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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 GTF3C5 |
Gene summary |
Gene information | Gene symbol | GTF3C5 | Gene ID | 9328 |
Gene name | general transcription factor IIIC subunit 5 | |
Synonyms | TFIIIC63|TFIIICepsilon|TFiiiC2-63 | |
Cytomap | 9q34.13 | |
Type of gene | protein-coding | |
Description | general transcription factor 3C polypeptide 5TF3C-epsilonTFIIIC 63 kDa subunitgeneral transcription factor IIIC, polypeptide 5, 63kDatranscription factor IIIC 63 kDa subunittranscription factor IIIC subunit epsilontranscription factor IIIC, 63 kD | |
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 |
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Gene structures and expression levels for GTF3C5 |
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 | ENST00000439697.1 | GTF3C5-206:protein_coding:GTF3C5 | 3.853516e+01 | 1.616970e+00 | 5.369118e-08 | 1.254622e-06 |
CB | DOWN | ENST00000372099.10 | GTF3C5-203:protein_coding:GTF3C5 | 3.131597e+02 | -9.834926e-01 | 3.598588e-05 | 3.115071e-04 |
TC | UP | ENST00000439697.1 | GTF3C5-206:protein_coding:GTF3C5 | 7.066667e+00 | 1.084482e+00 | 8.591734e-04 | 8.786949e-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 GTF3C5 |
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_117520 | chr9 | 133031018:133031164:133042087:133042306:133043728:133043926 | 133042087:133042306 |
exon_skip_123167 | chr9 | 133030675:133031164:133043728:133043926:133050783:133050978 | 133043728:133043926 |
exon_skip_231614 | chr9 | 133031018:133031164:133043728:133043926:133050783:133050896 | 133043728:133043926 |
exon_skip_285738 | chr9 | 133054408:133054488:133054712:133054809:133056012:133056094 | 133054712:133054809 |
exon_skip_30731 | chr9 | 133054712:133054809:133056012:133056094:133056766:133056908 | 133056012:133056094 |
exon_skip_39804 | chr9 | 133030711:133030910:133042087:133042306:133043728:133043926 | 133042087:133042306 |
exon_skip_52797 | chr9 | 133031024:133031164:133042087:133042306:133043728:133043926 | 133042087:133042306 |
exon_skip_74127 | chr9 | 133054716:133054809:133054944:133054964:133056012:133056094 | 133054944:133054964 |
exon_skip_80794 | chr9 | 133031018:133031164:133042087:133042306:133043728:133043755 | 133042087:133042306 |
exon_skip_92248 | chr9 | 133031018:133031164:133043728:133043926:133050783:133050885 | 133043728:133043926 |
exon_skip_99011 | chr9 | 133054712:133054809:133054944:133054964:133056012:133056094 | 133054944:133054964 |
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 GTF3C5 |
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 |
ENST00000372097 | 133042087 | 133042306 | Frame-shift |
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 |
ENST00000372097 | 133042087 | 133042306 | Frame-shift |
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 |
ENST00000372097 | 133042087 | 133042306 | Frame-shift |
ENST00000372097 | 133054712 | 133054809 | Frame-shift |
ENST00000372097 | 133056012 | 133056094 | Frame-shift |
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Infer the effects of exon skipping event on protein functional features for GTF3C5 |
p-ENSG00000148308_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 |
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 |
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 GTF3C5 |
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 GTF3C5 |
- 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 GTF3C5 |
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 GTF3C5 |
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 GTF3C5 |
Correlated RBP and related information. |
Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
CB | RBM6 | exon_skip_80794 | -4.622861e-01 | 8.553991e-10 |
CB | TRA2A | exon_skip_80794 | -5.412329e-01 | 1.762812e-13 |
CB | SRSF4 | exon_skip_80794 | -4.186087e-01 | 3.994424e-08 |
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RelatedDrugs for GTF3C5 |
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 GTF3C5 |
Diseases associated with this gene. (DisGeNet 4.0) |
Gene | Disease ID | Disease name | # pubmeds | Source |