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| Open reading frame (ORF) annotation in the exon skipping event |
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| Splicing Quantitative Trait Loci (sQTLs) in the skipped exons |
| Splicing Quantitative Trait Methylation (sQTM) in the skipped exon |
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Gene summary for VEGFC |
 Gene summary |
| Gene information | Gene symbol | VEGFC | Gene ID | 7424 |
| Gene name | vascular endothelial growth factor C | |
| Synonyms | Flt4-L|LMPH1D|VRP | |
| Cytomap | 4q34.3 | |
| Type of gene | protein-coding | |
| Description | vascular endothelial growth factor CFLT4 ligand DHMvascular endothelial growth factor-related protein | |
| Modification date | 20180527 | |
| UniProtAcc | P49767 | |
| Context | PubMed: VEGFC [Title/Abstract] AND exon [Title/Abstract] AND skip [Title/Abstract] - Title (PMID) |
| Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
| Gene | GO ID | GO term | PubMed ID |
| VEGFC | GO:0048010 | vascular endothelial growth factor receptor signaling pathway | 23878260 |
| VEGFC | GO:0050930 | induction of positive chemotaxis | 19275959 |
| VEGFC | GO:0060754 | positive regulation of mast cell chemotaxis | 19275959 |
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Exon skipping events across known transcript of Ensembl for VEGFC from UCSC genome browser |
| Skipped exons in TCGA and GTEx 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. |
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Gene isoform structures and expression levels for VEGFC |
| Expression levels of gene isoforms across TCGA. |
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| Expression levels of gene isoforms across GTEx. |
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Exon skipping events with PSIs in TCGA for VEGFC |
| Information of exkip skipping event in TCGA. |
| Exon skip ID | chr | Exons involved in exon skipping | Skipped exon | ENSG | ENSTs |
| exon_skip_433196 | 4 | 177608974:177609081:177632652:177632804:177648931:177649001 | 177632652:177632804 | ENSG00000150630.2 | ENST00000280193.2 |
| exon_skip_433204 | 4 | 177632652:177632804:177648931:177649122:177650686:177650746 | 177648931:177649122 | ENSG00000150630.2 | ENST00000507638.1,ENST00000280193.2 |
| PSI values of skipped exons in TCGA. |
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Exon skipping events with PSIs in GTEx for VEGFC |
| Information of exkip skipping event in GTEx |
| Exon skip ID | chr | Exons involved in exon skipping | Skipped exon | ENSG | ENSTs |
| exon_skip_433196 | 4 | 177608974:177609081:177632652:177632804:177648931:177649001 | 177632652:177632804 | ENSG00000150630.2 | ENST00000280193.2 |
| exon_skip_433204 | 4 | 177632652:177632804:177648931:177649122:177650686:177650746 | 177648931:177649122 | ENSG00000150630.2 | ENST00000280193.2,ENST00000507638.1 |
| PSI values of skipped exons in GTEx. |
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| * Skipped exon sequences. |
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Open reading frame (ORF) annotation in the exon skipping event for VEGFC |
| Open reading frame (ORF) of individual exon skipping events in TCGA 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 GTEx based on the Ensembl gene structure combined from isoforms. |
| ENST | Start of skipped exon | End of skipped exon | ORF |
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Infer the effects of exon skipping event on protein functional features for VEGFC |
| Exon skipping at the protein sequence level and followed lost functional features. * Click on the image to enlarge it in a new window. |
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| Loci of skipped exons in TCGA 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 GTEx 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 TCGA. |
| 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 GTEx. |
| 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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SNVs in the skipped exons for VEGFC |
| - Lollipop plot for presenting exon skipping associated SNVs. * Click on the image to enlarge it in a new window. |
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| - Differential PSIs between mutated versus non-mutated samples. |
| - Non-synonymous mutations located in the skipped exons in TCGA. |
| Cancer type | Sample | ESID | Skipped exon start | Skipped exon end | Mutation start | Mutation end | Mutation type | Reference seq | Mutation seq | AAchange |
| ESCA | TCGA-L5-A43J-01 | exon_skip_433196 | 177632653 | 177632804 | 177632776 | 177632777 | Frame_Shift_Ins | - | GA | p.Q194fs |
| ESCA | TCGA-L5-A43J-01 | exon_skip_433196 | 177632653 | 177632804 | 177632776 | 177632777 | Frame_Shift_Ins | - | GA | p.R194fs |
| UCEC | TCGA-AP-A0LM-01 | exon_skip_433196 | 177632653 | 177632804 | 177632699 | 177632699 | Nonsense_Mutation | G | A | p.Q220* |
| KIRC | TCGA-B8-A54D-01 | exon_skip_433196 | 177632653 | 177632804 | 177632651 | 177632651 | Splice_Site | A | C | . |
| HNSC | TCGA-CV-7245-01 | exon_skip_433204 | 177648932 | 177649122 | 177649124 | 177649124 | Splice_Site | T | A | p.S121_splice |
| - Depth of coverage in the three exons composing exon skipping event |
| Depth of coverage in three exons | Mutation description |
| - 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 |
| SNU175_LARGE_INTESTINE | 177632653 | 177632804 | 177632669 | 177632669 | Missense_Mutation | G | A | p.P230S |
| A4FUK_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 177632653 | 177632804 | 177632675 | 177632675 | Missense_Mutation | A | G | p.S228P |
| NCIH2170_LUNG | 177632653 | 177632804 | 177632675 | 177632675 | Missense_Mutation | A | G | p.S228P |
| NCIH460_LUNG | 177632653 | 177632804 | 177632675 | 177632675 | Missense_Mutation | A | G | p.S228P |
| NCIH520_LUNG | 177632653 | 177632804 | 177632675 | 177632675 | Missense_Mutation | A | G | p.S228P |
| SNU175_LARGE_INTESTINE | 177632653 | 177632804 | 177632678 | 177632678 | Missense_Mutation | G | A | p.R227C |
| KYAE1_OESOPHAGUS | 177632653 | 177632804 | 177632687 | 177632687 | Missense_Mutation | T | G | p.I224L |
| EMCBAC1_LUNG | 177632653 | 177632804 | 177632756 | 177632756 | Missense_Mutation | T | C | p.I201V |
| GCT_SOFT_TISSUE | 177648932 | 177649122 | 177648954 | 177648954 | Missense_Mutation | C | T | p.S177N |
| NCIH358_LUNG | 177648932 | 177649122 | 177648976 | 177648976 | Missense_Mutation | C | T | p.G170R |
| CP66MEL_SKIN | 177648932 | 177649122 | 177649021 | 177649021 | Missense_Mutation | G | A | p.P155S |
| HEC251_ENDOMETRIUM | 177648932 | 177649122 | 177649031 | 177649031 | Missense_Mutation | G | T | p.F151L |
| SNU81_LARGE_INTESTINE | 177648932 | 177649122 | 177649031 | 177649031 | Missense_Mutation | G | T | p.F151L |
| DAUDI_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 177648932 | 177649122 | 177649046 | 177649047 | Missense_Mutation | GA | TG | p.V146A |
| BICR18_UPPER_AERODIGESTIVE_TRACT | 177648932 | 177649122 | 177649046 | 177649047 | Missense_Mutation | GA | TG | p.V146A |
| BICR18_UPPER_AERODIGESTIVE_TRACT | 177648932 | 177649122 | 177649047 | 177649047 | Missense_Mutation | A | G | p.V146A |
| NCIH1770_LUNG | 177648932 | 177649122 | 177649057 | 177649057 | Missense_Mutation | C | T | p.E143K |
| NCIH2106_LUNG | 177648932 | 177649122 | 177649057 | 177649057 | Missense_Mutation | C | T | p.E143K |
| HEC6_ENDOMETRIUM | 177648932 | 177649122 | 177649066 | 177649066 | Missense_Mutation | C | T | p.V140M |
| SNU1040_LARGE_INTESTINE | 177648932 | 177649122 | 177649088 | 177649088 | Missense_Mutation | C | T | p.M132I |
| KATOIII_STOMACH | 177648932 | 177649122 | 177648933 | 177648933 | Splice_Site | G | A | p.T184M |
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Splicing Quantitative Trait Loci (sQTL) in the exon skipping event for VEGFC |
| sQTL information located at the skipped exons. |
| Exon skip ID | Chromosome | Three exons | Skippped exon | ENST | Cancer type | SNP id | Location | DNA change (ref/var) | P-value |
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Splicing Quantitative Trait Methylation (sQTM) in the skipped exon for VEGFC |
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Survival analysis of Splicing Quantitative Trait Methylation (sQTM) in the skipped exon for VEGFC |
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RelatedDrugs for VEGFC |
| Approved drugs targeting this gene. (DrugBank Version 5.1.0 2018-04-02) |
| Gene | UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
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RelatedDiseases for VEGFC |
| Diseases associated with this gene. (DisGeNet 4.0) |
| Gene | Disease ID | Disease name | # pubmeds | Source |
| VEGFC | C1458155 | Mammary Neoplasms | 2 | CTD_human |
| VEGFC | C0018923 | Hemangiosarcoma | 1 | CTD_human |
| VEGFC | C0025202 | melanoma | 1 | CTD_human |
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