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Center for Computational Systems Medicine
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Fusion Gene and Fusion Protein Summary

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Fusion Amino Acid Sequences (multiple BPs and multiple gene isoforms)

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Fusion Protein Breakpoint Sequences - (for the Screening of the FusionNeoAntigens)

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Potential FusionNeoAntigens in HLA I - (netMHCpan v4.1 + deepHLApan v1.1)

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Potential FusionNeoAntigens in HLA II - (netMHCIIpan v4.1)

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Fusion Breakpoint 14 AA Peptide Structure - (RoseTTAFold)

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Filtering FusionNeoAntigens Through Checking the Interaction with HLAs in 3D - (Glide)

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Vaccine Design for the FusionNeoAntigens (RNA/protein sequences)

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Potential target of CAR-T therapy development

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Information on the samples that have these potential fusion neoantigens

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Fusion Protein Targeting Drugs - (Manual Curation)

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Fusion Protein Related diseases - (Manual Curation)

Fusion Protein:GNAS-FN1

Fusion Gene and Fusion Protein Summary

check button Fusion gene summary
Fusion partner gene informationFusion gene name: GNAS-FN1
FusionPDB ID: 33622
FusionGDB2.0 ID: 33622
HgeneTgene
Gene symbol

GNAS

FN1

Gene ID

2778

2335

Gene nameGNAS complex locusfibronectin 1
SynonymsAHO|C20orf45|GNAS1|GPSA|GSA|GSP|NESP|PITA3|POH|SCG6|SgVICIG|ED-B|FINC|FN|FNZ|GFND|GFND2|LETS|MSF|SMDCF
Cytomap

20q13.32

2q35

Type of geneprotein-codingprotein-coding
Descriptionprotein ALEXprotein GNASprotein SCG6 (secretogranin VI)G protein subunit alpha Sadenylate cyclase-stimulating G alpha proteinalternative gene product encoded by XL-exonextra large alphas proteinguanine nucleotide binding protein (G protein), alpha fibronectincold-insoluble globulinepididymis secretory sperm binding proteinmigration-stimulating factor
Modification date2020032920200329
UniProtAcc

P63092

Main function of 5'-partner protein: FUNCTION: Guanine nucleotide-binding proteins (G proteins) function as transducers in numerous signaling pathways controlled by G protein-coupled receptors (GPCRs) (PubMed:17110384). Signaling involves the activation of adenylyl cyclases, resulting in increased levels of the signaling molecule cAMP (PubMed:26206488, PubMed:8702665). GNAS functions downstream of several GPCRs, including beta-adrenergic receptors (PubMed:21488135). Stimulates the Ras signaling pathway via RAPGEF2 (PubMed:12391161). {ECO:0000269|PubMed:12391161, ECO:0000269|PubMed:17110384, ECO:0000269|PubMed:21488135, ECO:0000269|PubMed:26206488, ECO:0000269|PubMed:8702665}.

P02751

Main function of 5'-partner protein: FUNCTION: Fibronectins bind cell surfaces and various compounds including collagen, fibrin, heparin, DNA, and actin (PubMed:3024962, PubMed:3900070, PubMed:3593230, PubMed:7989369). Fibronectins are involved in cell adhesion, cell motility, opsonization, wound healing, and maintenance of cell shape (PubMed:3024962, PubMed:3900070, PubMed:3593230, PubMed:7989369). Involved in osteoblast compaction through the fibronectin fibrillogenesis cell-mediated matrix assembly process, essential for osteoblast mineralization (By similarity). Participates in the regulation of type I collagen deposition by osteoblasts (By similarity). Acts as a ligand for the LILRB4 receptor, inhibiting FCGR1A/CD64-mediated monocyte activation (PubMed:34089617). {ECO:0000250|UniProtKB:P11276, ECO:0000269|PubMed:3024962, ECO:0000269|PubMed:34089617, ECO:0000269|PubMed:3593230, ECO:0000269|PubMed:3900070, ECO:0000269|PubMed:7989369}.; FUNCTION: [Anastellin]: Binds fibronectin and induces fibril formation. This fibronectin polymer, named superfibronectin, exhibits enhanced adhesive properties. Both anastellin and superfibronectin inhibit tumor growth, angiogenesis and metastasis. Anastellin activates p38 MAPK and inhibits lysophospholipid signaling. {ECO:0000269|PubMed:11209058, ECO:0000269|PubMed:15665290, ECO:0000269|PubMed:19379667, ECO:0000269|PubMed:8114919}.
Ensembl transtripts involved in fusion geneENST idsENST00000265620, ENST00000306090, 
ENST00000313949, ENST00000354359, 
ENST00000371075, ENST00000371085, 
ENST00000371095, ENST00000371100, 
ENST00000371102, ENST00000464624, 
ENST00000306120, ENST00000371081, 
ENST00000371098, ENST00000371099, 
ENST00000426059, ENST00000490833, 
ENST00000323926, ENST00000336916, 
ENST00000345488, ENST00000346544, 
ENST00000354785, ENST00000356005, 
ENST00000357009, ENST00000357867, 
ENST00000359671, ENST00000421182, 
ENST00000432072, ENST00000443816, 
ENST00000446046, 
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)* DoF score44 X 25 X 16=1760035 X 39 X 9=12285
# samples 5142
** MAII scorelog2(51/17600*10)=-5.10893437155316
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(42/12285*10)=-4.8703647195834
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Fusion gene context

PubMed: GNAS [Title/Abstract] AND FN1 [Title/Abstract] AND fusion [Title/Abstract]

Fusion neoantigen context

PubMed: GNAS [Title/Abstract] AND FN1 [Title/Abstract] AND neoantigen [Title/Abstract]

Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)GNAS(57486247)-FN1(216274837), # samples:1
Anticipated loss of major functional domain due to fusion event.GNAS-FN1 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.
GNAS-FN1 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.
GNAS-FN1 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.
GNAS-FN1 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.
GNAS-FN1 seems lost the major protein functional domain in Hgene partner, which is a cell metabolism gene due to the frame-shifted ORF.
GNAS-FN1 seems lost the major protein functional domain in Hgene partner, which is a CGC due to the frame-shifted 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
TgeneFN1

GO:0001932

regulation of protein phosphorylation

11792823

TgeneFN1

GO:0008284

positive regulation of cell proliferation

25834989

TgeneFN1

GO:0010628

positive regulation of gene expression

25834989

TgeneFN1

GO:0018149

peptide cross-linking

3997886

TgeneFN1

GO:0034446

substrate adhesion-dependent cell spreading

16236823

TgeneFN1

GO:0035987

endodermal cell differentiation

23154389

TgeneFN1

GO:0048146

positive regulation of fibroblast proliferation

25834989

TgeneFN1

GO:0051702

interaction with symbiont

12167537|12421310|19429745

TgeneFN1

GO:0070372

regulation of ERK1 and ERK2 cascade

11792823

TgeneFN1

GO:1901166

neural crest cell migration involved in autonomic nervous system development

26571399

TgeneFN1

GO:1904237

positive regulation of substrate-dependent cell migration, cell attachment to substrate

25834989

TgeneFN1

GO:2001202

negative regulation of transforming growth factor-beta secretion

25834989



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/chr20:57486247/chr2:216274837)
- 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 buttonRetention analysis results 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, are available here.

check buttonFusion gene breakpoints across GNAS (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 FN1 (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 Amino Acid Sequences


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)
ENST00000371100GNASchr2057486247-ENST00000421182FN1chr2216274837-99264029409888101570
ENST00000371100GNASchr2057486247-ENST00000357867FN1chr2216274837-97204029409886181506
ENST00000371100GNASchr2057486247-ENST00000323926FN1chr2216274837-105304029409894281776
ENST00000371100GNASchr2057486247-ENST00000336916FN1chr2216274837-102574029409891551685
ENST00000371100GNASchr2057486247-ENST00000354785FN1chr2216274837-106234029409895211807
ENST00000371100GNASchr2057486247-ENST00000357009FN1chr2216274837-98474029409881831361
ENST00000371100GNASchr2057486247-ENST00000346544FN1chr2216274837-98214029409887231541
ENST00000371100GNASchr2057486247-ENST00000345488FN1chr2216274837-97404029409886421514
ENST00000371100GNASchr2057486247-ENST00000359671FN1chr2216274837-103464029409892481716
ENST00000371100GNASchr2057486247-ENST00000446046FN1chr2216274837-97744029409890801660
ENST00000371100GNASchr2057486247-ENST00000443816FN1chr2216274837-95794029409888851595
ENST00000371100GNASchr2057486247-ENST00000432072FN1chr2216274837-95824029409888911597
ENST00000371100GNASchr2057486247-ENST00000356005FN1chr2216274837-96684029409889781626
ENST00000371102GNASchr2057486247-ENST00000421182FN1chr2216274837-93353438350782191570
ENST00000371102GNASchr2057486247-ENST00000357867FN1chr2216274837-91293438350780271506
ENST00000371102GNASchr2057486247-ENST00000323926FN1chr2216274837-99393438350788371776
ENST00000371102GNASchr2057486247-ENST00000336916FN1chr2216274837-96663438350785641685
ENST00000371102GNASchr2057486247-ENST00000354785FN1chr2216274837-100323438350789301807
ENST00000371102GNASchr2057486247-ENST00000357009FN1chr2216274837-92563438350775921361
ENST00000371102GNASchr2057486247-ENST00000346544FN1chr2216274837-92303438350781321541
ENST00000371102GNASchr2057486247-ENST00000345488FN1chr2216274837-91493438350780511514
ENST00000371102GNASchr2057486247-ENST00000359671FN1chr2216274837-97553438350786571716
ENST00000371102GNASchr2057486247-ENST00000446046FN1chr2216274837-91833438350784891660
ENST00000371102GNASchr2057486247-ENST00000443816FN1chr2216274837-89883438350782941595
ENST00000371102GNASchr2057486247-ENST00000432072FN1chr2216274837-89913438350783001597
ENST00000371102GNASchr2057486247-ENST00000356005FN1chr2216274837-90773438350783871626
ENST00000371095GNASchr2057486247-ENST00000421182FN1chr2216274837-78281931200067121570
ENST00000371095GNASchr2057486247-ENST00000357867FN1chr2216274837-76221931200065201506
ENST00000371095GNASchr2057486247-ENST00000323926FN1chr2216274837-84321931200073301776
ENST00000371095GNASchr2057486247-ENST00000336916FN1chr2216274837-81591931200070571685
ENST00000371095GNASchr2057486247-ENST00000354785FN1chr2216274837-85251931200074231807
ENST00000371095GNASchr2057486247-ENST00000357009FN1chr2216274837-77491931200060851361
ENST00000371095GNASchr2057486247-ENST00000346544FN1chr2216274837-77231931200066251541
ENST00000371095GNASchr2057486247-ENST00000345488FN1chr2216274837-76421931200065441514
ENST00000371095GNASchr2057486247-ENST00000359671FN1chr2216274837-82481931200071501716
ENST00000371095GNASchr2057486247-ENST00000446046FN1chr2216274837-76761931200069821660
ENST00000371095GNASchr2057486247-ENST00000443816FN1chr2216274837-74811931200067871595
ENST00000371095GNASchr2057486247-ENST00000432072FN1chr2216274837-74841931200067931597
ENST00000371095GNASchr2057486247-ENST00000356005FN1chr2216274837-75701931200068801626
ENST00000371085GNASchr2057486247-ENST00000421182FN1chr2216274837-78691972204167531570
ENST00000371085GNASchr2057486247-ENST00000357867FN1chr2216274837-76631972204165611506
ENST00000371085GNASchr2057486247-ENST00000323926FN1chr2216274837-84731972204173711776
ENST00000371085GNASchr2057486247-ENST00000336916FN1chr2216274837-82001972204170981685
ENST00000371085GNASchr2057486247-ENST00000354785FN1chr2216274837-85661972204174641807
ENST00000371085GNASchr2057486247-ENST00000357009FN1chr2216274837-77901972204161261361
ENST00000371085GNASchr2057486247-ENST00000346544FN1chr2216274837-77641972204166661541
ENST00000371085GNASchr2057486247-ENST00000345488FN1chr2216274837-76831972204165851514
ENST00000371085GNASchr2057486247-ENST00000359671FN1chr2216274837-82891972204171911716
ENST00000371085GNASchr2057486247-ENST00000446046FN1chr2216274837-77171972204170231660
ENST00000371085GNASchr2057486247-ENST00000443816FN1chr2216274837-75221972204168281595
ENST00000371085GNASchr2057486247-ENST00000432072FN1chr2216274837-75251972204168341597
ENST00000371085GNASchr2057486247-ENST00000356005FN1chr2216274837-76111972204169211626
ENST00000354359GNASchr2057486247-ENST00000421182FN1chr2216274837-78721975204467561570
ENST00000354359GNASchr2057486247-ENST00000357867FN1chr2216274837-76661975204465641506
ENST00000354359GNASchr2057486247-ENST00000323926FN1chr2216274837-84761975204473741776
ENST00000354359GNASchr2057486247-ENST00000336916FN1chr2216274837-82031975204471011685
ENST00000354359GNASchr2057486247-ENST00000354785FN1chr2216274837-85691975204474671807
ENST00000354359GNASchr2057486247-ENST00000357009FN1chr2216274837-77931975204461291361
ENST00000354359GNASchr2057486247-ENST00000346544FN1chr2216274837-77671975204466691541
ENST00000354359GNASchr2057486247-ENST00000345488FN1chr2216274837-76861975204465881514
ENST00000354359GNASchr2057486247-ENST00000359671FN1chr2216274837-82921975204471941716
ENST00000354359GNASchr2057486247-ENST00000446046FN1chr2216274837-77201975204470261660
ENST00000354359GNASchr2057486247-ENST00000443816FN1chr2216274837-75251975204468311595
ENST00000354359GNASchr2057486247-ENST00000432072FN1chr2216274837-75281975204468371597
ENST00000354359GNASchr2057486247-ENST00000356005FN1chr2216274837-76141975204469241626
ENST00000265620GNASchr2057486247-ENST00000421182FN1chr2216274837-77631866193566471570
ENST00000265620GNASchr2057486247-ENST00000357867FN1chr2216274837-75571866193564551506
ENST00000265620GNASchr2057486247-ENST00000323926FN1chr2216274837-83671866193572651776
ENST00000265620GNASchr2057486247-ENST00000336916FN1chr2216274837-80941866193569921685
ENST00000265620GNASchr2057486247-ENST00000354785FN1chr2216274837-84601866193573581807
ENST00000265620GNASchr2057486247-ENST00000357009FN1chr2216274837-76841866193560201361
ENST00000265620GNASchr2057486247-ENST00000346544FN1chr2216274837-76581866193565601541
ENST00000265620GNASchr2057486247-ENST00000345488FN1chr2216274837-75771866193564791514
ENST00000265620GNASchr2057486247-ENST00000359671FN1chr2216274837-81831866193570851716
ENST00000265620GNASchr2057486247-ENST00000446046FN1chr2216274837-76111866193569171660
ENST00000265620GNASchr2057486247-ENST00000443816FN1chr2216274837-74161866193567221595
ENST00000265620GNASchr2057486247-ENST00000432072FN1chr2216274837-74191866193567281597
ENST00000265620GNASchr2057486247-ENST00000356005FN1chr2216274837-75051866193568151626
ENST00000306090GNASchr2057486247-ENST00000421182FN1chr2216274837-75391642171164231570
ENST00000306090GNASchr2057486247-ENST00000357867FN1chr2216274837-73331642171162311506
ENST00000306090GNASchr2057486247-ENST00000323926FN1chr2216274837-81431642171170411776
ENST00000306090GNASchr2057486247-ENST00000336916FN1chr2216274837-78701642171167681685
ENST00000306090GNASchr2057486247-ENST00000354785FN1chr2216274837-82361642171171341807
ENST00000306090GNASchr2057486247-ENST00000357009FN1chr2216274837-74601642171157961361
ENST00000306090GNASchr2057486247-ENST00000346544FN1chr2216274837-74341642171163361541
ENST00000306090GNASchr2057486247-ENST00000345488FN1chr2216274837-73531642171162551514
ENST00000306090GNASchr2057486247-ENST00000359671FN1chr2216274837-79591642171168611716
ENST00000306090GNASchr2057486247-ENST00000446046FN1chr2216274837-73871642171166931660
ENST00000306090GNASchr2057486247-ENST00000443816FN1chr2216274837-71921642171164981595
ENST00000306090GNASchr2057486247-ENST00000432072FN1chr2216274837-71951642171165041597
ENST00000306090GNASchr2057486247-ENST00000356005FN1chr2216274837-72811642171165911626

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
ENST00000371100ENST00000421182GNASchr2057486247-FN1chr2216274837-0.130196210.8698038
ENST00000371100ENST00000357867GNASchr2057486247-FN1chr2216274837-0.104003040.8959969
ENST00000371100ENST00000323926GNASchr2057486247-FN1chr2216274837-0.066012320.9339876
ENST00000371100ENST00000336916GNASchr2057486247-FN1chr2216274837-0.073136450.92686355
ENST00000371100ENST00000354785GNASchr2057486247-FN1chr2216274837-0.0384628030.9615372
ENST00000371100ENST00000357009GNASchr2057486247-FN1chr2216274837-0.090748350.90925163
ENST00000371100ENST00000346544GNASchr2057486247-FN1chr2216274837-0.072355920.92764413
ENST00000371100ENST00000345488GNASchr2057486247-FN1chr2216274837-0.0308975910.96910244
ENST00000371100ENST00000359671GNASchr2057486247-FN1chr2216274837-0.0417430960.95825696
ENST00000371100ENST00000446046GNASchr2057486247-FN1chr2216274837-0.09024490.9097551
ENST00000371100ENST00000443816GNASchr2057486247-FN1chr2216274837-0.1133952960.8866047
ENST00000371100ENST00000432072GNASchr2057486247-FN1chr2216274837-0.0607554950.9392445
ENST00000371100ENST00000356005GNASchr2057486247-FN1chr2216274837-0.065401540.93459845
ENST00000371102ENST00000421182GNASchr2057486247-FN1chr2216274837-0.0868880750.913112
ENST00000371102ENST00000357867GNASchr2057486247-FN1chr2216274837-0.0667195840.9332804
ENST00000371102ENST00000323926GNASchr2057486247-FN1chr2216274837-0.047363030.952637
ENST00000371102ENST00000336916GNASchr2057486247-FN1chr2216274837-0.050807710.9491922
ENST00000371102ENST00000354785GNASchr2057486247-FN1chr2216274837-0.028090380.9719096
ENST00000371102ENST00000357009GNASchr2057486247-FN1chr2216274837-0.0660175760.93398243
ENST00000371102ENST00000346544GNASchr2057486247-FN1chr2216274837-0.0545565630.94544345
ENST00000371102ENST00000345488GNASchr2057486247-FN1chr2216274837-0.0214684440.9785316
ENST00000371102ENST00000359671GNASchr2057486247-FN1chr2216274837-0.029873880.97012615
ENST00000371102ENST00000446046GNASchr2057486247-FN1chr2216274837-0.064530410.93546957
ENST00000371102ENST00000443816GNASchr2057486247-FN1chr2216274837-0.0758967850.9241032
ENST00000371102ENST00000432072GNASchr2057486247-FN1chr2216274837-0.0488247420.9511753
ENST00000371102ENST00000356005GNASchr2057486247-FN1chr2216274837-0.049313740.9506862
ENST00000371095ENST00000421182GNASchr2057486247-FN1chr2216274837-0.0206789520.9793211
ENST00000371095ENST00000357867GNASchr2057486247-FN1chr2216274837-0.0144103260.9855897
ENST00000371095ENST00000323926GNASchr2057486247-FN1chr2216274837-0.0115286820.98847127
ENST00000371095ENST00000336916GNASchr2057486247-FN1chr2216274837-0.0117738930.9882261
ENST00000371095ENST00000354785GNASchr2057486247-FN1chr2216274837-0.0072465580.99275345
ENST00000371095ENST00000357009GNASchr2057486247-FN1chr2216274837-0.0193296040.98067033
ENST00000371095ENST00000346544GNASchr2057486247-FN1chr2216274837-0.0152610930.98473895
ENST00000371095ENST00000345488GNASchr2057486247-FN1chr2216274837-0.0055704770.9944296
ENST00000371095ENST00000359671GNASchr2057486247-FN1chr2216274837-0.007609120.99239093
ENST00000371095ENST00000446046GNASchr2057486247-FN1chr2216274837-0.0178181360.98218185
ENST00000371095ENST00000443816GNASchr2057486247-FN1chr2216274837-0.0177457240.9822543
ENST00000371095ENST00000432072GNASchr2057486247-FN1chr2216274837-0.014407380.98559254
ENST00000371095ENST00000356005GNASchr2057486247-FN1chr2216274837-0.0125873790.9874126
ENST00000371085ENST00000421182GNASchr2057486247-FN1chr2216274837-0.0217615010.97823846
ENST00000371085ENST00000357867GNASchr2057486247-FN1chr2216274837-0.0152608570.9847392
ENST00000371085ENST00000323926GNASchr2057486247-FN1chr2216274837-0.0121981080.98780185
ENST00000371085ENST00000336916GNASchr2057486247-FN1chr2216274837-0.012465030.987535
ENST00000371085ENST00000354785GNASchr2057486247-FN1chr2216274837-0.0076436140.9923564
ENST00000371085ENST00000357009GNASchr2057486247-FN1chr2216274837-0.0203289040.97967106
ENST00000371085ENST00000346544GNASchr2057486247-FN1chr2216274837-0.0161149280.98388505
ENST00000371085ENST00000345488GNASchr2057486247-FN1chr2216274837-0.005936790.9940632
ENST00000371085ENST00000359671GNASchr2057486247-FN1chr2216274837-0.0080309460.99196905
ENST00000371085ENST00000446046GNASchr2057486247-FN1chr2216274837-0.0187465120.98125345
ENST00000371085ENST00000443816GNASchr2057486247-FN1chr2216274837-0.0186321750.9813679
ENST00000371085ENST00000432072GNASchr2057486247-FN1chr2216274837-0.0152384570.9847615
ENST00000371085ENST00000356005GNASchr2057486247-FN1chr2216274837-0.0132708590.98672915
ENST00000354359ENST00000421182GNASchr2057486247-FN1chr2216274837-0.022035240.97796476
ENST00000354359ENST00000357867GNASchr2057486247-FN1chr2216274837-0.0154782010.9845218
ENST00000354359ENST00000323926GNASchr2057486247-FN1chr2216274837-0.0123703620.98762965
ENST00000354359ENST00000336916GNASchr2057486247-FN1chr2216274837-0.0126457520.9873542
ENST00000354359ENST00000354785GNASchr2057486247-FN1chr2216274837-0.0077542590.99224573
ENST00000354359ENST00000357009GNASchr2057486247-FN1chr2216274837-0.0205765980.97942346
ENST00000354359ENST00000346544GNASchr2057486247-FN1chr2216274837-0.0163429710.983657
ENST00000354359ENST00000345488GNASchr2057486247-FN1chr2216274837-0.0060436880.9939564
ENST00000354359ENST00000359671GNASchr2057486247-FN1chr2216274837-0.0081503950.99184966
ENST00000354359ENST00000446046GNASchr2057486247-FN1chr2216274837-0.0189921040.9810079
ENST00000354359ENST00000443816GNASchr2057486247-FN1chr2216274837-0.0188551230.98114485
ENST00000354359ENST00000432072GNASchr2057486247-FN1chr2216274837-0.0154630240.984537
ENST00000354359ENST00000356005GNASchr2057486247-FN1chr2216274837-0.0134584770.9865415
ENST00000265620ENST00000421182GNASchr2057486247-FN1chr2216274837-0.019180590.9808194
ENST00000265620ENST00000357867GNASchr2057486247-FN1chr2216274837-0.0132209180.9867791
ENST00000265620ENST00000323926GNASchr2057486247-FN1chr2216274837-0.0105828480.98941714
ENST00000265620ENST00000336916GNASchr2057486247-FN1chr2216274837-0.010797710.9892023
ENST00000265620ENST00000354785GNASchr2057486247-FN1chr2216274837-0.006714810.9932852
ENST00000265620ENST00000357009GNASchr2057486247-FN1chr2216274837-0.0178806630.9821193
ENST00000265620ENST00000346544GNASchr2057486247-FN1chr2216274837-0.0140352390.9859648
ENST00000265620ENST00000345488GNASchr2057486247-FN1chr2216274837-0.0051071250.99489284
ENST00000265620ENST00000359671GNASchr2057486247-FN1chr2216274837-0.00704510.9929549
ENST00000265620ENST00000446046GNASchr2057486247-FN1chr2216274837-0.0165545420.98344547
ENST00000265620ENST00000443816GNASchr2057486247-FN1chr2216274837-0.0163316760.98366827
ENST00000265620ENST00000432072GNASchr2057486247-FN1chr2216274837-0.0132472780.98675275
ENST00000265620ENST00000356005GNASchr2057486247-FN1chr2216274837-0.0115782590.98842174
ENST00000306090ENST00000421182GNASchr2057486247-FN1chr2216274837-0.015152160.98484784
ENST00000306090ENST00000357867GNASchr2057486247-FN1chr2216274837-0.0101531350.9898469
ENST00000306090ENST00000323926GNASchr2057486247-FN1chr2216274837-0.0080867240.9919133
ENST00000306090ENST00000336916GNASchr2057486247-FN1chr2216274837-0.0082928610.99170715
ENST00000306090ENST00000354785GNASchr2057486247-FN1chr2216274837-0.0050879770.9949121
ENST00000306090ENST00000357009GNASchr2057486247-FN1chr2216274837-0.0143741580.9856258
ENST00000306090ENST00000346544GNASchr2057486247-FN1chr2216274837-0.0113065450.9886934
ENST00000306090ENST00000345488GNASchr2057486247-FN1chr2216274837-0.0038861970.9961138
ENST00000306090ENST00000359671GNASchr2057486247-FN1chr2216274837-0.0053001240.99469984
ENST00000306090ENST00000446046GNASchr2057486247-FN1chr2216274837-0.0132855210.9867144
ENST00000306090ENST00000443816GNASchr2057486247-FN1chr2216274837-0.0126533750.9873466
ENST00000306090ENST00000432072GNASchr2057486247-FN1chr2216274837-0.0102704780.9897295
ENST00000306090ENST00000356005GNASchr2057486247-FN1chr2216274837-0.0090107710.99098927

check button Predicted full-length fusion amino acid sequences. For individual full-length fusion transcript sequence from FusionPDB, we ran ORFfinder and chose the longest ORF among all the predicted ones.

Get the fusion protein sequences from here.

Fusion protein sequence information is available in the fasta format.
>FusionGDB ID_FusionGDB isoform ID_FGname_Hgene_Hchr_Hbp_Henst_Tgene_Tchr_Tbp_Tenst_length(fusion AA) seq_BP

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Fusion Protein Breakpoint Sequences for GNAS-FN1

check button +/-13 AA sequence from the breakpoints of the fusion protein sequences.
HgeneHchrHbpTgeneTchrTbpLength(fusion protein)BP in fusion proteinPeptide

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Potential FusionNeoAntigen Information of GNAS-FN1 in HLA I

check button Multiple sequence alignments of the potential FusionNeoAntigens per fusion breakpoints. If the MSA is empty, then it means that there were predicted fusion neoantigens in this fusion breakpoint, but those predicted fusion neoantigens were not across the breakpoint, which is not fusion-specific.

check button Potential FusionNeoAntigen Information
* We used NetMHCpan v4.1 (%rank<0.5) and deepHLApan v1.1 (immunogenic score>0.5)
Fusion geneHchrHbpTgeneTchrTbpHLA IFusionNeoAntigen peptideBinding scoreImmunogenic scoreNeoantigen start (at BP 13)Neoantigen end (at BP 13)

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Potential FusionNeoAntigen Information of GNAS-FN1 in HLA II

check button Multiple sequence alignments of the potential FusionNeoAntigens per fusion breakpoints. If the MSA is empty, then it means that there were predicted fusion neoantigens in this fusion breakpoint, but those predicted fusion neoantigens were not across the breakpoint, which is not fusion-specific.

check button Potential FusionNeoAntigen Information
* We used NetMHCIIpan v4.1 (%rank<0.5).
Fusion geneHchrHbpTgeneTchrTbpHLA IIFusionNeoAntigen peptideNeoantigen start (at BP 13)Neoantigen end (at BP 13)

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Fusion breakpoint peptide structures of GNAS-FN1

check button3D structures of the fusion breakpoint peptide of 14AA sequence that have potential fusion neoantigens
* The minimum length of the amino acid sequence in RoseTTAFold is 14AA. Here, we predicted the 14AA fusion protein breakpoint sequence not the fusion neoantigen peptide, which is shorter than 14 AA.

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Filtering FusionNeoAntigens Through Checking the Interaction with HLAs in 3D of GNAS-FN1

check buttonVirtual screening between 25 HLAs (from PDB) and FusionNeoAntigens
* We used Glide to predict the interaction between HLAs and neoantigens.
HLA allelePDB IDFile nameBPseqDocking scoreGlide score

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Vaccine Design for the FusionNeoAntigens of GNAS-FN1

check button mRNA and peptide sequences of FusionNeoAntigens that have potential interaction with HLA-Is.
Fusion geneHchrHbpTchrTbpStart in +/-13AAEnd in +/-13AAFusionNeoAntigen peptide sequenceFusionNeoAntigen RNA sequence

check button mRNA and peptide sequences of FusionNeoAntigens that have potential interaction with HLA-IIs.
Fusion geneHchrHbpTchrTbpStart in +/-13AAEnd in +/-13AAFusionNeoAntigen peptideFusionNEoAntigen RNA sequence

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Information of the samples that have these potential fusion neoantigens of GNAS-FN1

check button These samples were reported as having these fusion breakpoints. For individual breakpoints, we checked the open reading frames considering multiple gene isoforms and chose the in-frame fusion genes only. Then, we made fusion protein sequences and predicted the fusion neoantigens. These fusion-positive samples may have these potential fusion neoantigens.
Cancer typeFusion geneHchrHbpHenstTchrTbpTenstSample

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Potential target of CAR-T therapy development for GNAS-FN1

check button Predicted 3D structure. We used RoseTTAFold.

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, to provide the retention of the transmembrane domain, we only show the protein feature retention information of those transmembrane features


* Minus value of BPloci means that the break point is located before the CDS.
- In-frame and retained 'Transmembrane'.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note

check button Subcellular localization prediction of the transmembrane domain retained fusion proteins
* We used DeepLoc 1.0. The order of the X-axis of the barplot is as follows: Entry_ID, Localization, Type, Nucleus, Cytoplasm, Extracellular, Mitochondrion, Cell_membrane, Endoplasmic_reticulum, Plastid, Golgi.apparatus, Lysosome.Vacuole, Peroxisome. Y-axis is the output score of DeepLoc. Clicking the image will open a new tab with a large image.
HgeneHchrHbpHenstTgeneTchrTbpTenstDeepLoc result
GNASchr2057486247ENST00000265620FN1chr2216274837ENST00000323926
GNASchr2057486247ENST00000265620FN1chr2216274837ENST00000336916
GNASchr2057486247ENST00000265620FN1chr2216274837ENST00000345488
GNASchr2057486247ENST00000265620FN1chr2216274837ENST00000346544
GNASchr2057486247ENST00000265620FN1chr2216274837ENST00000354785
GNASchr2057486247ENST00000265620FN1chr2216274837ENST00000356005
GNASchr2057486247ENST00000265620FN1chr2216274837ENST00000357009
GNASchr2057486247ENST00000265620FN1chr2216274837ENST00000357867
GNASchr2057486247ENST00000265620FN1chr2216274837ENST00000359671
GNASchr2057486247ENST00000265620FN1chr2216274837ENST00000421182
GNASchr2057486247ENST00000265620FN1chr2216274837ENST00000432072
GNASchr2057486247ENST00000265620FN1chr2216274837ENST00000443816
GNASchr2057486247ENST00000265620FN1chr2216274837ENST00000446046

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Related Drugs to GNAS-FN1

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 GNAS-FN1

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
TgeneFN1C0020538Hypertensive disease2CTD_human
TgeneFN1C0432221Spondylometaphyseal dysplasia, 'corner fracture' type2GENOMICS_ENGLAND;ORPHANET;UNIPROT
TgeneFN1C0000786Spontaneous abortion1CTD_human
TgeneFN1C0000822Abortion, Tubal1CTD_human
TgeneFN1C0003504Aortic Valve Insufficiency1CTD_human
TgeneFN1C0006142Malignant neoplasm of breast1CTD_human;UNIPROT
TgeneFN1C0007097Carcinoma1CTD_human
TgeneFN1C0007621Neoplastic Cell Transformation1CTD_human
TgeneFN1C0010346Crohn Disease1CTD_human
TgeneFN1C0011849Diabetes Mellitus1CTD_human
TgeneFN1C0011881Diabetic Nephropathy1CTD_human
TgeneFN1C0017636Glioblastoma1CTD_human
TgeneFN1C0017667Nodular glomerulosclerosis1CTD_human
TgeneFN1C0017668Focal glomerulosclerosis1CTD_human
TgeneFN1C0024667Animal Mammary Neoplasms1CTD_human
TgeneFN1C0024668Mammary Neoplasms, Experimental1CTD_human
TgeneFN1C0027626Neoplasm Invasiveness1CTD_human
TgeneFN1C0034069Pulmonary Fibrosis1CTD_human
TgeneFN1C0041956Ureteral obstruction1CTD_human
TgeneFN1C0085762Alcohol abuse1PSYGENET
TgeneFN1C0086432Hyalinosis, Segmental Glomerular1CTD_human
TgeneFN1C0149721Left Ventricular Hypertrophy1CTD_human
TgeneFN1C0156147Crohn's disease of large bowel1CTD_human
TgeneFN1C0205696Anaplastic carcinoma1CTD_human
TgeneFN1C0205697Carcinoma, Spindle-Cell1CTD_human
TgeneFN1C0205698Undifferentiated carcinoma1CTD_human
TgeneFN1C0205699Carcinomatosis1CTD_human
TgeneFN1C0267380Crohn's disease of the ileum1CTD_human
TgeneFN1C0334588Giant Cell Glioblastoma1CTD_human
TgeneFN1C0345967Malignant mesothelioma1CTD_human
TgeneFN1C0678202Regional enteritis1CTD_human
TgeneFN1C0678222Breast Carcinoma1CTD_human
TgeneFN1C0949272IIeocolitis1CTD_human
TgeneFN1C1257925Mammary Carcinoma, Animal1CTD_human
TgeneFN1C1257931Mammary Neoplasms, Human1CTD_human
TgeneFN1C1458155Mammary Neoplasms1CTD_human
TgeneFN1C1621958Glioblastoma Multiforme1CTD_human
TgeneFN1C1866075GLOMERULOPATHY WITH FIBRONECTIN DEPOSITS 2 (disorder)1CTD_human;GENOMICS_ENGLAND;ORPHANET;UNIPROT
TgeneFN1C3830362Early Pregnancy Loss1CTD_human
TgeneFN1C3888104Glomerulopathy with fibronectin deposits1CTD_human;ORPHANET
TgeneFN1C4552766Miscarriage1CTD_human
TgeneFN1C4704874Mammary Carcinoma, Human1CTD_human
TgeneFN1C4721507Alveolitis, Fibrosing1CTD_human