Pcp2 (Purkinje cell protein 2) - Rat Genome Database

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Gene: Pcp2 (Purkinje cell protein 2) Rattus norvegicus
Analyze
Symbol: Pcp2
Name: Purkinje cell protein 2
RGD ID: 1306217
Description: Predicted to enable guanyl-nucleotide exchange factor activity. Predicted to act upstream of or within rhodopsin mediated signaling pathway. Predicted to be located in neuronal cell body. Orthologous to human PCP2 (Purkinje cell protein 2); INTERACTS WITH 6-propyl-2-thiouracil; bisphenol A; Brodifacoum.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC304195; Purkinje cell protein 2 (L7); Purkinje cell protein 2 homolog
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8126,479,554 - 6,481,550 (-)NCBIGRCr8
mRatBN7.2121,681,659 - 1,683,899 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl121,681,659 - 1,683,899 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx122,348,255 - 2,350,030 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0122,971,828 - 2,973,603 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0121,742,787 - 1,744,561 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0122,172,378 - 2,174,674 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl122,172,378 - 2,174,131 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0124,334,710 - 4,337,006 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4122,529,953 - 2,531,706 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1122,529,954 - 2,531,703 (+)NCBI
Celera123,537,435 - 3,539,188 (-)NCBICelera
Cytogenetic Map12p12NCBI
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

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
3. GOA pipeline RGD automated data pipeline
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:8889548   PMID:10196137   PMID:18768681  


Genomics

Comparative Map Data
Pcp2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8126,479,554 - 6,481,550 (-)NCBIGRCr8
mRatBN7.2121,681,659 - 1,683,899 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl121,681,659 - 1,683,899 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx122,348,255 - 2,350,030 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0122,971,828 - 2,973,603 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0121,742,787 - 1,744,561 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0122,172,378 - 2,174,674 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl122,172,378 - 2,174,131 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0124,334,710 - 4,337,006 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4122,529,953 - 2,531,706 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1122,529,954 - 2,531,703 (+)NCBI
Celera123,537,435 - 3,539,188 (-)NCBICelera
Cytogenetic Map12p12NCBI
PCP2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38197,631,615 - 7,637,006 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl197,631,611 - 7,633,719 (-)EnsemblGRCh38hg38GRCh38
GRCh37197,696,501 - 7,698,605 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36197,602,507 - 7,604,570 (-)NCBINCBI36Build 36hg18NCBI36
Celera197,567,691 - 7,569,754 (-)NCBICelera
Cytogenetic Map19p13.2NCBI
HuRef197,366,217 - 7,368,354 (-)NCBIHuRef
CHM1_1197,696,252 - 7,698,385 (-)NCBICHM1_1
T2T-CHM13v2.0197,632,498 - 7,637,891 (-)NCBIT2T-CHM13v2.0
Pcp2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3983,673,369 - 3,675,547 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl83,673,371 - 3,675,545 (-)EnsemblGRCm39 Ensembl
GRCm3883,623,369 - 3,625,547 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl83,623,371 - 3,625,545 (-)EnsemblGRCm38mm10GRCm38
MGSCv3783,623,371 - 3,625,545 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3683,623,371 - 3,625,282 (-)NCBIMGSCv36mm8
Celera83,853,700 - 3,855,874 (-)NCBICelera
Cytogenetic Map8A1.1NCBI
cM Map81.92NCBI
Pcp2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555631,625,254 - 1,628,776 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555631,625,249 - 1,628,776 (+)NCBIChiLan1.0ChiLan1.0
PCP2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22012,302,549 - 12,304,724 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11911,420,138 - 11,422,324 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0196,921,350 - 6,923,618 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1197,776,331 - 7,781,719 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl197,776,331 - 7,779,241 (-)Ensemblpanpan1.1panPan2
PCP2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12052,407,707 - 52,413,061 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2052,407,776 - 52,409,628 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2052,211,780 - 52,217,150 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02052,937,009 - 52,942,382 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2052,937,078 - 52,938,930 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12052,140,808 - 52,146,178 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02052,584,397 - 52,589,765 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02052,815,402 - 52,820,769 (-)NCBIUU_Cfam_GSD_1.0
Pcp2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118213,151,379 - 213,153,225 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365884,680,060 - 4,683,381 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365884,681,559 - 4,683,443 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PCP2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl271,471,417 - 71,519,421 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1271,471,071 - 71,519,394 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2271,913,237 - 71,915,643 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PCP2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.167,118,091 - 7,123,489 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl67,116,214 - 7,119,967 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666081738,088 - 743,514 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Pcp2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624828713,799 - 715,442 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624828713,796 - 719,287 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Pcp2
6 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:74
Count of miRNA genes:69
Interacting mature miRNAs:74
Transcripts:ENSRNOT00000001313
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300174Bw15Body weight QTL 152.93body mass (VT:0001259)body weight loss (CMO:0001399)1219318387Rat
2312418Kidm41Kidney mass QTL 413.70.0001kidney mass (VT:0002707)single kidney wet weight to body weight ratio (CMO:0000622)12119611090Rat
10755457Coatc14Coat color QTL 140.01759coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)12122591684Rat
6893681Bw109Body weight QTL 1092.30.004body mass (VT:0001259)body weight (CMO:0000012)12123297788Rat
1581516Cm56Cardiac mass QTL 564.20.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)12129333307Rat
1598855Bp294Blood pressure QTL 2943.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)12134851688Rat
7411660Foco28Food consumption QTL 2810.90.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12142110980Rat
9590086Insglur6Insulin/glucose ratio QTL 618.970.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)12142110980Rat
8694179Bw150Body weight QTL 1502.90.001body mass (VT:0001259)body weight gain (CMO:0000420)12142110980Rat
7411586Foco5Food consumption QTL 55.40.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12142110980Rat
7411595Foco9Food consumption QTL 940.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12142110980Rat
7411545Bw128Body weight QTL 1285.20.001body mass (VT:0001259)body weight gain (CMO:0000420)12142110980Rat
9590147Scort7Serum corticosterone level QTL 713.610.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)12142110980Rat
2303575Insul14Insulin level QTL 144blood insulin amount (VT:0001560)blood insulin level (CMO:0000349)12142450532Rat
737979Pia22Pristane induced arthritis QTL 2253.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)12144465750Rat
634351Apr5Acute phase response QTL 56.7blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)12144503507Rat
2302042Pia38Pristane induced arthritis QTL 383.50.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)12144503507Rat
7243862Mcs30Mammary carcinoma susceptibility QTL 308.62mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)127977298525593Rat
634350Apr4Acute phase response QTL 46orosomucoid 1 amount (VT:0010541)plasma orosomucoid 1 level (CMO:0001467)12117200546172005Rat

Markers in Region
RH127969  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2121,682,314 - 1,682,530 (+)MAPPERmRatBN7.2
Rnor_6.0122,173,034 - 2,173,249NCBIRnor6.0
Rnor_5.0124,335,366 - 4,335,581UniSTSRnor5.0
RGSC_v3.4122,530,835 - 2,531,050UniSTSRGSC3.4
Celera123,538,091 - 3,538,306UniSTS
Cytogenetic Map12p12UniSTS
Pcp2  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2121,681,755 - 1,682,967 (+)MAPPERmRatBN7.2
Rnor_6.0122,172,475 - 2,173,686NCBIRnor6.0
Rnor_5.0124,334,807 - 4,336,018UniSTSRnor5.0
RGSC_v3.4122,530,398 - 2,531,609UniSTSRGSC3.4
Celera123,537,532 - 3,538,743UniSTS
Cytogenetic Map12p12UniSTS


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 renal system reproductive system respiratory system appendage
High
Medium 20
Low 4 4 1 1 15 6 3 1
Below cutoff 1 7 14 6 8 6 6 7 6 10 19 5 6

Sequence


RefSeq Acc Id: ENSRNOT00000001313   ⟹   ENSRNOP00000001313
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl121,681,659 - 1,683,412 (-)Ensembl
Rnor_6.0 Ensembl122,172,378 - 2,174,131 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000106760   ⟹   ENSRNOP00000096666
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl121,681,976 - 1,683,899 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000109866   ⟹   ENSRNOP00000083460
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl121,681,659 - 1,683,364 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000112638   ⟹   ENSRNOP00000080554
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl121,682,805 - 1,683,899 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000115359   ⟹   ENSRNOP00000078292
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl121,681,659 - 1,683,899 (-)Ensembl
RefSeq Acc Id: NM_001107116   ⟹   NP_001100586
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8126,479,554 - 6,481,307 (-)NCBI
mRatBN7.2121,681,659 - 1,683,412 (-)NCBI
Rnor_6.0122,172,378 - 2,174,131 (-)NCBI
Rnor_5.0124,334,710 - 4,337,006 (-)NCBI
RGSC_v3.4122,529,953 - 2,531,706 (+)RGD
Celera123,537,435 - 3,539,188 (-)RGD
Sequence:
RefSeq Acc Id: XM_008768953   ⟹   XP_008767175
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8126,479,555 - 6,481,550 (-)NCBI
mRatBN7.2121,681,660 - 1,683,711 (-)NCBI
Rnor_6.0122,172,379 - 2,174,384 (-)NCBI
Sequence:
RefSeq Acc Id: NP_001100586   ⟸   NM_001107116
- UniProtKB: D3ZXP8 (UniProtKB/TrEMBL),   A6KQ19 (UniProtKB/TrEMBL),   A0A8I5ZW35 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008767175   ⟸   XM_008768953
- Peptide Label: isoform X1
- UniProtKB: A6KQ21 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000001313   ⟸   ENSRNOT00000001313
RefSeq Acc Id: ENSRNOP00000096666   ⟸   ENSRNOT00000106760
RefSeq Acc Id: ENSRNOP00000083460   ⟸   ENSRNOT00000109866
RefSeq Acc Id: ENSRNOP00000078292   ⟸   ENSRNOT00000115359
RefSeq Acc Id: ENSRNOP00000080554   ⟸   ENSRNOT00000112638

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZXP8-F1-model_v2 AlphaFold D3ZXP8 1-120 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13698372
Promoter ID:EPDNEW_R8897
Type:single initiation site
Name:Pcp2_1
Description:Purkinje cell protein 2
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0122,174,130 - 2,174,190EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1306217 AgrOrtholog
BioCyc Gene G2FUF-20391 BioCyc
Ensembl Genes ENSRNOG00000000993 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000001313 ENTREZGENE
  ENSRNOT00000001313.6 UniProtKB/TrEMBL
  ENSRNOT00000106760.1 UniProtKB/TrEMBL
  ENSRNOT00000109866.1 UniProtKB/TrEMBL
  ENSRNOT00000112638.1 UniProtKB/TrEMBL
  ENSRNOT00000115359.1 UniProtKB/TrEMBL
Gene3D-CATH 1.25.40.10 UniProtKB/TrEMBL
InterPro GoLoco_motif UniProtKB/TrEMBL
  Pcp2 UniProtKB/TrEMBL
  TPR-like_helical_dom_sf UniProtKB/TrEMBL
KEGG Report rno:304195 UniProtKB/TrEMBL
NCBI Gene 304195 ENTREZGENE
PANTHER PTHR47503 UniProtKB/TrEMBL
  PURKINJE CELL PROTEIN 2 HOMOLOG UniProtKB/TrEMBL
Pfam GoLoco UniProtKB/TrEMBL
PhenoGen Pcp2 PhenoGen
PROSITE GOLOCO UniProtKB/TrEMBL
RatGTEx ENSRNOG00000000993 RatGTEx
SMART GoLoco UniProtKB/TrEMBL
UniProt A0A8I5ZL58_RAT UniProtKB/TrEMBL
  A0A8I5ZW35 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6APQ7_RAT UniProtKB/TrEMBL
  A0A8I6G6S3_RAT UniProtKB/TrEMBL
  A6KQ19 ENTREZGENE, UniProtKB/TrEMBL
  A6KQ21 ENTREZGENE, UniProtKB/TrEMBL
  A6KQ22_RAT UniProtKB/TrEMBL
  A6KQ23_RAT UniProtKB/TrEMBL
  A6KQ24_RAT UniProtKB/TrEMBL
  D3ZXP8 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-11-11 Pcp2  Purkinje cell protein 2  Pcp2  Purkinje cell protein 2 (L7)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 Pcp2  Purkinje cell protein 2 (L7)  Pcp2_predicted  Purkinje cell protein 2 (L7) (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Pcp2_predicted  Purkinje cell protein 2 (L7) (predicted)      Symbol and Name status set to approved 70820 APPROVED