PKD1 (polycystin 1, transient receptor potential channel interacting) - Rat Genome Database

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Gene: PKD1 (polycystin 1, transient receptor potential channel interacting) Canis lupus familiaris
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Symbol: PKD1
Name: polycystin 1, transient receptor potential channel interacting
RGD ID: 12338149
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: PROVISIONAL
Also known as: PC1; polycystic kidney disease 1; polycystic kidney disease protein 1; polycystin-1
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
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
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  (IEA,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
Additional References at PubMed
PMID:9745674   PMID:11971874   PMID:12079289   PMID:14510672   PMID:17283055   PMID:17540339   PMID:17671167   PMID:19351715   PMID:19397527   PMID:19726544   PMID:21818326   PMID:23390129  
PMID:24129831  


Genomics

Comparative Map Data
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
(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
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
PanPan1.1162,176,778 - 2,185,337 (-)NCBIpanpan1.1PanPan1.1panPan2
Mhudiblu_PPA_v016604,927 - 1,697,831 (+)NCBIMhudiblu_PPA_v0panPan3
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
ChlSab1.151,985,165 - 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


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system reproductive system respiratory system adipose tissue
High
Medium 4 1 15 3 6 2 12 10 6
Low 1 4 7 6 3 6 4 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSCAFT00000030883
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl638,837,964 - 38,865,503 (+)Ensembl
RefSeq Acc Id: ENSCAFT00845028247
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl639,132,038 - 39,173,760 (+)Ensembl
RefSeq Acc Id: NM_001006650   ⟹   NP_001006651
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1638,811,051 - 38,865,503 (+)NCBI
Dog10K_Boxer_Tasha640,062,677 - 40,104,408 (+)NCBI
ROS_Cfam_1.0639,132,038 - 39,173,760 (+)NCBI
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
Sequence:
RefSeq Acc Id: XM_038667636   ⟹   XP_038523564
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0639,132,045 - 39,173,761 (+)NCBI
RefSeq Acc Id: XM_038667637   ⟹   XP_038523565
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0639,132,045 - 39,173,761 (+)NCBI
RefSeq Acc Id: XM_038667638   ⟹   XP_038523566
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0639,132,045 - 39,171,411 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_001006651   ⟸   NM_001006650
- Peptide Label: precursor
- UniProtKB: Q7YQK5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_038523564   ⟸   XM_038667636
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038523565   ⟸   XM_038667637
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038523566   ⟸   XM_038667638
- Peptide Label: isoform X3
Protein Domains
C-type lectin   GPS   PKD   PKD_channel   PLAT   REJ   WSC


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000019424 Ensembl
  ENSCAFG00845015847 Ensembl, ENTREZGENE
Ensembl Transcript ENSCAFT00845028247 ENTREZGENE
Gene3D-CATH 2.60.40.10 UniProtKB/TrEMBL
  3.10.100.10 UniProtKB/TrEMBL
  3.80.10.10 UniProtKB/TrEMBL
InterPro C-type_lectin-like UniProtKB/TrEMBL
  C-type_lectin-like/link_sf UniProtKB/TrEMBL
  CTDL_fold UniProtKB/TrEMBL
  Cys-rich_flank_reg_C UniProtKB/TrEMBL
  GPS UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/TrEMBL
  Leu-rich_rpt UniProtKB/TrEMBL
  Leu-rich_rpt_typical-subtyp UniProtKB/TrEMBL
  LRR_dom_sf UniProtKB/TrEMBL
  LRRNT UniProtKB/TrEMBL
  PC1 UniProtKB/TrEMBL
  PKD/Chitinase_dom UniProtKB/TrEMBL
  PKD/REJ-like UniProtKB/TrEMBL
  PKD1_2_channel UniProtKB/TrEMBL
  PKD_dom UniProtKB/TrEMBL
  PKD_dom_sf UniProtKB/TrEMBL
  PLAT/LH2_dom UniProtKB/TrEMBL
  PLAT/LH2_dom_sf UniProtKB/TrEMBL
  PLAT_polycystin1 UniProtKB/TrEMBL
  Polycystin_cat UniProtKB/TrEMBL
  REJ_dom UniProtKB/TrEMBL
  WSC_carb-bd UniProtKB/TrEMBL
KEGG Report cfa:606755 UniProtKB/TrEMBL
NCBI Gene PKD1 ENTREZGENE
Pfam Lectin_C UniProtKB/TrEMBL
  LRR_8 UniProtKB/TrEMBL
  PKD UniProtKB/TrEMBL
  PKD_channel UniProtKB/TrEMBL
  PLAT UniProtKB/TrEMBL
  REJ UniProtKB/TrEMBL
  WSC UniProtKB/TrEMBL
PRINTS POLYCYSTIN1 UniProtKB/TrEMBL
PROSITE C_TYPE_LECTIN_2 UniProtKB/TrEMBL
  GPS UniProtKB/TrEMBL
  LRR UniProtKB/TrEMBL
  PKD UniProtKB/TrEMBL
  PLAT UniProtKB/TrEMBL
  REJ UniProtKB/TrEMBL
  WSC UniProtKB/TrEMBL
SMART CLECT UniProtKB/TrEMBL
  GPS UniProtKB/TrEMBL
  LH2 UniProtKB/TrEMBL
  LRR_TYP UniProtKB/TrEMBL
  LRRCT UniProtKB/TrEMBL
  LRRNT UniProtKB/TrEMBL
  PKD UniProtKB/TrEMBL
  WSC UniProtKB/TrEMBL
Superfamily-SCOP SSF49299 UniProtKB/TrEMBL
  SSF49723 UniProtKB/TrEMBL
  SSF56436 UniProtKB/TrEMBL
TIGRFAMs PCC UniProtKB/TrEMBL
UniProt O18877_CANLF UniProtKB/TrEMBL
  Q7YQK5 ENTREZGENE, UniProtKB/TrEMBL
  Q8MJF3_CANLF UniProtKB/TrEMBL
VGNC ID VGNC:44597 ENTREZGENE