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Open reading frame (ORF) annotation in the exon skipping event | |
3'-UTR located exon skipping events lost miRNA binding sites | |
Splicing Quantitative Trait Loci (sQTLs) in the skipped exons | |
Gene summary for PPP1CC |
Gene summary |
Gene information | Gene symbol | PPP1CC | Gene ID | 5501 |
Gene name | protein phosphatase 1 catalytic subunit gamma | |
Synonyms | PP-1G|PP1C|PPP1G | |
Cytomap | 12q24.11 | |
Type of gene | protein-coding | |
Description | serine/threonine-protein phosphatase PP1-gamma catalytic subunitprotein phosphatase 1, catalytic subunit, gamma isoformprotein phosphatase 1, catalytic subunit, gamma isozymeprotein phosphatase 1C catalytic subunitserine/threonine phosphatase 1 gamma | |
Modification date | 20200327 | |
UniProtAcc | A0A024RBP2, | |
Context |
Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
Gene | GO ID | GO term | PubMed ID |
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Gene structures and expression levels for PPP1CC |
Skipped exons in the ROSMAP, MSBB, and Mayo based on Ensembl gene isoform structure. * Click on the image to open the UCSC genome browser with custom track showing this image in a new window. |
Differentially expressed gene analysis across multiple brain tissues between AD and control. |
Tissue type | DEG direction | Base mean exp. | log2FC(AD/control) | P-value | Adj. p-value |
Differentially expressed isoform analysis across multiple brain tissues between AD and control. |
Tissue type | DEG direction | ENST | Transcript info. | Base mean exp. | log2FC(AD/control) | P-value | Adjc. p-value |
PG | UP | ENST00000551582.1 | PPP1CC-207:protein_coding:PPP1CC | 2.797118e+00 | 4.672056e+00 | 5.442950e-05 | 1.748489e-03 |
Landscape of isoform expressions across multiple brain tissues between AD and control. |
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Exon skipping events with PSIs in ROSMAP, MSBB, and Mayo for PPP1CC |
Landscape of individual exon skipping event across AD tissues and controls (PSI heatmap). |
All exon skipping events in AD cohorts. |
Exon skip ID | chr | Exons involved in exon skipping | Skipped exon |
exon_skip_111542 | chr12 | 110731816:110731901:110734718:110734986:110742653:110742900 | 110734718:110734986 |
exon_skip_123291 | chr12 | 110731816:110731901:110734718:110734986:110742653:110742839 | 110734718:110734986 |
exon_skip_203552 | chr12 | 110722624:110722695:110724660:110724764:110730529:110730759 | 110724660:110724764 |
Differentially expressed PSI values of individual exon skipping events in multiple brain tissues between AD and control. |
Exon skipping information | Tissue type | Avg(PSIs) in AD | Avg(PSIs) in control | Difference (PSI) | Adj. p-value |
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Open reading frame (ORF) annotation in the exon skipping event for PPP1CC |
Open reading frame (ORF) of individual exon skipping events in ROSMAP based on the Ensembl gene structure combined from isoforms. |
ENST | Start of skipped exon | End of skipped exon | ORF |
ENST00000335007 | 110724660 | 110724764 | In-frame |
Open reading frame (ORF) of individual exon skipping events in MSBB based on the Ensembl gene structure combined from isoforms. |
ENST | Start of skipped exon | End of skipped exon | ORF |
Open reading frame (ORF) of individual exon skipping events in Mayo based on the Ensembl gene structure combined from isoforms. |
ENST | Start of skipped exon | End of skipped exon | ORF |
ENST00000335007 | 110724660 | 110724764 | In-frame |
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Infer the effects of exon skipping event on protein functional features for PPP1CC |
p-ENSG00000186298_img4.png |
Loci of skipped exons in ROSMAP across genomic, transcript, and protein sequence levels of In-frame cases. |
ENST | Length of mRNA | Length of AA seq. | Genomic start | Genomic end | mRNA start | mRNA end | AA start | AA end |
ENST00000335007 | 2576 | 323 | 110724660 | 110724764 | 610 | 713 | 139 | 174 |
Loci of skipped exons in MSBB across genomic, transcript, and protein sequence levels of In-frame cases. |
ENST | Length of mRNA | Length of AA seq. | Genomic start | Genomic end | mRNA start | mRNA end | AA start | AA end |
Loci of skipped exons in Mayo across genomic, transcript, and protein sequence levels of In-frame cases. |
ENST | Length of mRNA | Length of AA seq. | Genomic start | Genomic end | mRNA start | mRNA end | AA start | AA end |
ENST00000335007 | 2576 | 323 | 110724660 | 110724764 | 610 | 713 | 139 | 174 |
Lost protein functional features of individual exon skipping events in ROSMAP. |
UniProt acc. | Start of exon skipping (AA) | End of exon skipping (AA) | Protein feature start (AA) | Protein feature end (AA) | Category of protein feature | Description of feature |
P36873 | 139 | 174 | 162 | 165 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:5INB |
P36873 | 139 | 174 | 169 | 174 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:5INB |
P36873 | 139 | 174 | 2 | 323 | Chain | ID=PRO_0000058787;Note=Serine/threonine-protein phosphatase PP1-gamma catalytic subunit |
P36873 | 139 | 174 | 136 | 143 | Helix | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:5INB |
P36873 | 139 | 174 | 146 | 156 | Helix | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:5INB |
P36873 | 139 | 174 | 173 | 173 | Metal binding | Note=Manganese 2;Ontology_term=ECO:0000269,ECO:0000269;evidence=ECO:0000269|PubMed:11535607,ECO:0000269|PubMed:15280359;Dbxref=PMID:11535607,PMID:15280359 |
P36873 | 139 | 174 | 152 | 152 | Natural variant | ID=VAR_051734;Note=F->S;Dbxref=dbSNP:rs11558237 |
P36873 | 139 | 174 | 166 | 168 | Turn | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:5INB |
Lost protein functional features of individual exon skipping events in MSBB. |
UniProt acc. | Start of exon skipping (AA) | End of exon skipping (AA) | Protein feature start (AA) | Protein feature end (AA) | Category of protein feature | Description of feature |
Lost protein functional features of individual exon skipping events in Mayo. |
UniProt acc. | Start of exon skipping (AA) | End of exon skipping (AA) | Protein feature start (AA) | Protein feature end (AA) | Category of protein feature | Description of feature |
P36873 | 139 | 174 | 162 | 165 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:5INB |
P36873 | 139 | 174 | 169 | 174 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:5INB |
P36873 | 139 | 174 | 2 | 323 | Chain | ID=PRO_0000058787;Note=Serine/threonine-protein phosphatase PP1-gamma catalytic subunit |
P36873 | 139 | 174 | 136 | 143 | Helix | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:5INB |
P36873 | 139 | 174 | 146 | 156 | Helix | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:5INB |
P36873 | 139 | 174 | 173 | 173 | Metal binding | Note=Manganese 2;Ontology_term=ECO:0000269,ECO:0000269;evidence=ECO:0000269|PubMed:11535607,ECO:0000269|PubMed:15280359;Dbxref=PMID:11535607,PMID:15280359 |
P36873 | 139 | 174 | 152 | 152 | Natural variant | ID=VAR_051734;Note=F->S;Dbxref=dbSNP:rs11558237 |
P36873 | 139 | 174 | 166 | 168 | Turn | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:5INB |
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3'-UTR located exon skipping events that lost miRNA binding sites in PPP1CC |
3'-UTR exon skipping evnets lost miRNA binding. |
Tissue type | ENST | Exon skip start | Exon skip end | microRNA | Binding site by TargetScan | Binding type by TargetScan | Bdinding site by miRanda | Score of miRanda | Energy by miRanda |
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SNVs in the skipped exons for PPP1CC |
- Differential PSIs between mutated versus non-mutated samples. |
- Depth of Coverage in the skipped exon of the mutated samples. |
- Sashimi plot in the skipped exon of the mutated samples. |
- Non-synonymous mutations located in the skipped exons. |
Cancer type | Sample | ESID | Skipped exon start | Skipped exon end | Mutation start | Mutation end | Mutation type | Reference seq | Mutation seq | AAchange |
- Non-synonymous mutations located in the skipped exons in CCLE. |
Sample | Skipped exon start | Skipped exon end | Mutation start | Mutation end | Mutation type | Reference seq | Mutation seq | AAchange |
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AD stage-associated exon skippint events for PPP1CC |
Associated exon skipping events with Braak staging or Clinical Dementia Rating (CDR). |
AD stage info | Cohort | Tissue | SE id | Coefficient | P-value | Chromosome | Strand | E1 start | E1 end | Skipped start | Skipped end | E2 start | E2 end |
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Splicing Quantitative Trait Loci (sQTL) in the exon skipping event for PPP1CC |
sQTL information located at the skipped exons. |
Tissue type | Exon skip ID | SNP id | Location | P-value | FDR |
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Correlation with RNA binding proteins (RBPs) for PPP1CC |
Correlated RBP and related information. |
Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
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RelatedDrugs for PPP1CC |
Approved drugs targeting this gene. (DrugBank Version 5.1.0 2018-04-02) |
UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
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RelatedDiseases for PPP1CC |
Diseases associated with this gene. (DisGeNet 4.0) |
Gene | Disease ID | Disease name | # pubmeds | Source |