PCP4 (Purkinje cell protein 4) - Rat Genome Database

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Gene: PCP4 (Purkinje cell protein 4) Canis lupus familiaris
Analyze
Symbol: PCP4
Name: Purkinje cell protein 4
RGD ID: 12393724
Description: ENCODES a protein that exhibits calmodulin binding (ortholog); RNA binding (ortholog); INVOLVED IN calmodulin dependent kinase signaling pathway (ortholog); cellular response to L-glutamate (ortholog); negative regulation of neuron apoptotic process (ortholog); ASSOCIATED WITH autistic disorder (ortholog); Colonic Neoplasms (ortholog); Experimental Mammary Neoplasms (ortholog); FOUND IN axon (ortholog); neurofilament (ortholog); protein-containing complex (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: calmodulin regulator protein PCP4
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
CanFam3.13134,529,688 - 34,584,497 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3134,529,683 - 34,584,501 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3133,806,794 - 33,861,644 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03134,042,065 - 34,096,949 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3134,042,060 - 34,096,953 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13133,911,758 - 33,966,609 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03133,917,714 - 33,972,563 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03134,410,101 - 34,464,804 (+)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

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
PCP4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13134,529,688 - 34,584,497 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3134,529,683 - 34,584,501 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3133,806,794 - 33,861,644 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03134,042,065 - 34,096,949 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3134,042,060 - 34,096,953 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13133,911,758 - 33,966,609 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03133,917,714 - 33,972,563 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03134,410,101 - 34,464,804 (+)NCBIUU_Cfam_GSD_1.0
PCP4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382139,867,438 - 39,929,392 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2139,867,438 - 39,929,397 (+)EnsemblGRCh38hg38GRCh38
GRCh372141,239,364 - 41,301,317 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362140,161,217 - 40,223,192 (+)NCBINCBI36Build 36hg18NCBI36
Build 342140,161,216 - 40,223,190NCBI
Celera2126,436,822 - 26,498,803 (+)NCBICelera
Cytogenetic Map21q22.2NCBI
HuRef2126,708,625 - 26,770,649 (+)NCBIHuRef
CHM1_12140,800,092 - 40,862,070 (+)NCBICHM1_1
T2T-CHM13v2.02138,251,577 - 38,313,599 (+)NCBIT2T-CHM13v2.0
Pcp4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391696,268,806 - 96,326,993 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1696,268,806 - 96,326,993 (+)EnsemblGRCm39 Ensembl
GRCm381696,467,606 - 96,525,793 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1696,467,606 - 96,525,793 (+)EnsemblGRCm38mm10GRCm38
MGSCv371696,689,213 - 96,747,396 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361696,572,516 - 96,630,703 (+)NCBIMGSCv36mm8
Celera1697,545,310 - 97,603,962 (+)NCBICelera
Cytogenetic Map16C4NCBI
cM Map1656.97NCBI
Pcp4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81149,229,185 - 49,331,186 (+)NCBIGRCr8
mRatBN7.21135,759,711 - 35,861,725 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1135,800,713 - 35,861,725 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1144,450,446 - 44,511,455 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01137,121,822 - 37,182,837 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01136,275,044 - 36,336,059 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01136,851,035 - 36,912,272 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1136,851,038 - 36,912,229 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01142,825,722 - 42,855,529 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41136,828,273 - 36,889,381 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11136,885,861 - 36,946,969 (+)NCBI
Celera1135,698,717 - 35,758,778 (+)NCBICelera
Cytogenetic Map11q11NCBI
Pcp4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540739,853,034 - 39,908,151 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540739,853,029 - 39,908,151 (+)NCBIChiLan1.0ChiLan1.0
PCP4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22235,967,343 - 36,029,032 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12130,823,340 - 30,885,002 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02126,069,039 - 26,284,247 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12139,556,995 - 39,618,734 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2139,587,400 - 39,618,734 (+)Ensemblpanpan1.1panPan2
Pcp4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440497133,998,889 - 34,050,983 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365003,416,797 - 3,469,053 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365003,416,840 - 3,468,893 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PCP4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13203,412,479 - 203,479,209 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113203,412,479 - 203,479,216 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
PCP4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1283,791,520 - 83,855,289 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl283,791,458 - 83,855,336 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605411,658,279 - 11,722,107 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Pcp4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474529,630,747 - 29,682,995 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474529,630,990 - 29,682,965 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in PCP4
936 total Variants

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 8 12 2
Low 1 7 3 6 8 3 5
Below cutoff 2 1 1 3 1 2 3 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSCAFT00000046160   ⟹   ENSCAFP00000043230
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl3134,529,683 - 34,584,497 (+)Ensembl
RefSeq Acc Id: ENSCAFT00000069121   ⟹   ENSCAFP00000058967
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl3134,574,427 - 34,584,501 (+)Ensembl
RefSeq Acc Id: ENSCAFT00845052807   ⟹   ENSCAFP00845041453
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl3134,042,060 - 34,096,949 (+)Ensembl
RefSeq Acc Id: ENSCAFT00845052820   ⟹   ENSCAFP00845041465
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl3134,086,882 - 34,096,953 (+)Ensembl
RefSeq Acc Id: XM_038443551   ⟹   XP_038299479
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.03134,042,065 - 34,096,949 (+)NCBI
RefSeq Acc Id: XM_038517960   ⟹   XP_038373888
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.13133,911,758 - 33,966,609 (+)NCBI
RefSeq Acc Id: XM_038581530   ⟹   XP_038437458
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.03134,410,101 - 34,464,804 (+)NCBI
RefSeq Acc Id: XM_038645915   ⟹   XP_038501843
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.03133,917,714 - 33,972,563 (+)NCBI
RefSeq Acc Id: XM_848266   ⟹   XP_853359
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.13134,529,688 - 34,584,497 (+)NCBI
Dog10K_Boxer_Tasha3133,806,794 - 33,861,644 (+)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: XP_853359   ⟸   XM_848266
- UniProtKB: A0A8C0LNE2 (UniProtKB/TrEMBL),   A0A8C0TMW3 (UniProtKB/TrEMBL),   A0A8I3Q2I0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCAFP00000058967   ⟸   ENSCAFT00000069121
RefSeq Acc Id: ENSCAFP00000043230   ⟸   ENSCAFT00000046160
RefSeq Acc Id: XP_038373888   ⟸   XM_038517960
RefSeq Acc Id: XP_038501843   ⟸   XM_038645915
RefSeq Acc Id: XP_038299479   ⟸   XM_038443551
- UniProtKB: A0A8C0LNE2 (UniProtKB/TrEMBL),   A0A8C0TMW3 (UniProtKB/TrEMBL),   A0A8I3Q2I0 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038437458   ⟸   XM_038581530
- UniProtKB: A0A8C0LNE2 (UniProtKB/TrEMBL),   A0A8C0TMW3 (UniProtKB/TrEMBL),   A0A8I3Q2I0 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCAFP00845041453   ⟸   ENSCAFT00845052807
RefSeq Acc Id: ENSCAFP00845041465   ⟸   ENSCAFT00845052820

Promoters
RGD ID:13688642
Promoter ID:EPDNEW_C6710
Type:multiple initiation site
Name:PCP4_1
Description:Purkinje cell protein 4
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
CanFam3.13134,529,747 - 34,529,807EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000029311 Ensembl, UniProtKB/TrEMBL
  ENSCAFG00030023971 UniProtKB/TrEMBL
  ENSCAFG00040023767 UniProtKB/TrEMBL
  ENSCAFG00845029822 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000046160.3 UniProtKB/TrEMBL
  ENSCAFT00000069121.2 UniProtKB/TrEMBL
  ENSCAFT00030044064.1 UniProtKB/TrEMBL
  ENSCAFT00030044085.1 UniProtKB/TrEMBL
  ENSCAFT00030044102.1 UniProtKB/TrEMBL
  ENSCAFT00040044241.1 UniProtKB/TrEMBL
  ENSCAFT00040044245.1 UniProtKB/TrEMBL
  ENSCAFT00040044253.1 UniProtKB/TrEMBL
  ENSCAFT00845052807 ENTREZGENE
  ENSCAFT00845052807.1 UniProtKB/TrEMBL
  ENSCAFT00845052820.1 UniProtKB/TrEMBL
KEGG Report cfa:610723 UniProtKB/TrEMBL
NCBI Gene PCP4 ENTREZGENE
PANTHER IG-LIKE DOMAIN-CONTAINING PROTEIN UniProtKB/TrEMBL
  PTHR15359:SF7 UniProtKB/TrEMBL
UniProt A0A8C0LNE2 ENTREZGENE
  A0A8C0PQI0_CANLF UniProtKB/TrEMBL
  A0A8C0TKI8_CANLF UniProtKB/TrEMBL
  A0A8C0TMW3 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3Q2I0 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3Q2I9_CANLF UniProtKB/TrEMBL
VGNC ID VGNC:44319 ENTREZGENE