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Fusion gene ID: 35608 |
FusionGeneSummary for SPCS3_VEGFC |
 Fusion gene summary |
| Fusion gene information | Fusion gene name: SPCS3_VEGFC | Fusion gene ID: 35608 | Hgene | Tgene | Gene symbol | SPCS3 | VEGFC | Gene ID | 60559 | 7424 |
| Gene name | signal peptidase complex subunit 3 | vascular endothelial growth factor C | |
| Synonyms | PRO3567|SPC22/23|SPC3|YLR066W | Flt4-L|LMPH1D|VRP | |
| Cytomap | 4q34.2 | 4q34.3 | |
| Type of gene | protein-coding | protein-coding | |
| Description | signal peptidase complex subunit 3SPase 22 kDa subunitSPase 22/23 kDa subunitmicrosomal signal peptidase 22/23 kDa subunitmicrosomal signal peptidase 23 kDa subunitsignal peptidase complex subunit 3 homolog | vascular endothelial growth factor CFLT4 ligand DHMvascular endothelial growth factor-related protein | |
| Modification date | 20180523 | 20180527 | |
| UniProtAcc | P61009 | P49767 | |
| Ensembl transtripts involved in fusion gene | ENST00000503362, ENST00000507001, | ENST00000280193, ENST00000507638, | |
| Fusion gene scores | * DoF score | 3 X 3 X 3=27 | 3 X 2 X 3=18 |
| # samples | 3 | 3 | |
| ** MAII score | log2(3/27*10)=0.15200309344505 effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs). DoF>8 and MAII>0 | log2(3/18*10)=0.736965594166206 effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs). DoF>8 and MAII>0 | |
| Context | PubMed: SPCS3 [Title/Abstract] AND VEGFC [Title/Abstract] AND fusion [Title/Abstract] | ||
| Functional or gene categories assigned by FusionGDB annotation | |||
| * DoF score (Degree of Frequency) = # partners X # break points X # cancer types ** MAII score (Major Active Isofusion Index) = log2(# samples/DoF score*10) |
| Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
| Partner | Gene | GO ID | GO term | PubMed ID |
| Hgene | SPCS3 | GO:0006508 | proteolysis | 27499293 |
| Tgene | VEGFC | GO:0048010 | vascular endothelial growth factor receptor signaling pathway | 23878260 |
| Tgene | VEGFC | GO:0050930 | induction of positive chemotaxis | 19275959 |
| Tgene | VEGFC | GO:0060754 | positive regulation of mast cell chemotaxis | 19275959 |
| Fusion gene information from three resources (ChiTars (NAR, 2018), tumorfusions (NAR, 2018), Gao et al. (Cell, 2018)) * All genome coordinats were lifted-over on hg19. * Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser. |
| Data type | Source | Cancer type | Sample | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand |
| TCGA | LD | UCEC | TCGA-KP-A3W3-01A | SPCS3 | chr4 | 177241370 | + | VEGFC | chr4 | 177650900 | - |
| * LD: Li Ding group's fusion gene list RV: Roel Verhaak group's fusion gene list ChiTaRs fusion database |
| Open reading frame (ORF) analsis of fusion genes based on Ensembl gene isoform structure. * Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser. |
| ORF | Henst | Tenst | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand |
| Frame-shift | ENST00000503362 | ENST00000280193 | SPCS3 | chr4 | 177241370 | + | VEGFC | chr4 | 177650900 | - |
| 5CDS-intron | ENST00000503362 | ENST00000507638 | SPCS3 | chr4 | 177241370 | + | VEGFC | chr4 | 177650900 | - |
| intron-3CDS | ENST00000507001 | ENST00000280193 | SPCS3 | chr4 | 177241370 | + | VEGFC | chr4 | 177650900 | - |
| intron-intron | ENST00000507001 | ENST00000507638 | SPCS3 | chr4 | 177241370 | + | VEGFC | chr4 | 177650900 | - |
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FusionProtFeatures for SPCS3_VEGFC |
| Main function of each fusion partner protein. (from UniProt) |
| Hgene | Tgene |
| SPCS3 | VEGFC |
| Component of the microsomal signal peptidase complexwhich removes signal peptides and other N-terminal peptides fromnascent proteins as they are translocated into the lumen of theendoplasmic reticulum. {ECO:0000269|PubMed:27499293}. | Growth factor active in angiogenesis, and endothelialcell growth, stimulating their proliferation and migration andalso has effects on the permeability of blood vessels. Mayfunction in angiogenesis of the venous and lymphatic vascularsystems during embryogenesis, and also in the maintenance ofdifferentiated lymphatic endothelium in adults. Binds andactivates KDR/VEGFR2 and FLT4/VEGFR3 receptors.{ECO:0000269|PubMed:20145116}. |
| Retention analysis result of each fusion partner protein across 39 protein features of UniProt such as six molecule processing features, 13 region features, four site features, six amino acid modification features, two natural variation features, five experimental info features, and 3 secondary structure features. Here, because of limited space for viewing, we only show the protein feature retention information belong to the 13 regional features. All retention annotation result can be downloaded at . * Minus value of BPloci means that the break pointn is located before the CDS. |
| - In-frame and retained protein feature among the 13 regional features. |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Protein feature | Protein feature note |
| - In-frame and not-retained protein feature among the 13 regional features. |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Protein feature | Protein feature note |
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FusionGeneSequence for SPCS3_VEGFC |
| For in-frame fusion transcripts, we provide the fusion transcript sequences and fusion amino acid sequences. (nt: nucleotides, aa: amino acids) |
| * Fusion amino acid sequences. |
| * Fusion transcript sequences (only coding sequence (CDS) region). |
| * Fusion transcript sequences (Full-length transcript). |
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FusionGenePPI for SPCS3_VEGFC |
| Go to ChiPPI (Chimeric Protein-Protein interactions) to see the chimeric PPI interaction in . |
| Protein-protein interactors with each fusion partner protein in wild-type (BIOGRID-3.4.160) |
| Hgene | Hgene's interactors | Tgene | Tgene's interactors |
| SPCS3 | FBXO6, TCTN2, TCTN3, EVC2, TCTN1, TMEM17, TMEM216, TMEM67, MCM2, SEC11C, PTPRO, TRIM25 | VEGFC | FLT4, VEGFC |
| - Retained PPIs in in-frame fusion. |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Still interaction with |
| - Lost PPIs in in-frame fusion. |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Interaction lost with |
| - Retained PPIs, but lost function due to frame-shift fusion. |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Interaction lost with |
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RelatedDrugs for SPCS3_VEGFC |
| Drugs targeting genes involved in this fusion gene. (DrugBank Version 5.1.0 2018-04-02) |
| Partner | Gene | UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
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RelatedDiseases for SPCS3_VEGFC |
| Diseases associated with fusion partners. (DisGeNet 4.0) |
| Partner | Gene | Disease ID | Disease name | # pubmeds | Source |
| Tgene | VEGFC | C1458155 | Mammary Neoplasms | 2 | CTD_human |
| Tgene | VEGFC | C0018923 | Hemangiosarcoma | 1 | CTD_human |
| Tgene | VEGFC | C0025202 | melanoma | 1 | CTD_human |
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