Pkdrej (polycystin (PKD) family receptor for egg jelly) - Rat Genome Database

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Gene: Pkdrej (polycystin (PKD) family receptor for egg jelly) Mus musculus
Analyze
Symbol: Pkdrej
Name: polycystin (PKD) family receptor for egg jelly
RGD ID: 1315288
MGI Page MGI
Description: Predicted to enable calcium channel activity. Acts upstream of or within regulation of acrosome reaction. Located in sperm plasma membrane. Is expressed in cochlea. Orthologous to human PKDREJ (polycystin family receptor for egg jelly).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: PKD and REJ homolog; polycystic kidney disease (polycystin) and REJ (sperm receptor for egg jelly homolog, sea urchin); polycystic kidney disease (polycystin) and REJ (sperm receptor for egg jelly, sea urchin homolog)-like; polycystic kidney disease and receptor for egg jelly-related protein; polycystin family receptor for egg jelly; receptor for egg jelly-like protein
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391585,698,877 - 85,705,934 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1585,698,871 - 85,705,935 (-)EnsemblGRCm39 Ensembl
GRCm381585,814,676 - 85,821,733 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1585,814,670 - 85,821,734 (-)EnsemblGRCm38mm10GRCm38
MGSCv371585,645,106 - 85,652,163 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361585,643,119 - 85,649,499 (-)NCBIMGSCv36mm8
Celera1587,946,722 - 87,953,940 (-)NCBICelera
Cytogenetic Map15E2NCBI
cM Map1540.42NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

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

Biological Process

Cellular Component

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
# Reference Title Reference Citation
1. MGDs mouse GO annotations MGD data from the GO Consortium
2. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
3. Mouse MP Annotation Import Pipeline RGD automated import pipeline
4. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:9949214   PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:16141072   PMID:16141073   PMID:16261614   PMID:16805797   PMID:18562295   PMID:19322198   PMID:19834762  
PMID:21267068   PMID:21873635   PMID:27357688  


Genomics

Comparative Map Data
Pkdrej
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391585,698,877 - 85,705,934 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1585,698,871 - 85,705,935 (-)EnsemblGRCm39 Ensembl
GRCm381585,814,676 - 85,821,733 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1585,814,670 - 85,821,734 (-)EnsemblGRCm38mm10GRCm38
MGSCv371585,645,106 - 85,652,163 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361585,643,119 - 85,649,499 (-)NCBIMGSCv36mm8
Celera1587,946,722 - 87,953,940 (-)NCBICelera
Cytogenetic Map15E2NCBI
cM Map1540.42NCBI
PKDREJ
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382246,255,663 - 46,263,343 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2246,255,663 - 46,263,343 (-)EnsemblGRCh38hg38GRCh38
GRCh372246,651,560 - 46,659,240 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362245,030,224 - 45,037,883 (-)NCBINCBI36Build 36hg18NCBI36
Build 342244,972,078 - 44,979,738NCBI
Celera2230,558,945 - 30,566,604 (-)NCBICelera
Cytogenetic Map22q13.31NCBI
HuRef2229,595,594 - 29,603,195 (-)NCBIHuRef
CHM1_12246,610,296 - 46,617,952 (-)NCBICHM1_1
T2T-CHM13v2.02246,740,363 - 46,748,043 (-)NCBIT2T-CHM13v2.0
Pkdrej
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr87118,788,939 - 118,795,313 (-)NCBIGRCr8
mRatBN7.27116,909,094 - 116,915,468 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7116,909,094 - 116,915,468 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx7118,659,894 - 118,666,268 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.07120,885,522 - 120,891,896 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.07120,855,083 - 120,861,457 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.07126,695,498 - 126,701,872 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7126,695,498 - 126,701,872 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.07126,406,494 - 126,412,868 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47123,820,836 - 123,827,210 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.17123,855,074 - 123,861,440 (-)NCBI
Celera7113,201,150 - 113,207,508 (-)NCBICelera
Cytogenetic Map7q34NCBI
Pkdrej
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541330,378,603 - 30,384,681 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541330,377,627 - 30,384,749 (-)NCBIChiLan1.0ChiLan1.0
PKDREJ
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22356,084,012 - 56,094,545 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12258,782,261 - 58,792,495 (-)NCBINHGRI_mPanPan1
PanPan1.12245,320,969 - 45,328,048 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2245,321,867 - 45,333,429 (-)Ensemblpanpan1.1panPan2
PKDREJ
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11019,914,217 - 19,921,766 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1019,914,721 - 19,920,822 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1019,834,380 - 19,844,271 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01020,645,684 - 20,655,572 (+)NCBIROS_Cfam_1.0
UMICH_Zoey_3.11020,365,964 - 20,375,852 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01020,678,759 - 20,688,643 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01020,860,574 - 20,870,461 (+)NCBIUU_Cfam_GSD_1.0
Pkdrej
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244049453,641,786 - 3,652,767 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366293,645,579 - 3,651,827 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366293,641,786 - 3,651,827 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PKDREJ
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.153,270,753 - 3,283,058 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.25508,152 - 514,973 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PKDREJ
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11928,728,474 - 28,736,676 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1928,729,375 - 28,736,145 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604596,781,707 - 96,802,150 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Pkdrej
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247523,630,908 - 3,632,330 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Pkdrej
225 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:286
Count of miRNA genes:221
Interacting mature miRNAs:248
Transcripts:ENSMUST00000064370
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300627Sluc26_msusceptibility to lung cancer 26 (mouse)Not determined1570345653104073951Mouse
26884442Sklq6_mskull length QTL 6, 5 week (mouse)156129481100797881Mouse
38501067Tip3_mtuberculosis immunophenotype 3, IFN-g level (mouse)155356339689584203Mouse
1357526Hyplip2_mhyperlipidemia 2 (mouse)Not determined1512402203102896555Mouse
1357407Pfat4_mpredicted fat percentage 4 (mouse)8.6Body fat amountpredicted fat percentage155711700591117153Mouse
14928306Manh79_mmandible shape 79 (mouse)1578847557104073951Mouse
1357894Epfpq3_mepididymal fat percentage QTL 3 (mouse)Not determined1578601103102901704Mouse
1300800Ses3_msalmonella enteritidis susceptibility 3 (mouse)Not determined155711700591117153Mouse
4142060W3q6_mweight 3 weeks QTL 6 (mouse)Not determined78601103102901704Mouse
26884425Cvht2_mcranial vault height 2, 5 week (mouse)1528800146102008435Mouse
11532732Pitm5_mprion incubation time 5 (mouse)158296406187054388Mouse
13504731Cath5_mcarotid atherosclerosis 5 (mouse)155478912988789129Mouse
12791003Aath8_maortic arch atherosclerosis 8 (mouse)1573430144104073951Mouse
27095936Ulnl4_mulna length 4, 5 week (mouse)155676339687684201Mouse
1558985Eae32_mexperimental allergic encephalomyelitis susceptibility 32 (mouse)Not determined1532578416103425899Mouse
4141921Pstc3_mperiosteal circumference 3 (mouse)Not determined1567270698101270847Mouse
1301708Cocrb14_mcocaine related behavior 14 (mouse)Not determined155180651585806651Mouse
12880411V125Dq11_mvitamin D active form serum level QTL 11 (mouse)1578897881104073951Mouse
1300851Heal4_mwound healing/regeneration 4 (mouse)Not determined1577527592104073951Mouse
1301171Brm2_mbrachyury modifier 2 (mouse)Not determined156552537699525499Mouse
12880420V25Dq8_mvitamin D inactive form serum level QTL 8 (mouse)156158420095584200Mouse
14747011Mancz13_mmandible centroid size 13 (mouse)1572382669104073951Mouse
10402490Dipa5_mdrug induced psychomotor activation 5 (mouse)Not determined1579163411104073951Mouse
1300726Pitm4_mprion incubation time 4 (mouse)Not determined1570349271104073951Mouse
1302197Bhr2_mbronchial hyperresponsiveness 2 (mouse)Not determined1564306334103425899Mouse
26884402Cvht9_mcranial vault height 9, 16 week (mouse)154216339695497881Mouse
1302074Bmd4_mbone mineral density 4 (mouse)Not determined1556186708103425899Mouse
1301119Drb7_mdopamine receptor binding 7 (mouse)Not determined156533657899341028Mouse
4141135Cia35_mcollagen induced arthritis 35 (mouse)Not determined156481182698811946Mouse
4141902Cia37_mcollagen induced arthritis 37 (mouse)Not determined1580884933104073951Mouse
27226734Tibmd5_mtibia midshaft diameter 5, 10 week (mouse)15612948186684201Mouse
1301601Faq9_mfluctuating asymmetry QTL 9 (mouse)Not determined156316390397163995Mouse
1301472Pain1_mpain 1 (mouse)Not determined157532084690813185Mouse
26884399Humsd1_mhumerus midshaft diameter 1, 5 week (mouse)1548363396101708435Mouse
4141897Imrfq2_mimmune response to Factor IX QTL 2 (mouse)Not determined79908940104073951Mouse
27226729Tibmd2_mtibia midshaft diameter 2, 5 week (mouse)153800024486684201Mouse
1301284Cosz3_mcocaine seizure 3 (mouse)Not determined1580313634104073951Mouse
26884397Humsd5_mhumerus midshaft diameter 5, 10 week (mouse)154836339698397881Mouse
4141511Gdcr1_mglycerolphosphate dehydrogenase regulator 1 (mouse)Not determined82615474104073951Mouse
1300648Dbsty4_mdiabesity 4 (mouse)Not determined1570349271104073951Mouse
1300974Pgia9_mproteoglycan induced arthritis 9 (mouse)Not determined1580884933104073951Mouse

Markers in Region
Pkdrej  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381585,814,981 - 85,815,063UniSTSGRCm38
MGSCv371585,645,411 - 85,645,493UniSTSGRCm37
Celera1587,947,182 - 87,947,264UniSTS
Cytogenetic Map15E2UniSTS
cM Map1540.42UniSTS


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSMUST00000064370   ⟹   ENSMUSP00000086352
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1585,698,871 - 85,705,935 (-)Ensembl
GRCm38.p6 Ensembl1585,814,670 - 85,821,734 (-)Ensembl
RefSeq Acc Id: NM_011105   ⟹   NP_035235
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391585,698,877 - 85,705,934 (-)NCBI
GRCm381585,814,676 - 85,821,733 (-)ENTREZGENE
MGSCv371585,645,106 - 85,652,163 (-)RGD
Celera1587,946,722 - 87,953,940 (-)RGD
cM Map15 ENTREZGENE
Sequence:
Protein Sequences
Protein RefSeqs NP_035235 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAD18022 (Get FASTA)   NCBI Sequence Viewer  
  BAC26408 (Get FASTA)   NCBI Sequence Viewer  
  EDL04424 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSMUSP00000086352
  ENSMUSP00000086352.3
GenBank Protein Q9Z0T6 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_035235   ⟸   NM_011105
- Peptide Label: precursor
- UniProtKB: Q9Z0T6 (UniProtKB/Swiss-Prot),   F8VQF3 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSMUSP00000086352   ⟸   ENSMUST00000064370
Protein Domains
PLAT   Polycystin cation channel PKD1/PKD2   REJ

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9Z0T6-F1-model_v2 AlphaFold Q9Z0T6 1-2126 view protein structure

Promoters
RGD ID:6826328
Promoter ID:MM_KWN:19330
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Brain,   Kidney,   Liver
Transcripts:NM_011105
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361585,651,741 - 85,652,367 (-)MPROMDB
RGD ID:8684650
Promoter ID:EPDNEW_M20355
Type:initiation region
Name:Pkdrej_1
Description:Mus musculus polycystin family receptor for egg jelly , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381585,821,797 - 85,821,857EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1338786 AgrOrtholog
Ensembl Genes ENSMUSG00000052496 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000064370 ENTREZGENE
  ENSMUST00000064370.6 UniProtKB/Swiss-Prot
Gene3D-CATH 1.10.287.70 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PLAT/LH2 domain UniProtKB/Swiss-Prot
InterPro ATPase_P-typ_TM_dom_sf UniProtKB/Swiss-Prot
  PKD/REJ-like UniProtKB/Swiss-Prot
  PKD1_2_channel UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PKD_2 UniProtKB/Swiss-Prot
  PLAT/LH2_dom UniProtKB/Swiss-Prot
  PLAT/LH2_dom_sf UniProtKB/Swiss-Prot
  PLAT_polycystin1 UniProtKB/Swiss-Prot
  Polycystin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Polycystin_dom UniProtKB/Swiss-Prot
  REJ_dom UniProtKB/Swiss-Prot
KEGG Report mmu:18766 UniProtKB/Swiss-Prot
MGD MGI:1338786 ENTREZGENE
NCBI Gene 18766 ENTREZGENE
PANTHER POLYCYSTIC KIDNEY DISEASE AND RECEPTOR FOR EGG JELLY-RELATED PROTEIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  POLYCYSTIN FAMILY MEMBER UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam PKD_channel UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PLAT UniProtKB/Swiss-Prot
  Polycystin_dom UniProtKB/Swiss-Prot
  REJ UniProtKB/Swiss-Prot
PhenoGen Pkdrej PhenoGen
PRINTS POLYCYSTIN2 UniProtKB/Swiss-Prot
PROSITE PLAT UniProtKB/Swiss-Prot
  REJ UniProtKB/Swiss-Prot
SMART LH2 UniProtKB/Swiss-Prot
Superfamily-SCOP SSF49723 UniProtKB/Swiss-Prot
  SSF81665 UniProtKB/Swiss-Prot
UniProt F8VQF3 ENTREZGENE
  PKDRE_MOUSE UniProtKB/Swiss-Prot
  Q8C0Z9_MOUSE UniProtKB/TrEMBL
  Q9Z0T6 ENTREZGENE
UniProt Secondary F8VQF3 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-29 Pkdrej  polycystin (PKD) family receptor for egg jelly    polycystic kidney disease (polycystin) and REJ (sperm receptor for egg jelly homolog, sea urchin)  Symbol and/or name change 5135510 APPROVED
2011-09-06 Pkdrej  polycystic kidney disease (polycystin) and REJ (sperm receptor for egg jelly homolog, sea urchin)  Pkdrej  polycystic kidney disease (polycystin) and REJ (sperm receptor for egg jelly, sea urchin homolog)-like  Symbol and/or name change 5135510 APPROVED