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Center for Computational Systems Medicine level2
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Fusion Gene Summary

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Fusion Gene Sample Information

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Fusion ORF Analysis

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Fusion Amino Acid Sequences

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Fusion Protein Functional Features

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Fusion Protein Structure

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pLDDT scores

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Ramachandran Plot of Fusion Protein Structure

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Fusion Protein-Protein Interaction

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Related drugs with this fusion protein

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Related disease with this fusion protein

Fusion Protein:VCL-FGFR2

Fusion Protein Summary

check button Fusion gene summary
Fusion partner gene informationFusion gene name: VCL-FGFR2
FusionPDB ID: 97976
FusionGDB2.0 ID: 97976
HgeneTgene
Gene symbol

VCL

FGFR2

Gene ID

7414

2263

Gene namevinculinfibroblast growth factor receptor 2
SynonymsCMD1W|CMH15|HEL114|MV|MVCLBBDS|BEK|BFR-1|CD332|CEK3|CFD1|ECT1|JWS|K-SAM|KGFR|TK14|TK25
Cytomap

10q22.2

10q26.13

Type of geneprotein-codingprotein-coding
Descriptionvinculinepididymis luminal protein 114epididymis secretory sperm binding proteinmeta-vinculinmetavinculinfibroblast growth factor receptor 2BEK fibroblast growth factor receptorbacteria-expressed kinasekeratinocyte growth factor receptorprotein tyrosine kinase, receptor like 14
Modification date2020032920200322
UniProtAcc

P18206

P21802

Ensembl transtripts involved in fusion geneENST idsENST00000478896, ENST00000211998, 
ENST00000372755, ENST00000417648, 
ENST00000369061, ENST00000346997, 
ENST00000351936, ENST00000356226, 
ENST00000357555, ENST00000358487, 
ENST00000359354, ENST00000360144, 
ENST00000369056, ENST00000369059, 
ENST00000369060, ENST00000457416, 
ENST00000478859, ENST00000490349, 
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)* DoF score16 X 16 X 13=332811 X 11 X 8=968
# samples 3816
** MAII scorelog2(38/3328*10)=-3.13058410981014
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(16/968*10)=-2.59693514238723
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context (manual curation of fusion genes in FusionPDB)

PubMed: VCL [Title/Abstract] AND FGFR2 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)VCL(75758133)-FGFR2(123239535), # samples:5
Anticipated loss of major functional domain due to fusion event.VCL-FGFR2 seems lost the major protein functional domain in Hgene partner, which is a CGC by not retaining the major functional domain in the partially deleted in-frame ORF.
VCL-FGFR2 seems lost the major protein functional domain in Hgene partner, which is a CGC by not retaining the major functional domain in the partially deleted in-frame ORF.
VCL-FGFR2 seems lost the major protein functional domain in Hgene partner, which is a essential gene by not retaining the major functional domain in the partially deleted in-frame ORF.
VCL-FGFR2 seems lost the major protein functional domain in Hgene partner, which is a essential gene by not retaining the major functional domain in the partially deleted in-frame ORF.
* DoF score (Degree of Frequency) = # partners X # break points X # cancer types
** MAII score (Major Active Isofusion Index) = log2(# samples/DoF score*10)

check button Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez
PartnerGeneGO IDGO termPubMed ID
HgeneVCL

GO:1903140

regulation of establishment of endothelial barrier

26923917

TgeneFGFR2

GO:0008284

positive regulation of cell proliferation

8663044

TgeneFGFR2

GO:0008543

fibroblast growth factor receptor signaling pathway

8663044|15629145

TgeneFGFR2

GO:0018108

peptidyl-tyrosine phosphorylation

15629145|16844695

TgeneFGFR2

GO:0046777

protein autophosphorylation

15629145


check buttonFusion gene breakpoints across VCL (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure

check buttonFusion gene breakpoints across FGFR2 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure


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Fusion Gene Sample Information

check buttonFusion gene information from FusionGDB2.0.
check button Fusion gene information from two resources (ChiTars 5.0 and ChimerDB 4.0)
* 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.
SourceDiseaseSampleHgeneHchrHbpHstrandTgeneTchrTbpTstrand
ChimerDB4THCATCGA-EM-A3FP-01AVCLchr10

75758133

-FGFR2chr10

123239535

-
ChimerDB4THCATCGA-EM-A3FP-01AVCLchr10

75758133

+FGFR2chr10

123239535

-
ChimerDB4THCATCGA-EM-A3FPVCLchr10

75758133

+FGFR2chr10

123239535

-


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Fusion ORF Analysis


check buttonFusion information from ORFfinder translation from full-length transcript sequence from FusionPDB.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandSeq length
(transcript)		BP loci
(transcript)		Predicted start
(transcript)		Predicted stop
(transcript)		Seq length
(amino acids)
ENST00000211998VCLchr1075758133+ENST00000369061FGFR2chr10123239535-19502627426139
ENST00000372755VCLchr1075758133+ENST00000369061FGFR2chr10123239535-19502627426139
ENST00000417648VCLchr1075758133+ENST00000369061FGFR2chr10123239535-19482605424139

check buttonDeepORF prediction of the coding potential based on the fusion transcript sequence of in-frame fusion genes. DeepORF is a coding potential classifier based on convolutional neural network by comparing the real Ribo-seq data. If the no-coding score < 0.5 and coding score > 0.5, then the in-frame fusion transcript is predicted as being likely translated.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandNo-coding scoreCoding score
ENST00000211998ENST00000369061VCLchr1075758133+FGFR2chr10123239535-0.0986090.901391
ENST00000372755ENST00000369061VCLchr1075758133+FGFR2chr10123239535-0.0986090.901391
ENST00000417648ENST00000369061VCLchr1075758133+FGFR2chr10123239535-0.0667073950.9332927

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Fusion Amino Acid Sequences


check button For individual full-length fusion transcript sequence from FusionPDB, we ran ORFfinder and chose the longest ORF among the all predicted ones.
>FusionGDB ID_FusionGDB isoform ID_FGname_Hgene_Hchr_Hbp_Henst_Tgene_Tchr_Tbp_Tenst_length(fusion AA) seq_BP

>97976_97976_1_VCL-FGFR2_VCL_chr10_75758133_ENST00000211998_FGFR2_chr10_123239535_ENST00000369061_length(amino acids)=139AA_BP=85
MHSLSLRRFPAPWILLLCRPRFAAPLAAAMPVFHTRTIESILEPVAQQISHLVIMHEEGEVDGKAIPDLTAPVAAVQAAVSNLVREYLDL

--------------------------------------------------------------

>97976_97976_2_VCL-FGFR2_VCL_chr10_75758133_ENST00000372755_FGFR2_chr10_123239535_ENST00000369061_length(amino acids)=139AA_BP=85
MHSLSLRRFPAPWILLLCRPRFAAPLAAAMPVFHTRTIESILEPVAQQISHLVIMHEEGEVDGKAIPDLTAPVAAVQAAVSNLVREYLDL

--------------------------------------------------------------

>97976_97976_3_VCL-FGFR2_VCL_chr10_75758133_ENST00000417648_FGFR2_chr10_123239535_ENST00000369061_length(amino acids)=139AA_BP=85
MHSLSLRRFPAPWILLLCRPRFAAPLAAAMPVFHTRTIESILEPVAQQISHLVIMHEEGEVDGKAIPDLTAPVAAVQAAVSNLVREYLDL

--------------------------------------------------------------

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Fusion Protein Functional Features


check button Four levels of functional features of fusion genes
Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/chr10:75758133/chr10:123239535)
- FGviewer provides the online visualization of the retention search of the protein functional features across DNA, RNA, protein, and pathological levels.
- How to search
1. Put your fusion gene symbol.
2. Press the tab key until there will be shown the breakpoint information filled.
4. Go down and press 'Search' tab twice.
4. Go down to have the hyperlink of the search result.
5. Click the hyperlink.
6. See the FGviewer result for your fusion gene.
FGviewer

check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
VCL

P18206

FGFR2

P21802

FUNCTION: Actin filament (F-actin)-binding protein involved in cell-matrix adhesion and cell-cell adhesion. Regulates cell-surface E-cadherin expression and potentiates mechanosensing by the E-cadherin complex. May also play important roles in cell morphology and locomotion. {ECO:0000269|PubMed:20484056}.FUNCTION: Tyrosine-protein kinase that acts as cell-surface receptor for fibroblast growth factors and plays an essential role in the regulation of cell proliferation, differentiation, migration and apoptosis, and in the regulation of embryonic development. Required for normal embryonic patterning, trophoblast function, limb bud development, lung morphogenesis, osteogenesis and skin development. Plays an essential role in the regulation of osteoblast differentiation, proliferation and apoptosis, and is required for normal skeleton development. Promotes cell proliferation in keratinocytes and immature osteoblasts, but promotes apoptosis in differentiated osteoblasts. Phosphorylates PLCG1, FRS2 and PAK4. Ligand binding leads to the activation of several signaling cascades. Activation of PLCG1 leads to the production of the cellular signaling molecules diacylglycerol and inositol 1,4,5-trisphosphate. Phosphorylation of FRS2 triggers recruitment of GRB2, GAB1, PIK3R1 and SOS1, and mediates activation of RAS, MAPK1/ERK2, MAPK3/ERK1 and the MAP kinase signaling pathway, as well as of the AKT1 signaling pathway. FGFR2 signaling is down-regulated by ubiquitination, internalization and degradation. Mutations that lead to constitutive kinase activation or impair normal FGFR2 maturation, internalization and degradation lead to aberrant signaling. Over-expressed FGFR2 promotes activation of STAT1. {ECO:0000269|PubMed:12529371, ECO:0000269|PubMed:15190072, ECO:0000269|PubMed:15629145, ECO:0000269|PubMed:16384934, ECO:0000269|PubMed:16597617, ECO:0000269|PubMed:17311277, ECO:0000269|PubMed:17623664, ECO:0000269|PubMed:18374639, ECO:0000269|PubMed:19103595, ECO:0000269|PubMed:19387476, ECO:0000269|PubMed:19410646, ECO:0000269|PubMed:21596750, ECO:0000269|PubMed:8663044}.

check buttonRetention 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

download page

* Minus value of BPloci means that the break pointn is located before the CDS.
- Retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
TgeneFGFR2chr10:75758133chr10:123239535ENST00000351936018154_2470786.0DomainNote=Ig-like C2-type 2
TgeneFGFR2chr10:75758133chr10:123239535ENST00000351936018256_3580786.0DomainNote=Ig-like C2-type 3
TgeneFGFR2chr10:75758133chr10:123239535ENST0000035193601825_1250786.0DomainNote=Ig-like C2-type 1
TgeneFGFR2chr10:75758133chr10:123239535ENST00000351936018481_7700786.0DomainProtein kinase
TgeneFGFR2chr10:75758133chr10:123239535ENST00000357555017154_2470708.0DomainNote=Ig-like C2-type 2
TgeneFGFR2chr10:75758133chr10:123239535ENST00000357555017256_3580708.0DomainNote=Ig-like C2-type 3
TgeneFGFR2chr10:75758133chr10:123239535ENST0000035755501725_1250708.0DomainNote=Ig-like C2-type 1
TgeneFGFR2chr10:75758133chr10:123239535ENST00000357555017481_7700708.0DomainProtein kinase
TgeneFGFR2chr10:75758133chr10:123239535ENST0000035935407154_2470255.0DomainNote=Ig-like C2-type 2
TgeneFGFR2chr10:75758133chr10:123239535ENST0000035935407256_3580255.0DomainNote=Ig-like C2-type 3
TgeneFGFR2chr10:75758133chr10:123239535ENST000003593540725_1250255.0DomainNote=Ig-like C2-type 1
TgeneFGFR2chr10:75758133chr10:123239535ENST0000035935407481_7700255.0DomainProtein kinase
TgeneFGFR2chr10:75758133chr10:123239535ENST00000360144017154_2470681.0DomainNote=Ig-like C2-type 2
TgeneFGFR2chr10:75758133chr10:123239535ENST00000360144017256_3580681.0DomainNote=Ig-like C2-type 3
TgeneFGFR2chr10:75758133chr10:123239535ENST0000036014401725_1250681.0DomainNote=Ig-like C2-type 1
TgeneFGFR2chr10:75758133chr10:123239535ENST00000360144017481_7700681.0DomainProtein kinase
TgeneFGFR2chr10:75758133chr10:123239535ENST00000369056017154_2470770.0DomainNote=Ig-like C2-type 2
TgeneFGFR2chr10:75758133chr10:123239535ENST00000369056017256_3580770.0DomainNote=Ig-like C2-type 3
TgeneFGFR2chr10:75758133chr10:123239535ENST0000036905601725_1250770.0DomainNote=Ig-like C2-type 1
TgeneFGFR2chr10:75758133chr10:123239535ENST00000369056017481_7700770.0DomainProtein kinase
TgeneFGFR2chr10:75758133chr10:123239535ENST00000351936018487_4950786.0Nucleotide bindingATP
TgeneFGFR2chr10:75758133chr10:123239535ENST00000351936018565_5670786.0Nucleotide bindingATP
TgeneFGFR2chr10:75758133chr10:123239535ENST00000357555017487_4950708.0Nucleotide bindingATP
TgeneFGFR2chr10:75758133chr10:123239535ENST00000357555017565_5670708.0Nucleotide bindingATP
TgeneFGFR2chr10:75758133chr10:123239535ENST0000035935407487_4950255.0Nucleotide bindingATP
TgeneFGFR2chr10:75758133chr10:123239535ENST0000035935407565_5670255.0Nucleotide bindingATP
TgeneFGFR2chr10:75758133chr10:123239535ENST00000360144017487_4950681.0Nucleotide bindingATP
TgeneFGFR2chr10:75758133chr10:123239535ENST00000360144017565_5670681.0Nucleotide bindingATP
TgeneFGFR2chr10:75758133chr10:123239535ENST00000369056017487_4950770.0Nucleotide bindingATP
TgeneFGFR2chr10:75758133chr10:123239535ENST00000369056017565_5670770.0Nucleotide bindingATP
TgeneFGFR2chr10:75758133chr10:123239535ENST00000351936018161_1780786.0RegionNote=Heparin-binding
TgeneFGFR2chr10:75758133chr10:123239535ENST00000357555017161_1780708.0RegionNote=Heparin-binding
TgeneFGFR2chr10:75758133chr10:123239535ENST0000035935407161_1780255.0RegionNote=Heparin-binding
TgeneFGFR2chr10:75758133chr10:123239535ENST00000360144017161_1780681.0RegionNote=Heparin-binding
TgeneFGFR2chr10:75758133chr10:123239535ENST00000369056017161_1780770.0RegionNote=Heparin-binding
TgeneFGFR2chr10:75758133chr10:123239535ENST0000035193601822_3770786.0Topological domainExtracellular
TgeneFGFR2chr10:75758133chr10:123239535ENST00000351936018399_8210786.0Topological domainCytoplasmic
TgeneFGFR2chr10:75758133chr10:123239535ENST0000035755501722_3770708.0Topological domainExtracellular
TgeneFGFR2chr10:75758133chr10:123239535ENST00000357555017399_8210708.0Topological domainCytoplasmic
TgeneFGFR2chr10:75758133chr10:123239535ENST000003593540722_3770255.0Topological domainExtracellular
TgeneFGFR2chr10:75758133chr10:123239535ENST0000035935407399_8210255.0Topological domainCytoplasmic
TgeneFGFR2chr10:75758133chr10:123239535ENST0000036014401722_3770681.0Topological domainExtracellular
TgeneFGFR2chr10:75758133chr10:123239535ENST00000360144017399_8210681.0Topological domainCytoplasmic
TgeneFGFR2chr10:75758133chr10:123239535ENST0000036905601722_3770770.0Topological domainExtracellular
TgeneFGFR2chr10:75758133chr10:123239535ENST00000369056017399_8210770.0Topological domainCytoplasmic
TgeneFGFR2chr10:75758133chr10:123239535ENST00000351936018378_3980786.0TransmembraneHelical
TgeneFGFR2chr10:75758133chr10:123239535ENST00000357555017378_3980708.0TransmembraneHelical
TgeneFGFR2chr10:75758133chr10:123239535ENST0000035935407378_3980255.0TransmembraneHelical
TgeneFGFR2chr10:75758133chr10:123239535ENST00000360144017378_3980681.0TransmembraneHelical
TgeneFGFR2chr10:75758133chr10:123239535ENST00000369056017378_3980770.0TransmembraneHelical

- Not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneVCLchr10:75758133chr10:123239535ENST00000211998+122837_87856.01135.0Compositional biasPro-rich
HgeneVCLchr10:75758133chr10:123239535ENST00000372755+121837_87856.01067.0Compositional biasPro-rich
HgeneVCLchr10:75758133chr10:123239535ENST00000211998+1221003_104656.01135.0RegionFacilitates phospholipid membrane insertion
HgeneVCLchr10:75758133chr10:123239535ENST00000211998+1221120_113456.01135.0RegionFacilitates phospholipid membrane insertion
HgeneVCLchr10:75758133chr10:123239535ENST00000211998+1221_83556.01135.0RegionN-terminal globular head
HgeneVCLchr10:75758133chr10:123239535ENST00000211998+122259_58956.01135.0Region3 X 112 AA tandem repeats
HgeneVCLchr10:75758133chr10:123239535ENST00000211998+122836_87856.01135.0RegionLinker (Pro-rich)
HgeneVCLchr10:75758133chr10:123239535ENST00000211998+122879_113456.01135.0RegionC-terminal tail
HgeneVCLchr10:75758133chr10:123239535ENST00000372755+1211003_104656.01067.0RegionFacilitates phospholipid membrane insertion
HgeneVCLchr10:75758133chr10:123239535ENST00000372755+1211120_113456.01067.0RegionFacilitates phospholipid membrane insertion
HgeneVCLchr10:75758133chr10:123239535ENST00000372755+1211_83556.01067.0RegionN-terminal globular head
HgeneVCLchr10:75758133chr10:123239535ENST00000372755+121259_58956.01067.0Region3 X 112 AA tandem repeats
HgeneVCLchr10:75758133chr10:123239535ENST00000372755+121836_87856.01067.0RegionLinker (Pro-rich)
HgeneVCLchr10:75758133chr10:123239535ENST00000372755+121879_113456.01067.0RegionC-terminal tail
HgeneVCLchr10:75758133chr10:123239535ENST00000211998+122259_36956.01135.0Repeat1
HgeneVCLchr10:75758133chr10:123239535ENST00000211998+122370_47956.01135.0Repeat2
HgeneVCLchr10:75758133chr10:123239535ENST00000211998+122480_58956.01135.0Repeat3
HgeneVCLchr10:75758133chr10:123239535ENST00000372755+121259_36956.01067.0Repeat1
HgeneVCLchr10:75758133chr10:123239535ENST00000372755+121370_47956.01067.0Repeat2
HgeneVCLchr10:75758133chr10:123239535ENST00000372755+121480_58956.01067.0Repeat3
TgeneFGFR2chr10:75758133chr10:123239535ENST000003469971517154_247765.0820.0DomainNote=Ig-like C2-type 2
TgeneFGFR2chr10:75758133chr10:123239535ENST000003469971517256_358765.0820.0DomainNote=Ig-like C2-type 3
TgeneFGFR2chr10:75758133chr10:123239535ENST00000346997151725_125765.0820.0DomainNote=Ig-like C2-type 1
TgeneFGFR2chr10:75758133chr10:123239535ENST000003469971517481_770765.0820.0DomainProtein kinase
TgeneFGFR2chr10:75758133chr10:123239535ENST000003562261416154_247650.0705.0DomainNote=Ig-like C2-type 2
TgeneFGFR2chr10:75758133chr10:123239535ENST000003562261416256_358650.0705.0DomainNote=Ig-like C2-type 3
TgeneFGFR2chr10:75758133chr10:123239535ENST00000356226141625_125650.0705.0DomainNote=Ig-like C2-type 1
TgeneFGFR2chr10:75758133chr10:123239535ENST000003562261416481_770650.0705.0DomainProtein kinase
TgeneFGFR2chr10:75758133chr10:123239535ENST000003584871618154_247767.0822.0DomainNote=Ig-like C2-type 2
TgeneFGFR2chr10:75758133chr10:123239535ENST000003584871618256_358767.0822.0DomainNote=Ig-like C2-type 3
TgeneFGFR2chr10:75758133chr10:123239535ENST00000358487161825_125767.0822.0DomainNote=Ig-like C2-type 1
TgeneFGFR2chr10:75758133chr10:123239535ENST000003584871618481_770767.0822.0DomainProtein kinase
TgeneFGFR2chr10:75758133chr10:123239535ENST000003690601416154_247651.0706.0DomainNote=Ig-like C2-type 2
TgeneFGFR2chr10:75758133chr10:123239535ENST000003690601416256_358651.0706.0DomainNote=Ig-like C2-type 3
TgeneFGFR2chr10:75758133chr10:123239535ENST00000369060141625_125651.0706.0DomainNote=Ig-like C2-type 1
TgeneFGFR2chr10:75758133chr10:123239535ENST000003690601416481_770651.0706.0DomainProtein kinase
TgeneFGFR2chr10:75758133chr10:123239535ENST000003690611315154_247655.0710.0DomainNote=Ig-like C2-type 2
TgeneFGFR2chr10:75758133chr10:123239535ENST000003690611315256_358655.0710.0DomainNote=Ig-like C2-type 3
TgeneFGFR2chr10:75758133chr10:123239535ENST00000369061131525_125655.0710.0DomainNote=Ig-like C2-type 1
TgeneFGFR2chr10:75758133chr10:123239535ENST000003690611315481_770655.0710.0DomainProtein kinase
TgeneFGFR2chr10:75758133chr10:123239535ENST000004574161618154_247768.0823.0DomainNote=Ig-like C2-type 2
TgeneFGFR2chr10:75758133chr10:123239535ENST000004574161618256_358768.0823.0DomainNote=Ig-like C2-type 3
TgeneFGFR2chr10:75758133chr10:123239535ENST00000457416161825_125768.0823.0DomainNote=Ig-like C2-type 1
TgeneFGFR2chr10:75758133chr10:123239535ENST000004574161618481_770768.0823.0DomainProtein kinase
TgeneFGFR2chr10:75758133chr10:123239535ENST000003469971517487_495765.0820.0Nucleotide bindingATP
TgeneFGFR2chr10:75758133chr10:123239535ENST000003469971517565_567765.0820.0Nucleotide bindingATP
TgeneFGFR2chr10:75758133chr10:123239535ENST000003562261416487_495650.0705.0Nucleotide bindingATP
TgeneFGFR2chr10:75758133chr10:123239535ENST000003562261416565_567650.0705.0Nucleotide bindingATP
TgeneFGFR2chr10:75758133chr10:123239535ENST000003584871618487_495767.0822.0Nucleotide bindingATP
TgeneFGFR2chr10:75758133chr10:123239535ENST000003584871618565_567767.0822.0Nucleotide bindingATP
TgeneFGFR2chr10:75758133chr10:123239535ENST000003690601416487_495651.0706.0Nucleotide bindingATP
TgeneFGFR2chr10:75758133chr10:123239535ENST000003690601416565_567651.0706.0Nucleotide bindingATP
TgeneFGFR2chr10:75758133chr10:123239535ENST000003690611315487_495655.0710.0Nucleotide bindingATP
TgeneFGFR2chr10:75758133chr10:123239535ENST000003690611315565_567655.0710.0Nucleotide bindingATP
TgeneFGFR2chr10:75758133chr10:123239535ENST000004574161618487_495768.0823.0Nucleotide bindingATP
TgeneFGFR2chr10:75758133chr10:123239535ENST000004574161618565_567768.0823.0Nucleotide bindingATP
TgeneFGFR2chr10:75758133chr10:123239535ENST000003469971517161_178765.0820.0RegionNote=Heparin-binding
TgeneFGFR2chr10:75758133chr10:123239535ENST000003562261416161_178650.0705.0RegionNote=Heparin-binding
TgeneFGFR2chr10:75758133chr10:123239535ENST000003584871618161_178767.0822.0RegionNote=Heparin-binding
TgeneFGFR2chr10:75758133chr10:123239535ENST000003690601416161_178651.0706.0RegionNote=Heparin-binding
TgeneFGFR2chr10:75758133chr10:123239535ENST000003690611315161_178655.0710.0RegionNote=Heparin-binding
TgeneFGFR2chr10:75758133chr10:123239535ENST000004574161618161_178768.0823.0RegionNote=Heparin-binding
TgeneFGFR2chr10:75758133chr10:123239535ENST00000346997151722_377765.0820.0Topological domainExtracellular
TgeneFGFR2chr10:75758133chr10:123239535ENST000003469971517399_821765.0820.0Topological domainCytoplasmic
TgeneFGFR2chr10:75758133chr10:123239535ENST00000356226141622_377650.0705.0Topological domainExtracellular
TgeneFGFR2chr10:75758133chr10:123239535ENST000003562261416399_821650.0705.0Topological domainCytoplasmic
TgeneFGFR2chr10:75758133chr10:123239535ENST00000358487161822_377767.0822.0Topological domainExtracellular
TgeneFGFR2chr10:75758133chr10:123239535ENST000003584871618399_821767.0822.0Topological domainCytoplasmic
TgeneFGFR2chr10:75758133chr10:123239535ENST00000369060141622_377651.0706.0Topological domainExtracellular
TgeneFGFR2chr10:75758133chr10:123239535ENST000003690601416399_821651.0706.0Topological domainCytoplasmic
TgeneFGFR2chr10:75758133chr10:123239535ENST00000369061131522_377655.0710.0Topological domainExtracellular
TgeneFGFR2chr10:75758133chr10:123239535ENST000003690611315399_821655.0710.0Topological domainCytoplasmic
TgeneFGFR2chr10:75758133chr10:123239535ENST00000457416161822_377768.0823.0Topological domainExtracellular
TgeneFGFR2chr10:75758133chr10:123239535ENST000004574161618399_821768.0823.0Topological domainCytoplasmic
TgeneFGFR2chr10:75758133chr10:123239535ENST000003469971517378_398765.0820.0TransmembraneHelical
TgeneFGFR2chr10:75758133chr10:123239535ENST000003562261416378_398650.0705.0TransmembraneHelical
TgeneFGFR2chr10:75758133chr10:123239535ENST000003584871618378_398767.0822.0TransmembraneHelical
TgeneFGFR2chr10:75758133chr10:123239535ENST000003690601416378_398651.0706.0TransmembraneHelical
TgeneFGFR2chr10:75758133chr10:123239535ENST000003690611315378_398655.0710.0TransmembraneHelical
TgeneFGFR2chr10:75758133chr10:123239535ENST000004574161618378_398768.0823.0TransmembraneHelical


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Fusion Protein Structures

check button PDB and CIF files of the predicted fusion proteins
* Here we show the 3D structure of the fusion proteins using Mol*. AlphaFold produces a per-residue confidence score (pLDDT) between 0 and 100. Model confidence is shown from the pLDDT values per residue. pLDDT corresponds to the model’s prediction of its score on the local Distance Difference Test. It is a measure of local accuracy (from AlphfaFold website). To color code individual residues, we transformed individual PDB files into CIF format.
Fusion protein PDB link (fusion AA seq ID in FusionPDB)HgeneHchrHbpHstrandTgeneTchrTbpTstrandAA seqLen(AA seq)
PDB file >>>99_VCL_75758133_FGFR2_123239535_ranked_0.pdbVCL7575813375758133ENST00000369061FGFR2chr10123239535-
MHSLSLRRFPAPWILLLCRPRFAAPLAAAMPVFHTRTIESILEPVAQQISHLVIMHEEGEVDGKAIPDLTAPVAAVQAAVSNLVREYLDL
139


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pLDDT score distribution

check button pLDDT score distribution of the predicted wild-type structures of two partner proteins from AlphaFold2
* AlphaFold produces a per-residue confidence score (pLDDT) between 0 and 100.
VCL_pLDDT.png
all structure
all structure
FGFR2_pLDDT.png
all structure
all structure

check button pLDDT score distribution of the predicted fusion protein structures from AlphaFold2
* AlphaFold produces a per-residue confidence score (pLDDT) between 0 and 100.
all structure


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Ramachandran Plot of Fusion Protein Structure


check button Ramachandran plot of the torsional angles - phi (φ)and psi (ψ) - of the residues (amino acids) contained in this fusion protein peptide.
Fusion AA seq ID in FusionPDB and their Ramachandran plots

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Fusion Protein-Protein Interaction


check button Go to ChiPPI (Chimeric Protein-Protein interactions) to see the chimeric PPI interaction in

ChiPPI page.


check button Protein-protein interactors with each fusion partner protein in wild-type from validated records (BIOGRID-3.4.160)
GenePPI interactors
VCLABI2, C19orf57, TRIP6, CDH1, CTNNB1, PSME1, CORO2B, Raver1, TGFB1I1, NRAP, PXN, GSN, BCAR1, VASP, SORBS1, SORBS2, CTNNA1, CLTC, Cep350, DAG1, TUBA1A, SIRT7, CDK2, ITGB1, DNAJC5, TXNL1, SCAF4, URM1, ZC3HAV1L, SVIL, SSU72, SDHAF2, UBR1, VAPB, PGM5, USO1, ATP6V1A, UBA3, TPI1, UFC1, VCP, VCAM1, FN1, PRPF40A, ITGA4, ASNS, CTPS1, ECHS1, EIF5, FERMT2, GINS3, GSS, HSPA5, HSPA9, MSN, PDCD10, PDHA1, PDIA4, PPP1R2, PPP5C, RAP1GDS1, SFN, SNRPF, STK24, TUBB3, UBFD1, DCPS, ERP44, G6PD, GNAI3, ISOC1, PFAS, TBCB, XPO1, YWHAE, YWHAG, YWHAQ, YWHAZ, YWHAH, ASB7, VCL, TEKT1, UNK, PICALM, NTRK1, SELE, EWSR1, FBF1, LPXN, ACTG1, CAPZB, MYO1C, RPS27A, SPTAN1, TLN1, MKNK2, SEC16A, CDCA5, MPDZ, AP3M1, LIMA1, PPHLN1, RBM26, GKAP1, ASCC2, Ptpn13, TRIM15, PAK4, FOCAD, TTC21B, UBE2N, HSD17B10, TRIM25, BRCA1, CFTR, TRIM14, ESR2, AGR2, MYC, KDR, TP63, KIAA1429, ACTC1, ITGA5, CDH5, HDAC2, GBF1, DCAF15, NHLRC2, BICD2, DUSP28, GSK3B, BIRC3, NEBL, SORBS3, ENOX2, SAPCD2, PINK1, HCVgp1, LINC01554, CAV1, HIST1H1B, nsp14, BIRC6, POMP, CHMP4C, KIF14, PRC1, EGFR, LGALS9, PHIP, CUL4A, LRRC61, DDX58, CD274, ACTB, CLTA, NDC80, PFN1, ALMS1, C9orf72, CCP110, CEP192, CEP97, CLMN, CRYBG3, DNAJA2, DNMBP, EDC4, EPB41L5, FBXO30, HAUS1, HAUS3, HGS, KIAA1671, KIDINS220, LIMD1, LPP, MACF1, MKL1, N4BP2, NAV1, PEAK1, PPP2R3A, RC3H2, RUFY1, SMCR8, TANC1, TNKS1BP1, WNK1, ZFYVE16, ARFGAP2, BUB1B, C16orf70, CEP85, KIAA1524, CLASP1, CRMP1, DCP1B, DST, ENAH, FOXO1, GGA3, HAUS5, HAUS8, HNRNPCL1, KIF11, CASC5, NUBP2, NUP88, PASK, PLEKHA5, PTPN12, PTPN23, SH3GL1, SIPA1L2, SKA1, SPC24, SYNJ1, TJP1, TNRC6C, TTK, ZYX, HTRA4, NAA40, SNAP91, SLFN11, N, nsp11, nsp13, VSX1,


check button Protein-protein interactors based on sequence similarity (STRING)
GeneSTRING network
VCLall structure
FGFR2


check button - Retained interactions in fusion protein (protein functional feature from UniProt).
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenStill interaction with


check button - Lost interactions due to fusion (protein functional feature from UniProt).
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with
HgeneVCLchr10:75758133chr10:123239535ENST00000211998+122741_76456.01135.0ACTN4
HgeneVCLchr10:75758133chr10:123239535ENST00000372755+121741_76456.01067.0ACTN4


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Related Drugs to VCL-FGFR2


check button Drugs used for this fusion-positive patient.
(Manual curation of PubMed, 04-30-2022 + MyCancerGenome)
HgeneTgeneDrugSourcePMID

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Related Diseases to VCL-FGFR2


check button Diseases that have this fusion gene.
(Manual curation of PubMed, 04-30-2022 + MyCancerGenome)
HgeneTgeneDiseaseSourcePMID

check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneVCLC1969639Cardiomyopathy, Dilated, 1w5CTD_human;GENOMICS_ENGLAND;UNIPROT
HgeneVCLC2750459CARDIOMYOPATHY, FAMILIAL HYPERTROPHIC, 154CTD_human;GENOMICS_ENGLAND;UNIPROT
HgeneVCLC0007194Hypertrophic Cardiomyopathy3CLINGEN
HgeneVCLC0001787Osteoporosis, Age-Related1CTD_human
HgeneVCLC0029456Osteoporosis1CTD_human
HgeneVCLC0029459Osteoporosis, Senile1CTD_human
HgeneVCLC0340427Familial dilated cardiomyopathy1ORPHANET
HgeneVCLC0751406Post-Traumatic Osteoporosis1CTD_human
HgeneVCLC0948089Acute Coronary Syndrome1CTD_human
TgeneFGFR2C2931196Craniofacial dysostosis type 123CTD_human;GENOMICS_ENGLAND;UNIPROT
TgeneFGFR2C0220658Pfeiffer Syndrome21CTD_human;GENOMICS_ENGLAND;UNIPROT
TgeneFGFR2C0001193Apert syndrome19CTD_human;GENOMICS_ENGLAND;ORPHANET;UNIPROT
TgeneFGFR2C0795998JACKSON-WEISS SYNDROME10CTD_human;GENOMICS_ENGLAND;ORPHANET;UNIPROT
TgeneFGFR2C0175699Saethre-Chotzen Syndrome8CTD_human;GENOMICS_ENGLAND;ORPHANET
TgeneFGFR2C1852406Cutis Gyrata Syndrome of Beare And Stevenson8CTD_human;GENOMICS_ENGLAND;ORPHANET;UNIPROT
TgeneFGFR2C2936791Antley-Bixler Syndrome, Autosomal Dominant7CTD_human;GENOMICS_ENGLAND;ORPHANET;UNIPROT
TgeneFGFR2C1510455Acrocephalosyndactylia6CTD_human;ORPHANET
TgeneFGFR2C0265269Lacrimoauriculodentodigital syndrome5CTD_human;GENOMICS_ENGLAND;ORPHANET;UNIPROT
TgeneFGFR2C0010278Craniosynostosis4CTD_human;GENOMICS_ENGLAND
TgeneFGFR2C1863389Apert-Crouzon Disease4CTD_human
TgeneFGFR2C1865070SCAPHOCEPHALY, MAXILLARY RETRUSION, AND MENTAL RETARDATION4CTD_human;GENOMICS_ENGLAND;ORPHANET;UNIPROT
TgeneFGFR2C0006142Malignant neoplasm of breast3CTD_human;UNIPROT
TgeneFGFR2C0030044Acrocephaly3CTD_human
TgeneFGFR2C0036341Schizophrenia3PSYGENET
TgeneFGFR2C0221356Brachycephaly3CTD_human
TgeneFGFR2C0265534Scaphycephaly3CTD_human
TgeneFGFR2C0265535Trigonocephaly3CTD_human
TgeneFGFR2C0376634Craniofacial Abnormalities3CTD_human
TgeneFGFR2C0678222Breast Carcinoma3CTD_human
TgeneFGFR2C1257931Mammary Neoplasms, Human3CTD_human
TgeneFGFR2C1458155Mammary Neoplasms3CTD_human
TgeneFGFR2C1833340Synostotic Posterior Plagiocephaly3CTD_human
TgeneFGFR2C1860819Metopic synostosis3CTD_human
TgeneFGFR2C2931150Synostotic Anterior Plagiocephaly3CTD_human
TgeneFGFR2C3281247BENT BONE DYSPLASIA SYNDROME3CTD_human;GENOMICS_ENGLAND;ORPHANET;UNIPROT
TgeneFGFR2C4551902Craniosynostosis, Type 13CTD_human
TgeneFGFR2C4704874Mammary Carcinoma, Human3CTD_human
TgeneFGFR2C0008925Cleft Palate2CTD_human
TgeneFGFR2C0011570Mental Depression2PSYGENET
TgeneFGFR2C0011581Depressive disorder2PSYGENET
TgeneFGFR2C0024623Malignant neoplasm of stomach2CGI;CTD_human
TgeneFGFR2C0038356Stomach Neoplasms2CGI;CTD_human
TgeneFGFR2C1708349Hereditary Diffuse Gastric Cancer2CTD_human
TgeneFGFR2C1837218Cleft palate, isolated2CTD_human
TgeneFGFR2C0000772Multiple congenital anomalies1CTD_human
TgeneFGFR2C0003090Ankylosis1CTD_human
TgeneFGFR2C0005586Bipolar Disorder1PSYGENET
TgeneFGFR2C0008924Cleft upper lip1CTD_human
TgeneFGFR2C0010273Craniofacial Dysostosis1CTD_human
TgeneFGFR2C0011757Developmental Coordination Disorder1CTD_human
TgeneFGFR2C0014170Endometrial Neoplasms1CTD_human
TgeneFGFR2C0018553Hamartoma Syndrome, Multiple1CTD_human
TgeneFGFR2C0020796Profound Mental Retardation1CTD_human
TgeneFGFR2C0023890Liver Cirrhosis1CTD_human
TgeneFGFR2C0024121Lung Neoplasms1CTD_human
TgeneFGFR2C0025363Mental Retardation, Psychosocial1CTD_human
TgeneFGFR2C0026613Motor Skills Disorders1CTD_human
TgeneFGFR2C0033975Psychotic Disorders1PSYGENET
TgeneFGFR2C0037268Skin Abnormalities1CTD_human
TgeneFGFR2C0037274Dermatologic disorders1CTD_human
TgeneFGFR2C0038219Status Dysraphicus1CTD_human
TgeneFGFR2C0040427Tooth Abnormalities1CTD_human
TgeneFGFR2C0080178Spina Bifida1CTD_human
TgeneFGFR2C0152423Congenital small ears1GENOMICS_ENGLAND
TgeneFGFR2C0206698Cholangiocarcinoma1CTD_human
TgeneFGFR2C0206762Limb Deformities, Congenital1CTD_human
TgeneFGFR2C0239946Fibrosis, Liver1CTD_human
TgeneFGFR2C0242379Malignant neoplasm of lung1CTD_human
TgeneFGFR2C0265326Bannayan-Riley-Ruvalcaba Syndrome1CTD_human
TgeneFGFR2C0266508Rachischisis1CTD_human
TgeneFGFR2C0345905Intrahepatic Cholangiocarcinoma1CTD_human
TgeneFGFR2C0349204Nonorganic psychosis1PSYGENET
TgeneFGFR2C0391826Lhermitte-Duclos disease1CTD_human
TgeneFGFR2C0476089Endometrial Carcinoma1CGI;CTD_human
TgeneFGFR2C0524730Odontome1CTD_human
TgeneFGFR2C0699791Stomach Carcinoma1CGI;GENOMICS_ENGLAND
TgeneFGFR2C0917816Mental deficiency1CTD_human
TgeneFGFR2C1450010Plagiocephaly, Nonsynostotic1CTD_human
TgeneFGFR2C1860042Antley-Bixler Syndrome with Disordered Steroidogenesis1CTD_human
TgeneFGFR2C1867564SCAPHOCEPHALY AND AXENFELD-RIEGER ANOMALY1GENOMICS_ENGLAND
TgeneFGFR2C1959582PTEN Hamartoma Tumor Syndrome1CTD_human
TgeneFGFR2C2350233Antley-Bixler Syndrome Phenotype1CTD_human
TgeneFGFR2C3267076Familial scaphocephaly syndrome1GENOMICS_ENGLAND
TgeneFGFR2C3714756Intellectual Disability1CTD_human
TgeneFGFR2C3805278Extrahepatic Cholangiocarcinoma1CTD_human