UMICH_Zoey_3.1638,816,853 - 38,858,566 (+)NCBI
UNSW_CanFamBas_1.0638,789,176 - 38,830,884 (+)NCBI
UU_Cfam_GSD_1.0639,267,946 - 39,309,679 (+)NCBI
Pkd1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344104,751,303 - 104,783,237 (-)NCBI
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 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl51,983,632 - 2,015,551 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366606829,031,552 - 29,079,001 (+)NCBIVero_WHO_p1.0
Pkd1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624913118,520 - 166,939 (+)NCBIHetGla_female_1.0hetGla2


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSCLAT00000020404   ⟹   ENSCLAP00000020209
RefSeq Status:
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_00495544215,145,640 - 15,177,382 (+)Ensembl
RefSeq Acc Id: ENSCLAT00000020405   ⟹   ENSCLAP00000020210
RefSeq Status:
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_00495544215,146,004 - 15,178,377 (+)Ensembl
RefSeq Acc Id: XM_013517656   ⟹   XP_013373110
RefSeq Status:
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495544215,132,555 - 15,178,377 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_013373110 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_013373110   ⟸   XM_013517656
- Sequence:
RefSeq Acc Id: ENSCLAP00000020209   ⟸   ENSCLAT00000020404
RefSeq Acc Id: ENSCLAP00000020210   ⟸   ENSCLAT00000020405


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCLAG00000013843 Ensembl, ENTREZGENE
Ensembl Protein ENSCLAP00000020210 ENTREZGENE
Ensembl Transcript ENSCLAT00000020405 ENTREZGENE
NCBI Gene Pkd1 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-08-03 Pkd1  polycystin 1, transient receptor potential channel interacting    polycystic kidney disease 1 (autosomal dominant)  Symbol and/or name change 5135510 APPROVED