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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 PPP6C |
Gene summary |
Gene information | Gene symbol | PPP6C | Gene ID | 5537 |
Gene name | protein phosphatase 6 catalytic subunit | |
Synonyms | PP6|PP6C | |
Cytomap | 9q33.3 | |
Type of gene | protein-coding | |
Description | serine/threonine-protein phosphatase 6 catalytic subunitserine/threonine protein phosphatase catalytic subunit | |
Modification date | 20200313 | |
UniProtAcc | ||
Context |
Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
Gene | GO ID | GO term | PubMed ID |
PPP6C | GO:0006470 | protein dephosphorylation | 16716191 |
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Gene structures and expression levels for PPP6C |
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 |
CB | UP | ENST00000415905.5 | PPP6C-202:protein_coding:PPP6C | 1.988212e+02 | 1.113968e+00 | 3.696557e-09 | 1.304328e-07 |
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 PPP6C |
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_116624 | chr9 | 125153954:125153985:125158241:125158382:125171085:125171180 | 125158241:125158382 |
exon_skip_208120 | chr9 | 125171085:125171180:125171909:125172001:125189644:125189783 | 125171909:125172001 |
exon_skip_294754 | chr9 | 125158241:125158382:125160841:125160906:125171085:125171180 | 125160841:125160906 |
exon_skip_87719 | chr9 | 125153954:125153985:125158241:125158382:125160841:125160906 | 125158241:125158382 |
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 PPP6C |
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 |
ENST00000373547 | 125158241 | 125158382 | Frame-shift |
ENST00000373547 | 125160841 | 125160906 | 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 |
ENST00000373547 | 125160841 | 125160906 | In-frame |
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 |
ENST00000373547 | 125158241 | 125158382 | Frame-shift |
ENST00000373547 | 125160841 | 125160906 | In-frame |
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Infer the effects of exon skipping event on protein functional features for PPP6C |
p-ENSG00000119414_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 |
ENST00000373547 | 4135 | 305 | 125160841 | 125160906 | 272 | 336 | 57 | 78 |
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 |
ENST00000373547 | 4135 | 305 | 125160841 | 125160906 | 272 | 336 | 57 | 78 |
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 |
ENST00000373547 | 4135 | 305 | 125160841 | 125160906 | 272 | 336 | 57 | 78 |
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 |
O00743 | 57 | 78 | 58 | 79 | Alternative sequence | ID=VSP_038376;Note=In isoform 2. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:14702039;Dbxref=PMID:14702039 |
O00743 | 57 | 78 | 1 | 305 | Chain | ID=PRO_0000424504;Note=Serine/threonine-protein phosphatase 6 catalytic subunit |
O00743 | 57 | 78 | 2 | 305 | Chain | ID=PRO_0000058877;Note=Serine/threonine-protein phosphatase 6 catalytic subunit%2C N-terminally processed |
O00743 | 57 | 78 | 61 | 64 | Sequence conflict | Note=LCEL->AG;Ontology_term=ECO:0000305;evidence=ECO:0000305 |
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 |
O00743 | 57 | 78 | 58 | 79 | Alternative sequence | ID=VSP_038376;Note=In isoform 2. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:14702039;Dbxref=PMID:14702039 |
O00743 | 57 | 78 | 1 | 305 | Chain | ID=PRO_0000424504;Note=Serine/threonine-protein phosphatase 6 catalytic subunit |
O00743 | 57 | 78 | 2 | 305 | Chain | ID=PRO_0000058877;Note=Serine/threonine-protein phosphatase 6 catalytic subunit%2C N-terminally processed |
O00743 | 57 | 78 | 61 | 64 | Sequence conflict | Note=LCEL->AG;Ontology_term=ECO:0000305;evidence=ECO:0000305 |
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 |
O00743 | 57 | 78 | 58 | 79 | Alternative sequence | ID=VSP_038376;Note=In isoform 2. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:14702039;Dbxref=PMID:14702039 |
O00743 | 57 | 78 | 1 | 305 | Chain | ID=PRO_0000424504;Note=Serine/threonine-protein phosphatase 6 catalytic subunit |
O00743 | 57 | 78 | 2 | 305 | Chain | ID=PRO_0000058877;Note=Serine/threonine-protein phosphatase 6 catalytic subunit%2C N-terminally processed |
O00743 | 57 | 78 | 61 | 64 | Sequence conflict | Note=LCEL->AG;Ontology_term=ECO:0000305;evidence=ECO:0000305 |
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3'-UTR located exon skipping events that lost miRNA binding sites in PPP6C |
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 PPP6C |
- 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 PPP6C |
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 PPP6C |
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 PPP6C |
Correlated RBP and related information. |
Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
CB | DAZAP1 | exon_skip_294754 | -4.300216e-01 | 2.347933e-08 |
CB | CNOT4 | exon_skip_294754 | -4.426635e-01 | 8.055589e-09 |
CB | ZFP36 | exon_skip_294754 | -4.115999e-01 | 1.033974e-07 |
CB | FUBP1 | exon_skip_294754 | -5.197910e-01 | 4.184780e-12 |
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RelatedDrugs for PPP6C |
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 PPP6C |
Diseases associated with this gene. (DisGeNet 4.0) |
Gene | Disease ID | Disease name | # pubmeds | Source |