Pclo (piccolo presynaptic cytomatrix protein) - Rat Genome Database

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Gene: Pclo (piccolo presynaptic cytomatrix protein) Ictidomys tridecemlineatus
Analyze
Symbol: Pclo
Name: piccolo presynaptic cytomatrix protein
RGD ID: 12687967
Description: ENCODES a protein that exhibits calcium ion binding (ortholog); calcium-dependent phospholipid binding (ortholog); transcription corepressor binding (ortholog); INVOLVED IN cytoskeleton organization (ortholog); insulin secretion (ortholog); modulation of excitatory postsynaptic potential (ortholog); ASSOCIATED WITH CHARGE syndrome (ortholog); epilepsy (ortholog); genetic disease (ortholog); FOUND IN axon (ortholog); cone cell pedicle (ortholog); cytoskeleton of presynaptic active zone (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: piccolo presynaptic cytomatrix protein, transcript variant X1; piccolo presynaptic cytomatrix protein, transcript variant X3
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440511864,071,317 - 64,473,183 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049367341,277,591 - 1,479,521 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049367341,273,055 - 1,674,913 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
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
Pclo
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440511864,071,317 - 64,473,183 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049367341,277,591 - 1,479,521 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049367341,273,055 - 1,674,913 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PCLO
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38782,754,012 - 83,162,884 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl782,754,012 - 83,162,930 (-)EnsemblGRCh38hg38GRCh38
GRCh37782,383,328 - 82,792,200 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36782,225,378 - 82,630,133 (-)NCBINCBI36Build 36hg18NCBI36
Build 34782,188,346 - 82,224,200NCBI
Celera777,083,829 - 77,492,761 (-)NCBICelera
Cytogenetic Map7q21.11NCBI
HuRef776,984,730 - 77,393,999 (-)NCBIHuRef
CHM1_1782,313,403 - 82,722,210 (-)NCBICHM1_1
T2T-CHM13v2.0784,005,231 - 84,414,103 (-)NCBIT2T-CHM13v2.0
CRA_TCAGchr7v2781,715,437 - 82,124,409 (-)NCBI
Pclo
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39514,564,924 - 14,913,479 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl514,564,932 - 14,913,473 (+)EnsemblGRCm39 Ensembl
GRCm38514,514,906 - 14,863,465 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl514,514,918 - 14,863,459 (+)EnsemblGRCm38mm10GRCm38
MGSCv37514,514,918 - 14,863,459 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36514,520,924 - 14,801,999 (+)NCBIMGSCv36mm8
Celera1224,890,712 - 25,239,859 (+)NCBICelera
Cytogenetic Map5A1- A2NCBI
cM Map56.27NCBI
Pclo
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8420,646,604 - 21,005,171 (-)NCBIGRCr8
mRatBN7.2419,691,439 - 20,050,015 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl419,695,315 - 20,049,885 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx424,865,942 - 25,222,133 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0420,697,245 - 21,053,987 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0419,078,298 - 19,437,003 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0416,454,904 - 17,058,921 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl416,454,904 - 17,058,921 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0416,923,700 - 17,031,648 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.0416,428,814 - 16,661,584 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4415,911,051 - 16,269,090 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1415,911,050 - 16,269,090 (-)NCBI
Celera415,219,539 - 15,569,109 (-)NCBICelera
Cytogenetic Map4q12NCBI
Pclo
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554103,152,202 - 3,292,920 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554102,998,345 - 3,334,056 (+)NCBIChiLan1.0ChiLan1.0
PCLO
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v26100,601,124 - 101,013,577 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan17148,865,761 - 149,278,209 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0774,714,364 - 75,126,518 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1788,378,218 - 88,789,302 (-)NCBIpanpan1.1PanPan1.1panPan2
PCLO
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11822,385,102 - 22,701,944 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1822,385,100 - 22,706,793 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1821,995,716 - 22,385,731 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01822,770,098 - 23,160,278 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1822,770,852 - 22,983,764 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11822,405,472 - 22,795,049 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01821,940,459 - 22,330,520 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01822,596,545 - 22,986,291 (-)NCBIUU_Cfam_GSD_1.0
PCLO
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl997,114,511 - 97,513,072 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1997,114,503 - 97,513,081 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.29107,331,780 - 107,730,093 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PCLO
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12165,729,762 - 66,129,806 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604237,825,087 - 38,233,533 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Pclo
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473931,143,872 - 31,448,524 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSSTOT00000023409   ⟹   ENSSTOP00000020770
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_0049367341,277,591 - 1,479,521 (-)Ensembl
RefSeq Acc Id: XM_021735866   ⟹   XP_021591541
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440511864,071,317 - 64,473,182 (-)NCBI
SpeTri2.0NW_0049367341,275,912 - 1,674,913 (-)NCBI
Sequence:
RefSeq Acc Id: XM_040291702   ⟹   XP_040147636
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440511864,071,317 - 64,473,182 (-)NCBI
RefSeq Acc Id: XM_040291704   ⟹   XP_040147638
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440511864,166,912 - 64,473,183 (-)NCBI
Protein Sequences
Protein RefSeqs XP_021591541 (Get FASTA)   NCBI Sequence Viewer  
  XP_040147636 (Get FASTA)   NCBI Sequence Viewer  
  XP_040147638 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSTOP00000020770.2
GenBank Protein KAG3277874 (Get FASTA)   NCBI Sequence Viewer  
  KAG3277875 (Get FASTA)   NCBI Sequence Viewer  
  KAG3277876 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: XP_021591541   ⟸   XM_021735866
- Peptide Label: isoform X2
- UniProtKB: I3N8S4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_040147636   ⟸   XM_040291702
- Peptide Label: isoform X1
RefSeq Acc Id: XP_040147638   ⟸   XM_040291704
- Peptide Label: isoform X3
RefSeq Acc Id: ENSSTOP00000020770   ⟸   ENSSTOT00000023409
Protein Domains
C2   PDZ


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000022875 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000023409.2 UniProtKB/TrEMBL
Gene3D-CATH 2.30.42.10 UniProtKB/TrEMBL
  2.60.40.150 UniProtKB/TrEMBL
InterPro C2_dom UniProtKB/TrEMBL
  C2_domain_sf UniProtKB/TrEMBL
  PDZ UniProtKB/TrEMBL
  PDZ_sf UniProtKB/TrEMBL
NCBI Gene Pclo ENTREZGENE
PANTHER PICCOLO/BASSOON UniProtKB/TrEMBL
  PTHR14113:SF6 UniProtKB/TrEMBL
Pfam PDZ UniProtKB/TrEMBL
  PF00168 UniProtKB/TrEMBL
PROSITE PDZ UniProtKB/TrEMBL
  PS50004 UniProtKB/TrEMBL
SMART PDZ UniProtKB/TrEMBL
  SM00239 UniProtKB/TrEMBL
Superfamily-SCOP SSF49562 UniProtKB/TrEMBL
  SSF50156 UniProtKB/TrEMBL
UniProt I3N8S4 ENTREZGENE, UniProtKB/TrEMBL