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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 GOPC |
Gene summary |
Gene information | Gene symbol | GOPC | Gene ID | 57120 |
Gene name | golgi associated PDZ and coiled-coil motif containing | |
Synonyms | CAL|FIG|GOPC1|PIST|dJ94G16.2 | |
Cytomap | 6q22.1 | |
Type of gene | protein-coding | |
Description | Golgi-associated PDZ and coiled-coil motif-containing proteinCFTR-associated ligandPDZ protein interacting specifically with TC10PDZ/coiled-coil domain binding partner for the rho-family GTPase TC10dJ94G16.2 PISTfused in glioblastomagolgi-associated | |
Modification date | 20200327 | |
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 |
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Gene structures and expression levels for GOPC |
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 | DOWN | ENST00000535237.2 | GOPC-203:protein_coding:GOPC | 4.263075e+02 | -1.739470e+00 | 4.618365e-04 | 2.693691e-03 |
TC | DOWN | ENST00000535237.2 | GOPC-203:protein_coding:GOPC | 1.362100e+02 | -2.546122e+00 | 2.220498e-03 | 1.816274e-02 |
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 GOPC |
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_123674 | chr6 | 117575177:117575352:117577448:117577471:117578900:117579064 | 117577448:117577471 |
exon_skip_146665 | chr6 | 117577448:117577471:117578900:117579064:117602004:117602511 | 117578900:117579064 |
exon_skip_194866 | chr6 | 117575177:117575352:117577448:117577471:117578900:117579058 | 117577448:117577471 |
exon_skip_290099 | chr6 | 117575177:117575352:117578900:117579064:117602004:117602511 | 117578900:117579064 |
exon_skip_4385 | chr6 | 117575257:117575352:117577448:117577471:117578900:117579064 | 117577448:117577471 |
exon_skip_65758 | chr6 | 117566854:117567034:117569572:117569736:117570860:117570955 | 117569572:117569736 |
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 |
exon_skip_194866 | Mayo_TC | 4.706173e-01 | 5.865625e-01 | -1.159452e-01 | 4.792892e-05 |
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Open reading frame (ORF) annotation in the exon skipping event for GOPC |
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 |
ENST00000368498 | 117569572 | 117569736 | In-frame |
ENST00000368498 | 117577448 | 117577471 | 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 |
ENST00000368498 | 117577448 | 117577471 | 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 |
ENST00000368498 | 117577448 | 117577471 | In-frame |
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Infer the effects of exon skipping event on protein functional features for GOPC |
p-ENSG00000047932_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 |
ENST00000368498 | 4467 | 462 | 117569572 | 117569736 | 989 | 1152 | 304 | 358 |
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 |
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 |
Q9HD26 | 304 | 358 | 305 | 319 | Alternative sequence | ID=VSP_016063;Note=In isoform 3. GGKEHGVPILISEIH->VRSSTSSIIFYSYLV;Ontology_term=ECO:0000303;evidence=ECO:0000303|Ref.4 |
Q9HD26 | 304 | 358 | 320 | 462 | Alternative sequence | ID=VSP_016064;Note=In isoform 3. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|Ref.4 |
Q9HD26 | 304 | 358 | 301 | 306 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:4JOK |
Q9HD26 | 304 | 358 | 311 | 318 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:4JOK |
Q9HD26 | 304 | 358 | 334 | 339 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:4JOK |
Q9HD26 | 304 | 358 | 342 | 344 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2DC2 |
Q9HD26 | 304 | 358 | 346 | 348 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2LOB |
Q9HD26 | 304 | 358 | 2 | 462 | Chain | ID=PRO_0000087542;Note=Golgi-associated PDZ and coiled-coil motif-containing protein |
Q9HD26 | 304 | 358 | 288 | 371 | Domain | Note=PDZ;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00143 |
Q9HD26 | 304 | 358 | 307 | 309 | Helix | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:4JOK |
Q9HD26 | 304 | 358 | 323 | 327 | Helix | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:4JOK |
Q9HD26 | 304 | 358 | 349 | 357 | Helix | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:4JOK |
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 |
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3'-UTR located exon skipping events that lost miRNA binding sites in GOPC |
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 GOPC |
- 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 GOPC |
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 GOPC |
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 GOPC |
Correlated RBP and related information. |
Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
FL | SAMD4A | exon_skip_194866 | -4.166863e-01 | 1.181152e-08 |
FL | EIF4B | exon_skip_194866 | 4.169066e-01 | 1.158345e-08 |
HCC | SAMD4A | exon_skip_194866 | -5.387268e-01 | 2.390592e-21 |
PCC | SAMD4A | exon_skip_194866 | -5.295676e-01 | 8.826617e-16 |
PG | SAMD4A | exon_skip_194866 | -4.903963e-01 | 1.889550e-10 |
TC | SAMD4A | exon_skip_194866 | -4.662256e-01 | 3.421039e-09 |
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RelatedDrugs for GOPC |
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 GOPC |
Diseases associated with this gene. (DisGeNet 4.0) |
Gene | Disease ID | Disease name | # pubmeds | Source |