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

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Gene: Pkdrej (polycystin family receptor for egg jelly) Chinchilla lanigera
Analyze
Symbol: Pkdrej
Name: polycystin family receptor for egg jelly
RGD ID: 9023503
Description: INVOLVED IN regulation of acrosome reaction (ortholog); ASSOCIATED WITH intellectual disability (ortholog); Phelan-McDermid syndrome (ortholog); FOUND IN sperm plasma membrane (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: polycystin (PKD) family receptor for egg jelly
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: ChiLan1.0 - Chinchilla ChiLan1.0 Assembly
Position:
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
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

Biological Process

Cellular Component

References

References - curated
# Reference Title Reference Citation
1. Transitive Annotation Pipeline Automated assignment of GO, PW and RDO ISO annotations across species
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
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
(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
(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
(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
(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


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSCLAT00000025085   ⟹   ENSCLAP00000024845
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_00495541330,378,603 - 30,384,681 (-)Ensembl
RefSeq Acc Id: XM_005379503   ⟹   XP_005379560
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495541330,377,627 - 30,384,749 (-)NCBI
Sequence:
RefSeq Acc Id: XM_005379505   ⟹   XP_005379562
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495541330,378,521 - 30,384,749 (-)NCBI
Sequence:
RefSeq Acc Id: XM_005379506   ⟹   XP_005379563
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495541330,377,627 - 30,384,748 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_005379560 (Get FASTA)   NCBI Sequence Viewer  
  XP_005379562 (Get FASTA)   NCBI Sequence Viewer  
  XP_005379563 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCLAP00000024845
  ENSCLAP00000024845.1
RefSeq Acc Id: XP_005379560   ⟸   XM_005379503
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_005379563   ⟸   XM_005379506
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_005379562   ⟸   XM_005379505
- Peptide Label: isoform X2
- UniProtKB: A0A8C2W3Y3 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSCLAP00000024845   ⟸   ENSCLAT00000025085
Protein Domains
PLAT   REJ


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCLAG00000017056 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCLAT00000025085 ENTREZGENE
  ENSCLAT00000025085.1 UniProtKB/TrEMBL
Gene3D-CATH PLAT/LH2 domain UniProtKB/TrEMBL
InterPro GPS UniProtKB/TrEMBL
  PKD/REJ-like UniProtKB/TrEMBL
  PKD1_2_channel UniProtKB/TrEMBL
  PLAT/LH2_dom UniProtKB/TrEMBL
  PLAT/LH2_dom_sf UniProtKB/TrEMBL
  PLAT_polycystin1 UniProtKB/TrEMBL
  Polycystin UniProtKB/TrEMBL
  Polycystin_dom UniProtKB/TrEMBL
  REJ_dom UniProtKB/TrEMBL
NCBI Gene Pkdrej ENTREZGENE
PANTHER POLYCYSTIC KIDNEY DISEASE AND RECEPTOR FOR EGG JELLY-RELATED PROTEIN UniProtKB/TrEMBL
  POLYCYSTIN FAMILY MEMBER UniProtKB/TrEMBL
Pfam PKD_channel UniProtKB/TrEMBL
  PLAT UniProtKB/TrEMBL
  Polycystin_dom UniProtKB/TrEMBL
  REJ UniProtKB/TrEMBL
PROSITE PLAT UniProtKB/TrEMBL
  PROKAR_LIPOPROTEIN UniProtKB/TrEMBL
  REJ UniProtKB/TrEMBL
SMART GPS UniProtKB/TrEMBL
  LH2 UniProtKB/TrEMBL
Superfamily-SCOP SSF49723 UniProtKB/TrEMBL
UniProt A0A8C2W3Y3 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-03-21 Pkdrej  polycystin family receptor for egg jelly    polycystin (PKD) family receptor for egg jelly  Symbol and/or name change 5135510 APPROVED