PKD2L1 (polycystin 2 like 1, transient receptor potential cation channel) - Rat Genome Database

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Gene: PKD2L1 (polycystin 2 like 1, transient receptor potential cation channel) Canis lupus familiaris
Analyze
Symbol: PKD2L1
Name: polycystin 2 like 1, transient receptor potential cation channel
RGD ID: 12132711
Description: ENCODES a protein that exhibits monoatomic cation channel activity (ortholog); monoatomic cation transmembrane transporter activity (ortholog); sour taste receptor activity (ortholog); INVOLVED IN calcium ion transmembrane transport (inferred); cellular response to acidic pH (inferred); cellular response to pH (inferred); ASSOCIATED WITH prostate cancer (ortholog); FOUND IN actin cytoskeleton (inferred); calcium channel complex (inferred); cation channel complex (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: polycystic kidney disease 2-like 1 protein
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12813,045,749 - 13,076,072 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2813,045,829 - 13,076,485 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2813,228,826 - 13,259,097 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02813,514,442 - 13,544,711 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2813,514,692 - 13,544,618 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12813,061,160 - 13,091,425 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02813,099,244 - 13,129,512 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02813,233,508 - 13,263,795 (-)NCBIUU_Cfam_GSD_1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
PKD2L1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12813,045,749 - 13,076,072 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2813,045,829 - 13,076,485 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2813,228,826 - 13,259,097 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02813,514,442 - 13,544,711 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2813,514,692 - 13,544,618 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12813,061,160 - 13,091,425 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02813,099,244 - 13,129,512 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02813,233,508 - 13,263,795 (-)NCBIUU_Cfam_GSD_1.0
PKD2L1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3810100,288,149 - 100,330,228 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl10100,288,149 - 100,330,264 (-)EnsemblGRCh38hg38GRCh38
GRCh3710102,047,906 - 102,089,985 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3610102,037,893 - 102,080,233 (-)NCBINCBI36Build 36hg18NCBI36
Build 3410102,037,892 - 102,080,233NCBI
Celera1095,785,781 - 95,828,122 (-)NCBICelera
Cytogenetic Map10q24.31NCBI
HuRef1095,676,807 - 95,719,121 (-)NCBIHuRef
CHM1_110102,332,503 - 102,374,685 (-)NCBICHM1_1
T2T-CHM13v2.010101,172,443 - 101,214,450 (-)NCBIT2T-CHM13v2.0
Pkd2l1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391944,136,076 - 44,235,355 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1944,136,076 - 44,180,881 (-)EnsemblGRCm39 Ensembl
GRCm381944,147,637 - 44,248,328 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1944,147,637 - 44,192,442 (-)EnsemblGRCm38mm10GRCm38
MGSCv371944,222,127 - 44,266,932 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361944,200,948 - 44,245,719 (-)NCBIMGSCv36mm8
Celera1944,933,088 - 44,971,513 (-)NCBICelera
Cytogenetic Map19C3NCBI
cM Map1936.91NCBI
Pkd2l1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81252,982,096 - 253,019,235 (-)NCBIGRCr8
mRatBN7.21243,032,891 - 243,070,031 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1243,032,913 - 243,070,031 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1251,182,946 - 251,220,300 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01257,879,666 - 257,916,994 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01250,533,109 - 250,570,461 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01263,922,201 - 263,959,318 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1263,922,201 - 263,959,318 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01271,367,373 - 271,404,490 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41249,047,374 - 249,084,997 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11249,083,071 - 249,342,077 (+)NCBI
Celera1238,850,066 - 238,887,164 (-)NCBICelera
Cytogenetic Map1q54NCBI
Pkd2l1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555076,146,825 - 6,166,976 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555076,145,981 - 6,167,152 (-)NCBIChiLan1.0ChiLan1.0
PKD2L1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v28112,172,821 - 112,215,281 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan110112,178,140 - 112,220,600 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01096,889,228 - 96,932,177 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.110100,370,083 - 100,412,366 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl10100,370,083 - 100,412,366 (-)Ensemblpanpan1.1panPan2
Pkd2l1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440721333,959,016 - 33,960,778 (+)NCBIHiC_Itri_2
SpeTri2.0NW_004944487205 - 1,593 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PKD2L1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl14111,399,071 - 111,460,995 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.114111,398,704 - 111,434,584 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.214120,901,637 - 120,937,562 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PKD2L1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1993,319,408 - 93,363,389 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604854,321,567 - 54,368,696 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Pkd2l1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473712,102,976 - 12,137,737 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473712,097,134 - 12,137,574 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in PKD2L1
151 total Variants

Expression

RNA-SEQ Expression

adipose tissue
alimentary part of gastrointestinal system
circulatory system
ectoderm
endocrine system
endoderm
hemolymphoid system
integumental system
mesenchyme
mesoderm
nervous system
reproductive system
respiratory system
6 2 1 23 15 7 5 6 15 13 12 14 7

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_014109140 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_014109141 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038440279 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038440280 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038460473 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038514895 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038514896 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038578525 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038578526 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038642692 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038642693 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AAEX04000028 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAHUQ010000298 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAQRD010000071 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAUVH010000374 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  REHQ01000028 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSCAFT00000015327   ⟹   ENSCAFP00000014182
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl2813,045,829 - 13,076,485 (-)Ensembl
Ensembl Acc Id: ENSCAFT00000068780   ⟹   ENSCAFP00000058715
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl2813,046,044 - 13,076,485 (-)Ensembl
Ensembl Acc Id: ENSCAFT00845029306   ⟹   ENSCAFP00845023043
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl2813,514,692 - 13,544,618 (-)Ensembl
RefSeq Acc Id: XM_014109140   ⟹   XP_013964615
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.12813,045,749 - 13,076,071 (-)NCBI
Dog10K_Boxer_Tasha2813,228,826 - 13,259,096 (-)NCBI
Sequence:
RefSeq Acc Id: XM_038440279   ⟹   XP_038296207
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.02813,514,442 - 13,544,710 (-)NCBI
RefSeq Acc Id: XM_038440280   ⟹   XP_038296208
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.02813,514,591 - 13,544,711 (-)NCBI
RefSeq Acc Id: XM_038460473   ⟹   XP_038316401
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
Dog10K_Boxer_Tasha2813,228,975 - 13,259,097 (-)NCBI
RefSeq Acc Id: XM_038514895   ⟹   XP_038370823
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.12813,061,160 - 13,091,424 (-)NCBI
RefSeq Acc Id: XM_038514896   ⟹   XP_038370824
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.12813,061,309 - 13,091,425 (-)NCBI
RefSeq Acc Id: XM_038578525   ⟹   XP_038434453
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.02813,233,508 - 13,263,795 (-)NCBI
RefSeq Acc Id: XM_038578526   ⟹   XP_038434454
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.02813,233,657 - 13,263,795 (-)NCBI
RefSeq Acc Id: XM_038642692   ⟹   XP_038498620
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.02813,099,244 - 13,129,511 (-)NCBI
RefSeq Acc Id: XM_038642693   ⟹   XP_038498621
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.02813,099,393 - 13,129,512 (-)NCBI
RefSeq Acc Id: XP_013964615   ⟸   XM_014109140
- Peptide Label: isoform X1
- UniProtKB: A0A8C0T5V6 (UniProtKB/TrEMBL),   A0A8I3P573 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSCAFP00000014182   ⟸   ENSCAFT00000015327
Ensembl Acc Id: ENSCAFP00000058715   ⟸   ENSCAFT00000068780
RefSeq Acc Id: XP_038370823   ⟸   XM_038514895
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038370824   ⟸   XM_038514896
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038498620   ⟸   XM_038642692
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038498621   ⟸   XM_038642693
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038296207   ⟸   XM_038440279
- Peptide Label: isoform X1
- UniProtKB: A0A8C0T5V6 (UniProtKB/TrEMBL),   A0A8I3P573 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038296208   ⟸   XM_038440280
- Peptide Label: isoform X2
- UniProtKB: A0A8C0T5V6 (UniProtKB/TrEMBL),   A0A8I3P573 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038316401   ⟸   XM_038460473
- Peptide Label: isoform X2
- UniProtKB: A0A8C0T5V6 (UniProtKB/TrEMBL),   A0A8I3P573 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038434453   ⟸   XM_038578525
- Peptide Label: isoform X3
- UniProtKB: A0A8C0T5V6 (UniProtKB/TrEMBL),   A0A8I3P573 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038434454   ⟸   XM_038578526
- Peptide Label: isoform X4
- UniProtKB: A0A8C0T5V6 (UniProtKB/TrEMBL),   A0A8I3P573 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSCAFP00845023043   ⟸   ENSCAFT00845029306
Protein Domains
EF-hand

Promoters
RGD ID:13688295
Promoter ID:EPDNEW_C6363
Type:single initiation site
Name:PKD2L1_1
Description:polycystin 2 like 1, 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:
Dog AssemblyChrPosition (strand)Source
CanFam3.12813,076,245 - 13,076,305EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000009644 Ensembl, UniProtKB/TrEMBL
  ENSCAFG00030017637 UniProtKB/TrEMBL
  ENSCAFG00040019423 UniProtKB/TrEMBL
  ENSCAFG00845016477 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000068780.2 UniProtKB/TrEMBL
  ENSCAFT00030032634.1 UniProtKB/TrEMBL
  ENSCAFT00040036073.1 UniProtKB/TrEMBL
  ENSCAFT00845029306 ENTREZGENE
  ENSCAFT00845029306.1 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
NCBI Gene PKD2L1 ENTREZGENE
PANTHER POLYCYSTIC KIDNEY DISEASE 2-LIKE 1 PROTEIN UniProtKB/TrEMBL
  POLYCYSTIN FAMILY MEMBER 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 A0A8C0T5V6 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3P573 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:44601 ENTREZGENE