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Fusion Protein:EWSR1-FLI1

Fusion Gene and Fusion Protein Summary

Fusion gene summary

Fusion partner gene information	Fusion gene name: EWSR1-FLI1
	FusionPDB ID: 27833
	FusionGDB2.0 ID: 27833
		Hgene	Tgene
	Gene symbol	EWSR1	FLI1
	Gene ID	2130	2313
	Gene name	EWS RNA binding protein 1	Fli-1 proto-oncogene, ETS transcription factor
	Synonyms	EWS\|EWS-FLI1\|bK984G1.4	BDPLT21\|EWSR2\|SIC-1
	Cytomap	22q12.2	11q24.3
	Type of gene	protein-coding	protein-coding
	Description	RNA-binding protein EWSEWS RNA-binding protein variant 6Ewing sarcoma breakpoint region 1Ewings sarcoma EWS-Fli1 (type 1) oncogene	Friend leukemia integration 1 transcription factorEwing sarcoma breakpoint region 2Friend leukemia virus integration 1transcription factor ERGB
	Modification date	20200329	20200313
	UniProtAcc	Q01844 Main function of 5'-partner protein: FUNCTION: Might normally function as a transcriptional repressor. EWS-fusion-proteins (EFPS) may play a role in the tumorigenic process. They may disturb gene expression by mimicking, or interfering with the normal function of CTD-POLII within the transcription initiation complex. They may also contribute to an aberrant activation of the fusion protein target genes.	Q01543 Main function of 5'-partner protein: FUNCTION: Sequence-specific transcriptional activator (PubMed:24100448, PubMed:26316623, PubMed:28255014). Recognizes the DNA sequence 5'-C[CA]GGAAGT-3'. {ECO:0000269\|PubMed:24100448, ECO:0000269\|PubMed:26316623, ECO:0000269\|PubMed:28255014}.
Ensembl transtripts involved in fusion gene	ENST ids	ENST00000331029, ENST00000332035, ENST00000332050, ENST00000333395, ENST00000397938, ENST00000406548, ENST00000414183,	ENST00000281428, ENST00000344954, ENST00000525560, ENST00000527786, ENST00000534087,
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)	* DoF score	44 X 91 X 16=64064	5 X 70 X 4=1400
	# samples	98	68
	** MAII score	log2(98/64064*10)=-6.03058831983342 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0	log2(68/1400*10)=-1.04182017569463 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0
Fusion gene context	PubMed: EWSR1 [Title/Abstract] AND FLI1 [Title/Abstract] AND fusion [Title/Abstract] Promiscuous partnerships in Ewing's sarcoma; Gene fusion with an ETS DNA-binding domain caused by chromosome translocation in human tumours (pmid: 21872822;1522903) Ewing sarcoma 11;22 translocation produces a chimeric transcription factor that requires the DNA-binding domain encoded by FLI1 for transformation; The Ewing family of tumors--a subgroup of small-round-cell tumors defined by specific chimeric transcripts (pmid: 8516324;8022439)
Fusion neoantigen context	PubMed: EWSR1 [Title/Abstract] AND FLI1 [Title/Abstract] AND neoantigen [Title/Abstract] iPSC-Derived Neoantigen-Specific CTL Therapy for Ewing Sarcoma.', 'Routine EWS Fusion Analysis in the Oncology Clinic to Identify Cancer-Specific Peptide Sequence Patterns That Span Breakpoints in Ewing Sarcoma and DSRCT.' (pmid: 34385178, 36900411)
Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)	EWSR1(29683123)-FLI1(128679052), # samples:12 FLI1(128665016)-EWSR1(29684832), # samples:2
Anticipated loss of major functional domain due to fusion event.	EWSR1-FLI1 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. EWSR1-FLI1 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. EWSR1-FLI1 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. EWSR1-FLI1 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. EWSR1-FLI1 seems lost the major protein functional domain in Hgene partner, which is a CGC due to the frame-shifted ORF. EWSR1-FLI1 seems lost the major protein functional domain in Hgene partner, which is a essential gene due to the frame-shifted ORF. EWSR1-FLI1 seems lost the major protein functional domain in Tgene partner, which is a CGC due to the frame-shifted ORF. EWSR1-FLI1 seems lost the major protein functional domain in Tgene partner, which is a transcription factor 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)

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
Tgene	FLI1	GO:0045893	positive regulation of transcription, DNA-templated	26316623

Four levels of functional features of fusion genes
Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/chr22:29683123/chr11:128679052)
- 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.

Retention 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.

Fusion gene breakpoints across EWSR1 (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

Fusion gene breakpoints across FLI1 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

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Fusion Amino Acid Sequences

Fusion information from ORFfinder translation from full-length transcript sequence from FusionPDB.

Henst	Tenst	Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand	Seq length (transcript)	BP loci (transcript)	Predicted start (transcript)	Predicted stop (transcript)	Seq length (amino acids)
ENST00000332050	EWSR1	chr22	29683123	+	ENST00000525560	FLI1	chr11	128675261	+	2233	1121	328	1824	498
ENST00000332050	EWSR1	chr22	29683123	+	ENST00000344954	FLI1	chr11	128675261	+	4103	1121	328	1824	498
ENST00000332050	EWSR1	chr22	29683123	+	ENST00000527786	FLI1	chr11	128675261	+	4104	1121	328	1824	498
ENST00000332050	EWSR1	chr22	29683123	+	ENST00000534087	FLI1	chr11	128675261	+	4104	1121	328	1824	498
ENST00000332050	EWSR1	chr22	29683123	+	ENST00000281428	FLI1	chr11	128675261	+	4103	1121	328	1824	498
ENST00000397938	EWSR1	chr22	29683123	+	ENST00000525560	FLI1	chr11	128675261	+	2224	1112	319	1815	498
ENST00000397938	EWSR1	chr22	29683123	+	ENST00000344954	FLI1	chr11	128675261	+	4094	1112	319	1815	498
ENST00000397938	EWSR1	chr22	29683123	+	ENST00000527786	FLI1	chr11	128675261	+	4095	1112	319	1815	498
ENST00000397938	EWSR1	chr22	29683123	+	ENST00000534087	FLI1	chr11	128675261	+	4095	1112	319	1815	498
ENST00000397938	EWSR1	chr22	29683123	+	ENST00000281428	FLI1	chr11	128675261	+	4094	1112	319	1815	498
ENST00000406548	EWSR1	chr22	29683123	+	ENST00000525560	FLI1	chr11	128675261	+	1969	857	64	1560	498
ENST00000406548	EWSR1	chr22	29683123	+	ENST00000344954	FLI1	chr11	128675261	+	3839	857	64	1560	498
ENST00000406548	EWSR1	chr22	29683123	+	ENST00000527786	FLI1	chr11	128675261	+	3840	857	64	1560	498
ENST00000406548	EWSR1	chr22	29683123	+	ENST00000534087	FLI1	chr11	128675261	+	3840	857	64	1560	498
ENST00000406548	EWSR1	chr22	29683123	+	ENST00000281428	FLI1	chr11	128675261	+	3839	857	64	1560	498
ENST00000331029	EWSR1	chr22	29683123	+	ENST00000525560	FLI1	chr11	128675261	+	1951	839	46	1542	498
ENST00000331029	EWSR1	chr22	29683123	+	ENST00000344954	FLI1	chr11	128675261	+	3821	839	46	1542	498
ENST00000331029	EWSR1	chr22	29683123	+	ENST00000527786	FLI1	chr11	128675261	+	3822	839	46	1542	498
ENST00000331029	EWSR1	chr22	29683123	+	ENST00000534087	FLI1	chr11	128675261	+	3822	839	46	1542	498
ENST00000331029	EWSR1	chr22	29683123	+	ENST00000281428	FLI1	chr11	128675261	+	3821	839	46	1542	498
ENST00000414183	EWSR1	chr22	29683123	+	ENST00000525560	FLI1	chr11	128675261	+	1944	832	21	1535	504
ENST00000414183	EWSR1	chr22	29683123	+	ENST00000344954	FLI1	chr11	128675261	+	3814	832	21	1535	504
ENST00000414183	EWSR1	chr22	29683123	+	ENST00000527786	FLI1	chr11	128675261	+	3815	832	21	1535	504
ENST00000414183	EWSR1	chr22	29683123	+	ENST00000534087	FLI1	chr11	128675261	+	3815	832	21	1535	504
ENST00000414183	EWSR1	chr22	29683123	+	ENST00000281428	FLI1	chr11	128675261	+	3814	832	21	1535	504
ENST00000333395	EWSR1	chr22	29683123	+	ENST00000525560	FLI1	chr11	128675261	+	1924	812	19	1515	498
ENST00000333395	EWSR1	chr22	29683123	+	ENST00000344954	FLI1	chr11	128675261	+	3794	812	19	1515	498
ENST00000333395	EWSR1	chr22	29683123	+	ENST00000527786	FLI1	chr11	128675261	+	3795	812	19	1515	498
ENST00000333395	EWSR1	chr22	29683123	+	ENST00000534087	FLI1	chr11	128675261	+	3795	812	19	1515	498
ENST00000333395	EWSR1	chr22	29683123	+	ENST00000281428	FLI1	chr11	128675261	+	3794	812	19	1515	498
ENST00000332035	EWSR1	chr22	29683123	+	ENST00000525560	FLI1	chr11	128675261	+	1748	636	11	1339	442
ENST00000332035	EWSR1	chr22	29683123	+	ENST00000344954	FLI1	chr11	128675261	+	3618	636	11	1339	442
ENST00000332035	EWSR1	chr22	29683123	+	ENST00000527786	FLI1	chr11	128675261	+	3619	636	11	1339	442
ENST00000332035	EWSR1	chr22	29683123	+	ENST00000534087	FLI1	chr11	128675261	+	3619	636	11	1339	442
ENST00000332035	EWSR1	chr22	29683123	+	ENST00000281428	FLI1	chr11	128675261	+	3618	636	11	1339	442
ENST00000332050	EWSR1	chr22	29683123	+	ENST00000525560	FLI1	chr11	128679052	+	2107	1121	328	1698	456
ENST00000332050	EWSR1	chr22	29683123	+	ENST00000344954	FLI1	chr11	128679052	+	3977	1121	328	1698	456
ENST00000332050	EWSR1	chr22	29683123	+	ENST00000527786	FLI1	chr11	128679052	+	3978	1121	328	1698	456
ENST00000332050	EWSR1	chr22	29683123	+	ENST00000534087	FLI1	chr11	128679052	+	3978	1121	328	1698	456
ENST00000332050	EWSR1	chr22	29683123	+	ENST00000281428	FLI1	chr11	128679052	+	3977	1121	328	1698	456
ENST00000397938	EWSR1	chr22	29683123	+	ENST00000525560	FLI1	chr11	128679052	+	2098	1112	319	1689	456
ENST00000397938	EWSR1	chr22	29683123	+	ENST00000344954	FLI1	chr11	128679052	+	3968	1112	319	1689	456
ENST00000397938	EWSR1	chr22	29683123	+	ENST00000527786	FLI1	chr11	128679052	+	3969	1112	319	1689	456
ENST00000397938	EWSR1	chr22	29683123	+	ENST00000534087	FLI1	chr11	128679052	+	3969	1112	319	1689	456
ENST00000397938	EWSR1	chr22	29683123	+	ENST00000281428	FLI1	chr11	128679052	+	3968	1112	319	1689	456
ENST00000406548	EWSR1	chr22	29683123	+	ENST00000525560	FLI1	chr11	128679052	+	1843	857	64	1434	456
ENST00000406548	EWSR1	chr22	29683123	+	ENST00000344954	FLI1	chr11	128679052	+	3713	857	64	1434	456
ENST00000406548	EWSR1	chr22	29683123	+	ENST00000527786	FLI1	chr11	128679052	+	3714	857	64	1434	456
ENST00000406548	EWSR1	chr22	29683123	+	ENST00000534087	FLI1	chr11	128679052	+	3714	857	64	1434	456
ENST00000406548	EWSR1	chr22	29683123	+	ENST00000281428	FLI1	chr11	128679052	+	3713	857	64	1434	456
ENST00000331029	EWSR1	chr22	29683123	+	ENST00000525560	FLI1	chr11	128679052	+	1825	839	46	1416	456
ENST00000331029	EWSR1	chr22	29683123	+	ENST00000344954	FLI1	chr11	128679052	+	3695	839	46	1416	456
ENST00000331029	EWSR1	chr22	29683123	+	ENST00000527786	FLI1	chr11	128679052	+	3696	839	46	1416	456
ENST00000331029	EWSR1	chr22	29683123	+	ENST00000534087	FLI1	chr11	128679052	+	3696	839	46	1416	456
ENST00000331029	EWSR1	chr22	29683123	+	ENST00000281428	FLI1	chr11	128679052	+	3695	839	46	1416	456
ENST00000414183	EWSR1	chr22	29683123	+	ENST00000525560	FLI1	chr11	128679052	+	1818	832	21	1409	462
ENST00000414183	EWSR1	chr22	29683123	+	ENST00000344954	FLI1	chr11	128679052	+	3688	832	21	1409	462
ENST00000414183	EWSR1	chr22	29683123	+	ENST00000527786	FLI1	chr11	128679052	+	3689	832	21	1409	462
ENST00000414183	EWSR1	chr22	29683123	+	ENST00000534087	FLI1	chr11	128679052	+	3689	832	21	1409	462
ENST00000414183	EWSR1	chr22	29683123	+	ENST00000281428	FLI1	chr11	128679052	+	3688	832	21	1409	462
ENST00000333395	EWSR1	chr22	29683123	+	ENST00000525560	FLI1	chr11	128679052	+	1798	812	19	1389	456
ENST00000333395	EWSR1	chr22	29683123	+	ENST00000344954	FLI1	chr11	128679052	+	3668	812	19	1389	456
ENST00000333395	EWSR1	chr22	29683123	+	ENST00000527786	FLI1	chr11	128679052	+	3669	812	19	1389	456
ENST00000333395	EWSR1	chr22	29683123	+	ENST00000534087	FLI1	chr11	128679052	+	3669	812	19	1389	456
ENST00000333395	EWSR1	chr22	29683123	+	ENST00000281428	FLI1	chr11	128679052	+	3668	812	19	1389	456
ENST00000332035	EWSR1	chr22	29683123	+	ENST00000525560	FLI1	chr11	128679052	+	1622	636	11	1213	400
ENST00000332035	EWSR1	chr22	29683123	+	ENST00000344954	FLI1	chr11	128679052	+	3492	636	11	1213	400
ENST00000332035	EWSR1	chr22	29683123	+	ENST00000527786	FLI1	chr11	128679052	+	3493	636	11	1213	400
ENST00000332035	EWSR1	chr22	29683123	+	ENST00000534087	FLI1	chr11	128679052	+	3493	636	11	1213	400
ENST00000332035	EWSR1	chr22	29683123	+	ENST00000281428	FLI1	chr11	128679052	+	3492	636	11	1213	400
ENST00000332050	EWSR1	chr22	29683125	+	ENST00000525560	FLI1	chr11	128651853	+	2299	1121	328	1890	520
ENST00000332050	EWSR1	chr22	29683125	+	ENST00000344954	FLI1	chr11	128651853	+	4169	1121	328	1890	520
ENST00000332050	EWSR1	chr22	29683125	+	ENST00000527786	FLI1	chr11	128651853	+	4170	1121	328	1890	520
ENST00000332050	EWSR1	chr22	29683125	+	ENST00000534087	FLI1	chr11	128651853	+	4170	1121	328	1890	520
ENST00000332050	EWSR1	chr22	29683125	+	ENST00000281428	FLI1	chr11	128651853	+	4169	1121	328	1890	520
ENST00000397938	EWSR1	chr22	29683125	+	ENST00000525560	FLI1	chr11	128651853	+	2290	1112	319	1881	520
ENST00000397938	EWSR1	chr22	29683125	+	ENST00000344954	FLI1	chr11	128651853	+	4160	1112	319	1881	520
ENST00000397938	EWSR1	chr22	29683125	+	ENST00000527786	FLI1	chr11	128651853	+	4161	1112	319	1881	520
ENST00000397938	EWSR1	chr22	29683125	+	ENST00000534087	FLI1	chr11	128651853	+	4161	1112	319	1881	520
ENST00000397938	EWSR1	chr22	29683125	+	ENST00000281428	FLI1	chr11	128651853	+	4160	1112	319	1881	520
ENST00000406548	EWSR1	chr22	29683125	+	ENST00000525560	FLI1	chr11	128651853	+	2035	857	64	1626	520
ENST00000406548	EWSR1	chr22	29683125	+	ENST00000344954	FLI1	chr11	128651853	+	3905	857	64	1626	520
ENST00000406548	EWSR1	chr22	29683125	+	ENST00000527786	FLI1	chr11	128651853	+	3906	857	64	1626	520
ENST00000406548	EWSR1	chr22	29683125	+	ENST00000534087	FLI1	chr11	128651853	+	3906	857	64	1626	520
ENST00000406548	EWSR1	chr22	29683125	+	ENST00000281428	FLI1	chr11	128651853	+	3905	857	64	1626	520
ENST00000331029	EWSR1	chr22	29683125	+	ENST00000525560	FLI1	chr11	128651853	+	2017	839	46	1608	520
ENST00000331029	EWSR1	chr22	29683125	+	ENST00000344954	FLI1	chr11	128651853	+	3887	839	46	1608	520
ENST00000331029	EWSR1	chr22	29683125	+	ENST00000527786	FLI1	chr11	128651853	+	3888	839	46	1608	520
ENST00000331029	EWSR1	chr22	29683125	+	ENST00000534087	FLI1	chr11	128651853	+	3888	839	46	1608	520
ENST00000331029	EWSR1	chr22	29683125	+	ENST00000281428	FLI1	chr11	128651853	+	3887	839	46	1608	520
ENST00000414183	EWSR1	chr22	29683125	+	ENST00000525560	FLI1	chr11	128651853	+	2010	832	21	1601	526
ENST00000414183	EWSR1	chr22	29683125	+	ENST00000344954	FLI1	chr11	128651853	+	3880	832	21	1601	526
ENST00000414183	EWSR1	chr22	29683125	+	ENST00000527786	FLI1	chr11	128651853	+	3881	832	21	1601	526
ENST00000414183	EWSR1	chr22	29683125	+	ENST00000534087	FLI1	chr11	128651853	+	3881	832	21	1601	526
ENST00000414183	EWSR1	chr22	29683125	+	ENST00000281428	FLI1	chr11	128651853	+	3880	832	21	1601	526
ENST00000333395	EWSR1	chr22	29683125	+	ENST00000525560	FLI1	chr11	128651853	+	1990	812	19	1581	520
ENST00000333395	EWSR1	chr22	29683125	+	ENST00000344954	FLI1	chr11	128651853	+	3860	812	19	1581	520
ENST00000333395	EWSR1	chr22	29683125	+	ENST00000527786	FLI1	chr11	128651853	+	3861	812	19	1581	520
ENST00000333395	EWSR1	chr22	29683125	+	ENST00000534087	FLI1	chr11	128651853	+	3861	812	19	1581	520
ENST00000333395	EWSR1	chr22	29683125	+	ENST00000281428	FLI1	chr11	128651853	+	3860	812	19	1581	520
ENST00000332035	EWSR1	chr22	29683125	+	ENST00000525560	FLI1	chr11	128651853	+	1814	636	11	1405	464
ENST00000332035	EWSR1	chr22	29683125	+	ENST00000344954	FLI1	chr11	128651853	+	3684	636	11	1405	464
ENST00000332035	EWSR1	chr22	29683125	+	ENST00000527786	FLI1	chr11	128651853	+	3685	636	11	1405	464
ENST00000332035	EWSR1	chr22	29683125	+	ENST00000534087	FLI1	chr11	128651853	+	3685	636	11	1405	464
ENST00000332035	EWSR1	chr22	29683125	+	ENST00000281428	FLI1	chr11	128651853	+	3684	636	11	1405	464
ENST00000332050	EWSR1	chr22	29683125		ENST00000525560	FLI1	chr11	128677075		2167	1121	328	1758	476
ENST00000332050	EWSR1	chr22	29683125		ENST00000344954	FLI1	chr11	128677075		4037	1121	328	1758	476
ENST00000332050	EWSR1	chr22	29683125		ENST00000527786	FLI1	chr11	128677075		4038	1121	328	1758	476
ENST00000332050	EWSR1	chr22	29683125		ENST00000534087	FLI1	chr11	128677075		4038	1121	328	1758	476
ENST00000332050	EWSR1	chr22	29683125		ENST00000281428	FLI1	chr11	128677075		4037	1121	328	1758	476
ENST00000397938	EWSR1	chr22	29683125		ENST00000525560	FLI1	chr11	128677075		2158	1112	319	1749	476
ENST00000397938	EWSR1	chr22	29683125		ENST00000344954	FLI1	chr11	128677075		4028	1112	319	1749	476
ENST00000397938	EWSR1	chr22	29683125		ENST00000527786	FLI1	chr11	128677075		4029	1112	319	1749	476
ENST00000397938	EWSR1	chr22	29683125		ENST00000534087	FLI1	chr11	128677075		4029	1112	319	1749	476
ENST00000397938	EWSR1	chr22	29683125		ENST00000281428	FLI1	chr11	128677075		4028	1112	319	1749	476
ENST00000406548	EWSR1	chr22	29683125		ENST00000525560	FLI1	chr11	128677075		1903	857	64	1494	476
ENST00000406548	EWSR1	chr22	29683125		ENST00000344954	FLI1	chr11	128677075		3773	857	64	1494	476
ENST00000406548	EWSR1	chr22	29683125		ENST00000527786	FLI1	chr11	128677075		3774	857	64	1494	476
ENST00000406548	EWSR1	chr22	29683125		ENST00000534087	FLI1	chr11	128677075		3774	857	64	1494	476
ENST00000406548	EWSR1	chr22	29683125		ENST00000281428	FLI1	chr11	128677075		3773	857	64	1494	476
ENST00000331029	EWSR1	chr22	29683125		ENST00000525560	FLI1	chr11	128677075		1885	839	46	1476	476
ENST00000331029	EWSR1	chr22	29683125		ENST00000344954	FLI1	chr11	128677075		3755	839	46	1476	476
ENST00000331029	EWSR1	chr22	29683125		ENST00000527786	FLI1	chr11	128677075		3756	839	46	1476	476
ENST00000331029	EWSR1	chr22	29683125		ENST00000534087	FLI1	chr11	128677075		3756	839	46	1476	476
ENST00000331029	EWSR1	chr22	29683125		ENST00000281428	FLI1	chr11	128677075		3755	839	46	1476	476
ENST00000414183	EWSR1	chr22	29683125		ENST00000525560	FLI1	chr11	128677075		1878	832	21	1469	482
ENST00000414183	EWSR1	chr22	29683125		ENST00000344954	FLI1	chr11	128677075		3748	832	21	1469	482
ENST00000414183	EWSR1	chr22	29683125		ENST00000527786	FLI1	chr11	128677075		3749	832	21	1469	482
ENST00000414183	EWSR1	chr22	29683125		ENST00000534087	FLI1	chr11	128677075		3749	832	21	1469	482
ENST00000414183	EWSR1	chr22	29683125		ENST00000281428	FLI1	chr11	128677075		3748	832	21	1469	482
ENST00000333395	EWSR1	chr22	29683125		ENST00000525560	FLI1	chr11	128677075		1858	812	19	1449	476
ENST00000333395	EWSR1	chr22	29683125		ENST00000344954	FLI1	chr11	128677075		3728	812	19	1449	476
ENST00000333395	EWSR1	chr22	29683125		ENST00000527786	FLI1	chr11	128677075		3729	812	19	1449	476
ENST00000333395	EWSR1	chr22	29683125		ENST00000534087	FLI1	chr11	128677075		3729	812	19	1449	476
ENST00000333395	EWSR1	chr22	29683125		ENST00000281428	FLI1	chr11	128677075		3728	812	19	1449	476
ENST00000332035	EWSR1	chr22	29683125		ENST00000525560	FLI1	chr11	128677075		1682	636	11	1273	420
ENST00000332035	EWSR1	chr22	29683125		ENST00000344954	FLI1	chr11	128677075		3552	636	11	1273	420
ENST00000332035	EWSR1	chr22	29683125		ENST00000527786	FLI1	chr11	128677075		3553	636	11	1273	420
ENST00000332035	EWSR1	chr22	29683125		ENST00000534087	FLI1	chr11	128677075		3553	636	11	1273	420
ENST00000332035	EWSR1	chr22	29683125		ENST00000281428	FLI1	chr11	128677075		3552	636	11	1273	420
ENST00000332050	EWSR1	chr22	29683123	+	ENST00000525560	FLI1	chr11	128679052	+	2107	1121	328	1698	456
ENST00000332050	EWSR1	chr22	29683123	+	ENST00000344954	FLI1	chr11	128679052	+	3977	1121	328	1698	456
ENST00000332050	EWSR1	chr22	29683123	+	ENST00000527786	FLI1	chr11	128679052	+	3978	1121	328	1698	456
ENST00000332050	EWSR1	chr22	29683123	+	ENST00000534087	FLI1	chr11	128679052	+	3978	1121	328	1698	456
ENST00000332050	EWSR1	chr22	29683123	+	ENST00000281428	FLI1	chr11	128679052	+	3977	1121	328	1698	456
ENST00000397938	EWSR1	chr22	29683123	+	ENST00000525560	FLI1	chr11	128679052	+	2098	1112	319	1689	456
ENST00000397938	EWSR1	chr22	29683123	+	ENST00000344954	FLI1	chr11	128679052	+	3968	1112	319	1689	456
ENST00000397938	EWSR1	chr22	29683123	+	ENST00000527786	FLI1	chr11	128679052	+	3969	1112	319	1689	456
ENST00000397938	EWSR1	chr22	29683123	+	ENST00000534087	FLI1	chr11	128679052	+	3969	1112	319	1689	456
ENST00000397938	EWSR1	chr22	29683123	+	ENST00000281428	FLI1	chr11	128679052	+	3968	1112	319	1689	456
ENST00000406548	EWSR1	chr22	29683123	+	ENST00000525560	FLI1	chr11	128679052	+	1843	857	64	1434	456
ENST00000406548	EWSR1	chr22	29683123	+	ENST00000344954	FLI1	chr11	128679052	+	3713	857	64	1434	456
ENST00000406548	EWSR1	chr22	29683123	+	ENST00000527786	FLI1	chr11	128679052	+	3714	857	64	1434	456
ENST00000406548	EWSR1	chr22	29683123	+	ENST00000534087	FLI1	chr11	128679052	+	3714	857	64	1434	456
ENST00000406548	EWSR1	chr22	29683123	+	ENST00000281428	FLI1	chr11	128679052	+	3713	857	64	1434	456
ENST00000331029	EWSR1	chr22	29683123	+	ENST00000525560	FLI1	chr11	128679052	+	1825	839	46	1416	456
ENST00000331029	EWSR1	chr22	29683123	+	ENST00000344954	FLI1	chr11	128679052	+	3695	839	46	1416	456
ENST00000331029	EWSR1	chr22	29683123	+	ENST00000527786	FLI1	chr11	128679052	+	3696	839	46	1416	456
ENST00000331029	EWSR1	chr22	29683123	+	ENST00000534087	FLI1	chr11	128679052	+	3696	839	46	1416	456
ENST00000331029	EWSR1	chr22	29683123	+	ENST00000281428	FLI1	chr11	128679052	+	3695	839	46	1416	456
ENST00000414183	EWSR1	chr22	29683123	+	ENST00000525560	FLI1	chr11	128679052	+	1818	832	21	1409	462
ENST00000414183	EWSR1	chr22	29683123	+	ENST00000344954	FLI1	chr11	128679052	+	3688	832	21	1409	462
ENST00000414183	EWSR1	chr22	29683123	+	ENST00000527786	FLI1	chr11	128679052	+	3689	832	21	1409	462
ENST00000414183	EWSR1	chr22	29683123	+	ENST00000534087	FLI1	chr11	128679052	+	3689	832	21	1409	462
ENST00000414183	EWSR1	chr22	29683123	+	ENST00000281428	FLI1	chr11	128679052	+	3688	832	21	1409	462
ENST00000333395	EWSR1	chr22	29683123	+	ENST00000525560	FLI1	chr11	128679052	+	1798	812	19	1389	456
ENST00000333395	EWSR1	chr22	29683123	+	ENST00000344954	FLI1	chr11	128679052	+	3668	812	19	1389	456
ENST00000333395	EWSR1	chr22	29683123	+	ENST00000527786	FLI1	chr11	128679052	+	3669	812	19	1389	456
ENST00000333395	EWSR1	chr22	29683123	+	ENST00000534087	FLI1	chr11	128679052	+	3669	812	19	1389	456
ENST00000333395	EWSR1	chr22	29683123	+	ENST00000281428	FLI1	chr11	128679052	+	3668	812	19	1389	456
ENST00000332035	EWSR1	chr22	29683123	+	ENST00000525560	FLI1	chr11	128679052	+	1622	636	11	1213	400
ENST00000332035	EWSR1	chr22	29683123	+	ENST00000344954	FLI1	chr11	128679052	+	3492	636	11	1213	400
ENST00000332035	EWSR1	chr22	29683123	+	ENST00000527786	FLI1	chr11	128679052	+	3493	636	11	1213	400
ENST00000332035	EWSR1	chr22	29683123	+	ENST00000534087	FLI1	chr11	128679052	+	3493	636	11	1213	400
ENST00000332035	EWSR1	chr22	29683123	+	ENST00000281428	FLI1	chr11	128679052	+	3492	636	11	1213	400
ENST00000332050	EWSR1	chr22	29683123	+	ENST00000525560	FLI1	chr11	128675261	+	2233	1121	328	1824	498
ENST00000332050	EWSR1	chr22	29683123	+	ENST00000344954	FLI1	chr11	128675261	+	4103	1121	328	1824	498
ENST00000332050	EWSR1	chr22	29683123	+	ENST00000527786	FLI1	chr11	128675261	+	4104	1121	328	1824	498
ENST00000332050	EWSR1	chr22	29683123	+	ENST00000534087	FLI1	chr11	128675261	+	4104	1121	328	1824	498
ENST00000332050	EWSR1	chr22	29683123	+	ENST00000281428	FLI1	chr11	128675261	+	4103	1121	328	1824	498
ENST00000397938	EWSR1	chr22	29683123	+	ENST00000525560	FLI1	chr11	128675261	+	2224	1112	319	1815	498
ENST00000397938	EWSR1	chr22	29683123	+	ENST00000344954	FLI1	chr11	128675261	+	4094	1112	319	1815	498
ENST00000397938	EWSR1	chr22	29683123	+	ENST00000527786	FLI1	chr11	128675261	+	4095	1112	319	1815	498
ENST00000397938	EWSR1	chr22	29683123	+	ENST00000534087	FLI1	chr11	128675261	+	4095	1112	319	1815	498
ENST00000397938	EWSR1	chr22	29683123	+	ENST00000281428	FLI1	chr11	128675261	+	4094	1112	319	1815	498
ENST00000406548	EWSR1	chr22	29683123	+	ENST00000525560	FLI1	chr11	128675261	+	1969	857	64	1560	498
ENST00000406548	EWSR1	chr22	29683123	+	ENST00000344954	FLI1	chr11	128675261	+	3839	857	64	1560	498
ENST00000406548	EWSR1	chr22	29683123	+	ENST00000527786	FLI1	chr11	128675261	+	3840	857	64	1560	498
ENST00000406548	EWSR1	chr22	29683123	+	ENST00000534087	FLI1	chr11	128675261	+	3840	857	64	1560	498
ENST00000406548	EWSR1	chr22	29683123	+	ENST00000281428	FLI1	chr11	128675261	+	3839	857	64	1560	498
ENST00000331029	EWSR1	chr22	29683123	+	ENST00000525560	FLI1	chr11	128675261	+	1951	839	46	1542	498
ENST00000331029	EWSR1	chr22	29683123	+	ENST00000344954	FLI1	chr11	128675261	+	3821	839	46	1542	498
ENST00000331029	EWSR1	chr22	29683123	+	ENST00000527786	FLI1	chr11	128675261	+	3822	839	46	1542	498
ENST00000331029	EWSR1	chr22	29683123	+	ENST00000534087	FLI1	chr11	128675261	+	3822	839	46	1542	498
ENST00000331029	EWSR1	chr22	29683123	+	ENST00000281428	FLI1	chr11	128675261	+	3821	839	46	1542	498
ENST00000414183	EWSR1	chr22	29683123	+	ENST00000525560	FLI1	chr11	128675261	+	1944	832	21	1535	504
ENST00000414183	EWSR1	chr22	29683123	+	ENST00000344954	FLI1	chr11	128675261	+	3814	832	21	1535	504
ENST00000414183	EWSR1	chr22	29683123	+	ENST00000527786	FLI1	chr11	128675261	+	3815	832	21	1535	504
ENST00000414183	EWSR1	chr22	29683123	+	ENST00000534087	FLI1	chr11	128675261	+	3815	832	21	1535	504
ENST00000414183	EWSR1	chr22	29683123	+	ENST00000281428	FLI1	chr11	128675261	+	3814	832	21	1535	504
ENST00000333395	EWSR1	chr22	29683123	+	ENST00000525560	FLI1	chr11	128675261	+	1924	812	19	1515	498
ENST00000333395	EWSR1	chr22	29683123	+	ENST00000344954	FLI1	chr11	128675261	+	3794	812	19	1515	498
ENST00000333395	EWSR1	chr22	29683123	+	ENST00000527786	FLI1	chr11	128675261	+	3795	812	19	1515	498
ENST00000333395	EWSR1	chr22	29683123	+	ENST00000534087	FLI1	chr11	128675261	+	3795	812	19	1515	498
ENST00000333395	EWSR1	chr22	29683123	+	ENST00000281428	FLI1	chr11	128675261	+	3794	812	19	1515	498
ENST00000332035	EWSR1	chr22	29683123	+	ENST00000525560	FLI1	chr11	128675261	+	1748	636	11	1339	442
ENST00000332035	EWSR1	chr22	29683123	+	ENST00000344954	FLI1	chr11	128675261	+	3618	636	11	1339	442
ENST00000332035	EWSR1	chr22	29683123	+	ENST00000527786	FLI1	chr11	128675261	+	3619	636	11	1339	442
ENST00000332035	EWSR1	chr22	29683123	+	ENST00000534087	FLI1	chr11	128675261	+	3619	636	11	1339	442
ENST00000332035	EWSR1	chr22	29683123	+	ENST00000281428	FLI1	chr11	128675261	+	3618	636	11	1339	442
ENST00000332050	EWSR1	chr22	29683125	+	ENST00000525560	FLI1	chr11	128651853	+	2299	1121	328	1890	520
ENST00000332050	EWSR1	chr22	29683125	+	ENST00000344954	FLI1	chr11	128651853	+	4169	1121	328	1890	520
ENST00000332050	EWSR1	chr22	29683125	+	ENST00000527786	FLI1	chr11	128651853	+	4170	1121	328	1890	520
ENST00000332050	EWSR1	chr22	29683125	+	ENST00000534087	FLI1	chr11	128651853	+	4170	1121	328	1890	520
ENST00000332050	EWSR1	chr22	29683125	+	ENST00000281428	FLI1	chr11	128651853	+	4169	1121	328	1890	520
ENST00000397938	EWSR1	chr22	29683125	+	ENST00000525560	FLI1	chr11	128651853	+	2290	1112	319	1881	520
ENST00000397938	EWSR1	chr22	29683125	+	ENST00000344954	FLI1	chr11	128651853	+	4160	1112	319	1881	520
ENST00000397938	EWSR1	chr22	29683125	+	ENST00000527786	FLI1	chr11	128651853	+	4161	1112	319	1881	520
ENST00000397938	EWSR1	chr22	29683125	+	ENST00000534087	FLI1	chr11	128651853	+	4161	1112	319	1881	520
ENST00000397938	EWSR1	chr22	29683125	+	ENST00000281428	FLI1	chr11	128651853	+	4160	1112	319	1881	520
ENST00000406548	EWSR1	chr22	29683125	+	ENST00000525560	FLI1	chr11	128651853	+	2035	857	64	1626	520
ENST00000406548	EWSR1	chr22	29683125	+	ENST00000344954	FLI1	chr11	128651853	+	3905	857	64	1626	520
ENST00000406548	EWSR1	chr22	29683125	+	ENST00000527786	FLI1	chr11	128651853	+	3906	857	64	1626	520
ENST00000406548	EWSR1	chr22	29683125	+	ENST00000534087	FLI1	chr11	128651853	+	3906	857	64	1626	520
ENST00000406548	EWSR1	chr22	29683125	+	ENST00000281428	FLI1	chr11	128651853	+	3905	857	64	1626	520
ENST00000331029	EWSR1	chr22	29683125	+	ENST00000525560	FLI1	chr11	128651853	+	2017	839	46	1608	520
ENST00000331029	EWSR1	chr22	29683125	+	ENST00000344954	FLI1	chr11	128651853	+	3887	839	46	1608	520
ENST00000331029	EWSR1	chr22	29683125	+	ENST00000527786	FLI1	chr11	128651853	+	3888	839	46	1608	520
ENST00000331029	EWSR1	chr22	29683125	+	ENST00000534087	FLI1	chr11	128651853	+	3888	839	46	1608	520
ENST00000331029	EWSR1	chr22	29683125	+	ENST00000281428	FLI1	chr11	128651853	+	3887	839	46	1608	520
ENST00000414183	EWSR1	chr22	29683125	+	ENST00000525560	FLI1	chr11	128651853	+	2010	832	21	1601	526
ENST00000414183	EWSR1	chr22	29683125	+	ENST00000344954	FLI1	chr11	128651853	+	3880	832	21	1601	526
ENST00000414183	EWSR1	chr22	29683125	+	ENST00000527786	FLI1	chr11	128651853	+	3881	832	21	1601	526
ENST00000414183	EWSR1	chr22	29683125	+	ENST00000534087	FLI1	chr11	128651853	+	3881	832	21	1601	526
ENST00000414183	EWSR1	chr22	29683125	+	ENST00000281428	FLI1	chr11	128651853	+	3880	832	21	1601	526
ENST00000333395	EWSR1	chr22	29683125	+	ENST00000525560	FLI1	chr11	128651853	+	1990	812	19	1581	520
ENST00000333395	EWSR1	chr22	29683125	+	ENST00000344954	FLI1	chr11	128651853	+	3860	812	19	1581	520
ENST00000333395	EWSR1	chr22	29683125	+	ENST00000527786	FLI1	chr11	128651853	+	3861	812	19	1581	520
ENST00000333395	EWSR1	chr22	29683125	+	ENST00000534087	FLI1	chr11	128651853	+	3861	812	19	1581	520
ENST00000333395	EWSR1	chr22	29683125	+	ENST00000281428	FLI1	chr11	128651853	+	3860	812	19	1581	520
ENST00000332035	EWSR1	chr22	29683125	+	ENST00000525560	FLI1	chr11	128651853	+	1814	636	11	1405	464
ENST00000332035	EWSR1	chr22	29683125	+	ENST00000344954	FLI1	chr11	128651853	+	3684	636	11	1405	464
ENST00000332035	EWSR1	chr22	29683125	+	ENST00000527786	FLI1	chr11	128651853	+	3685	636	11	1405	464
ENST00000332035	EWSR1	chr22	29683125	+	ENST00000534087	FLI1	chr11	128651853	+	3685	636	11	1405	464
ENST00000332035	EWSR1	chr22	29683125	+	ENST00000281428	FLI1	chr11	128651853	+	3684	636	11	1405	464

DeepORF 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.

Henst	Tenst	Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand	No-coding score	Coding score
ENST00000332050	ENST00000525560	EWSR1	chr22	29683125		FLI1	chr11	128677075		0.003241372	0.99675864
ENST00000332050	ENST00000344954	EWSR1	chr22	29683125		FLI1	chr11	128677075		0.000488165	0.99951184
ENST00000332050	ENST00000527786	EWSR1	chr22	29683125		FLI1	chr11	128677075		0.000489457	0.9995105
ENST00000332050	ENST00000534087	EWSR1	chr22	29683125		FLI1	chr11	128677075		0.000489457	0.9995105
ENST00000332050	ENST00000281428	EWSR1	chr22	29683125		FLI1	chr11	128677075		0.000488165	0.99951184
ENST00000397938	ENST00000525560	EWSR1	chr22	29683125		FLI1	chr11	128677075		0.002980245	0.9970197
ENST00000397938	ENST00000344954	EWSR1	chr22	29683125		FLI1	chr11	128677075		0.000474823	0.9995252
ENST00000397938	ENST00000527786	EWSR1	chr22	29683125		FLI1	chr11	128677075		0.000476085	0.9995239
ENST00000397938	ENST00000534087	EWSR1	chr22	29683125		FLI1	chr11	128677075		0.000476085	0.9995239
ENST00000397938	ENST00000281428	EWSR1	chr22	29683125		FLI1	chr11	128677075		0.000474823	0.9995252
ENST00000406548	ENST00000525560	EWSR1	chr22	29683125		FLI1	chr11	128677075		0.002532896	0.99746716
ENST00000406548	ENST00000344954	EWSR1	chr22	29683125		FLI1	chr11	128677075		0.000427374	0.9995726
ENST00000406548	ENST00000527786	EWSR1	chr22	29683125		FLI1	chr11	128677075		0.000429007	0.999571
ENST00000406548	ENST00000534087	EWSR1	chr22	29683125		FLI1	chr11	128677075		0.000429007	0.999571
ENST00000406548	ENST00000281428	EWSR1	chr22	29683125		FLI1	chr11	128677075		0.000427374	0.9995726
ENST00000331029	ENST00000525560	EWSR1	chr22	29683125		FLI1	chr11	128677075		0.002462012	0.997538
ENST00000331029	ENST00000344954	EWSR1	chr22	29683125		FLI1	chr11	128677075		0.000430443	0.9995696
ENST00000331029	ENST00000527786	EWSR1	chr22	29683125		FLI1	chr11	128677075		0.000432221	0.9995678
ENST00000331029	ENST00000534087	EWSR1	chr22	29683125		FLI1	chr11	128677075		0.000432221	0.9995678
ENST00000331029	ENST00000281428	EWSR1	chr22	29683125		FLI1	chr11	128677075		0.000430443	0.9995696
ENST00000414183	ENST00000525560	EWSR1	chr22	29683125		FLI1	chr11	128677075		0.002242218	0.99775785
ENST00000414183	ENST00000344954	EWSR1	chr22	29683125		FLI1	chr11	128677075		0.000410113	0.99958986
ENST00000414183	ENST00000527786	EWSR1	chr22	29683125		FLI1	chr11	128677075		0.000411795	0.9995882
ENST00000414183	ENST00000534087	EWSR1	chr22	29683125		FLI1	chr11	128677075		0.000411795	0.9995882
ENST00000414183	ENST00000281428	EWSR1	chr22	29683125		FLI1	chr11	128677075		0.000410113	0.99958986
ENST00000333395	ENST00000525560	EWSR1	chr22	29683125		FLI1	chr11	128677075		0.002241643	0.99775827
ENST00000333395	ENST00000344954	EWSR1	chr22	29683125		FLI1	chr11	128677075		0.000415628	0.9995844
ENST00000333395	ENST00000527786	EWSR1	chr22	29683125		FLI1	chr11	128677075		0.000417225	0.9995828
ENST00000333395	ENST00000534087	EWSR1	chr22	29683125		FLI1	chr11	128677075		0.000417225	0.9995828
ENST00000333395	ENST00000281428	EWSR1	chr22	29683125		FLI1	chr11	128677075		0.000415628	0.9995844
ENST00000332035	ENST00000525560	EWSR1	chr22	29683125		FLI1	chr11	128677075		0.001721853	0.99827814
ENST00000332035	ENST00000344954	EWSR1	chr22	29683125		FLI1	chr11	128677075		0.000411243	0.9995888
ENST00000332035	ENST00000527786	EWSR1	chr22	29683125		FLI1	chr11	128677075		0.000412822	0.99958724
ENST00000332035	ENST00000534087	EWSR1	chr22	29683125		FLI1	chr11	128677075		0.000412822	0.99958724
ENST00000332035	ENST00000281428	EWSR1	chr22	29683125		FLI1	chr11	128677075		0.000411243	0.9995888
ENST00000332050	ENST00000525560	EWSR1	chr22	29683123	+	FLI1	chr11	128679052	+	0.00231554	0.9976845
ENST00000332050	ENST00000344954	EWSR1	chr22	29683123	+	FLI1	chr11	128679052	+	0.000377047	0.99962294
ENST00000332050	ENST00000527786	EWSR1	chr22	29683123	+	FLI1	chr11	128679052	+	0.000377829	0.9996221
ENST00000332050	ENST00000534087	EWSR1	chr22	29683123	+	FLI1	chr11	128679052	+	0.000377829	0.9996221
ENST00000332050	ENST00000281428	EWSR1	chr22	29683123	+	FLI1	chr11	128679052	+	0.000377047	0.99962294
ENST00000397938	ENST00000525560	EWSR1	chr22	29683123	+	FLI1	chr11	128679052	+	0.002127404	0.9978726
ENST00000397938	ENST00000344954	EWSR1	chr22	29683123	+	FLI1	chr11	128679052	+	0.000366492	0.99963355
ENST00000397938	ENST00000527786	EWSR1	chr22	29683123	+	FLI1	chr11	128679052	+	0.000367257	0.9996327
ENST00000397938	ENST00000534087	EWSR1	chr22	29683123	+	FLI1	chr11	128679052	+	0.000367257	0.9996327
ENST00000397938	ENST00000281428	EWSR1	chr22	29683123	+	FLI1	chr11	128679052	+	0.000366492	0.99963355
ENST00000406548	ENST00000525560	EWSR1	chr22	29683123	+	FLI1	chr11	128679052	+	0.001697567	0.99830246
ENST00000406548	ENST00000344954	EWSR1	chr22	29683123	+	FLI1	chr11	128679052	+	0.000330554	0.99966943
ENST00000406548	ENST00000527786	EWSR1	chr22	29683123	+	FLI1	chr11	128679052	+	0.000331968	0.999668
ENST00000406548	ENST00000534087	EWSR1	chr22	29683123	+	FLI1	chr11	128679052	+	0.000331968	0.999668
ENST00000406548	ENST00000281428	EWSR1	chr22	29683123	+	FLI1	chr11	128679052	+	0.000330554	0.99966943
ENST00000331029	ENST00000525560	EWSR1	chr22	29683123	+	FLI1	chr11	128679052	+	0.001673668	0.99832636
ENST00000331029	ENST00000344954	EWSR1	chr22	29683123	+	FLI1	chr11	128679052	+	0.000332265	0.99966776
ENST00000331029	ENST00000527786	EWSR1	chr22	29683123	+	FLI1	chr11	128679052	+	0.000333647	0.99966633
ENST00000331029	ENST00000534087	EWSR1	chr22	29683123	+	FLI1	chr11	128679052	+	0.000333647	0.99966633
ENST00000331029	ENST00000281428	EWSR1	chr22	29683123	+	FLI1	chr11	128679052	+	0.000332265	0.99966776
ENST00000414183	ENST00000525560	EWSR1	chr22	29683123	+	FLI1	chr11	128679052	+	0.001894531	0.9981054
ENST00000414183	ENST00000344954	EWSR1	chr22	29683123	+	FLI1	chr11	128679052	+	0.000426673	0.9995733
ENST00000414183	ENST00000527786	EWSR1	chr22	29683123	+	FLI1	chr11	128679052	+	0.000428416	0.9995716
ENST00000414183	ENST00000534087	EWSR1	chr22	29683123	+	FLI1	chr11	128679052	+	0.000428416	0.9995716
ENST00000414183	ENST00000281428	EWSR1	chr22	29683123	+	FLI1	chr11	128679052	+	0.000426673	0.9995733
ENST00000333395	ENST00000525560	EWSR1	chr22	29683123	+	FLI1	chr11	128679052	+	0.00153309	0.9984669
ENST00000333395	ENST00000344954	EWSR1	chr22	29683123	+	FLI1	chr11	128679052	+	0.000322492	0.99967754
ENST00000333395	ENST00000527786	EWSR1	chr22	29683123	+	FLI1	chr11	128679052	+	0.000323837	0.9996762
ENST00000333395	ENST00000534087	EWSR1	chr22	29683123	+	FLI1	chr11	128679052	+	0.000323837	0.9996762
ENST00000333395	ENST00000281428	EWSR1	chr22	29683123	+	FLI1	chr11	128679052	+	0.000322492	0.99967754
ENST00000332035	ENST00000525560	EWSR1	chr22	29683123	+	FLI1	chr11	128679052	+	0.001286106	0.99871385
ENST00000332035	ENST00000344954	EWSR1	chr22	29683123	+	FLI1	chr11	128679052	+	0.000385851	0.9996141
ENST00000332035	ENST00000527786	EWSR1	chr22	29683123	+	FLI1	chr11	128679052	+	0.000386836	0.9996132
ENST00000332035	ENST00000534087	EWSR1	chr22	29683123	+	FLI1	chr11	128679052	+	0.000386836	0.9996132
ENST00000332035	ENST00000281428	EWSR1	chr22	29683123	+	FLI1	chr11	128679052	+	0.000385851	0.9996141
ENST00000332050	ENST00000525560	EWSR1	chr22	29683123	+	FLI1	chr11	128675261	+	0.002935194	0.99706477
ENST00000332050	ENST00000344954	EWSR1	chr22	29683123	+	FLI1	chr11	128675261	+	0.000404508	0.99959546
ENST00000332050	ENST00000527786	EWSR1	chr22	29683123	+	FLI1	chr11	128675261	+	0.000405863	0.99959415
ENST00000332050	ENST00000534087	EWSR1	chr22	29683123	+	FLI1	chr11	128675261	+	0.000405863	0.99959415
ENST00000332050	ENST00000281428	EWSR1	chr22	29683123	+	FLI1	chr11	128675261	+	0.000404508	0.99959546
ENST00000397938	ENST00000525560	EWSR1	chr22	29683123	+	FLI1	chr11	128675261	+	0.00270391	0.99729604
ENST00000397938	ENST00000344954	EWSR1	chr22	29683123	+	FLI1	chr11	128675261	+	0.000393955	0.9996061
ENST00000397938	ENST00000527786	EWSR1	chr22	29683123	+	FLI1	chr11	128675261	+	0.000395181	0.9996049
ENST00000397938	ENST00000534087	EWSR1	chr22	29683123	+	FLI1	chr11	128675261	+	0.000395181	0.9996049
ENST00000397938	ENST00000281428	EWSR1	chr22	29683123	+	FLI1	chr11	128675261	+	0.000393955	0.9996061
ENST00000406548	ENST00000525560	EWSR1	chr22	29683123	+	FLI1	chr11	128675261	+	0.00227986	0.99772006
ENST00000406548	ENST00000344954	EWSR1	chr22	29683123	+	FLI1	chr11	128675261	+	0.00035521	0.99964476
ENST00000406548	ENST00000527786	EWSR1	chr22	29683123	+	FLI1	chr11	128675261	+	0.000356524	0.99964345
ENST00000406548	ENST00000534087	EWSR1	chr22	29683123	+	FLI1	chr11	128675261	+	0.000356524	0.99964345
ENST00000406548	ENST00000281428	EWSR1	chr22	29683123	+	FLI1	chr11	128675261	+	0.00035521	0.99964476
ENST00000331029	ENST00000525560	EWSR1	chr22	29683123	+	FLI1	chr11	128675261	+	0.002226505	0.99777347
ENST00000331029	ENST00000344954	EWSR1	chr22	29683123	+	FLI1	chr11	128675261	+	0.000358042	0.9996419
ENST00000331029	ENST00000527786	EWSR1	chr22	29683123	+	FLI1	chr11	128675261	+	0.000359371	0.9996406
ENST00000331029	ENST00000534087	EWSR1	chr22	29683123	+	FLI1	chr11	128675261	+	0.000359371	0.9996406
ENST00000331029	ENST00000281428	EWSR1	chr22	29683123	+	FLI1	chr11	128675261	+	0.000358042	0.9996419
ENST00000414183	ENST00000525560	EWSR1	chr22	29683123	+	FLI1	chr11	128675261	+	0.002195295	0.9978047
ENST00000414183	ENST00000344954	EWSR1	chr22	29683123	+	FLI1	chr11	128675261	+	0.000372208	0.9996278
ENST00000414183	ENST00000527786	EWSR1	chr22	29683123	+	FLI1	chr11	128675261	+	0.000373807	0.99962616
ENST00000414183	ENST00000534087	EWSR1	chr22	29683123	+	FLI1	chr11	128675261	+	0.000373807	0.99962616
ENST00000414183	ENST00000281428	EWSR1	chr22	29683123	+	FLI1	chr11	128675261	+	0.000372208	0.9996278
ENST00000333395	ENST00000525560	EWSR1	chr22	29683123	+	FLI1	chr11	128675261	+	0.002023556	0.9979765
ENST00000333395	ENST00000344954	EWSR1	chr22	29683123	+	FLI1	chr11	128675261	+	0.000345034	0.999655
ENST00000333395	ENST00000527786	EWSR1	chr22	29683123	+	FLI1	chr11	128675261	+	0.000346433	0.9996536
ENST00000333395	ENST00000534087	EWSR1	chr22	29683123	+	FLI1	chr11	128675261	+	0.000346433	0.9996536
ENST00000333395	ENST00000281428	EWSR1	chr22	29683123	+	FLI1	chr11	128675261	+	0.000345034	0.999655
ENST00000332035	ENST00000525560	EWSR1	chr22	29683123	+	FLI1	chr11	128675261	+	0.002149279	0.9978508
ENST00000332035	ENST00000344954	EWSR1	chr22	29683123	+	FLI1	chr11	128675261	+	0.00050878	0.9994912
ENST00000332035	ENST00000527786	EWSR1	chr22	29683123	+	FLI1	chr11	128675261	+	0.000511161	0.99948883
ENST00000332035	ENST00000534087	EWSR1	chr22	29683123	+	FLI1	chr11	128675261	+	0.000511161	0.99948883
ENST00000332035	ENST00000281428	EWSR1	chr22	29683123	+	FLI1	chr11	128675261	+	0.00050878	0.9994912
ENST00000332050	ENST00000525560	EWSR1	chr22	29683125	+	FLI1	chr11	128651853	+	0.00372376	0.99627626
ENST00000332050	ENST00000344954	EWSR1	chr22	29683125	+	FLI1	chr11	128651853	+	0.00046518	0.99953485
ENST00000332050	ENST00000527786	EWSR1	chr22	29683125	+	FLI1	chr11	128651853	+	0.000466592	0.9995334
ENST00000332050	ENST00000534087	EWSR1	chr22	29683125	+	FLI1	chr11	128651853	+	0.000466592	0.9995334
ENST00000332050	ENST00000281428	EWSR1	chr22	29683125	+	FLI1	chr11	128651853	+	0.00046518	0.99953485
ENST00000397938	ENST00000525560	EWSR1	chr22	29683125	+	FLI1	chr11	128651853	+	0.003480026	0.9965199
ENST00000397938	ENST00000344954	EWSR1	chr22	29683125	+	FLI1	chr11	128651853	+	0.000453212	0.9995467
ENST00000397938	ENST00000527786	EWSR1	chr22	29683125	+	FLI1	chr11	128651853	+	0.00045484	0.99954516
ENST00000397938	ENST00000534087	EWSR1	chr22	29683125	+	FLI1	chr11	128651853	+	0.00045484	0.99954516
ENST00000397938	ENST00000281428	EWSR1	chr22	29683125	+	FLI1	chr11	128651853	+	0.000453212	0.9995467
ENST00000406548	ENST00000525560	EWSR1	chr22	29683125	+	FLI1	chr11	128651853	+	0.003018325	0.9969817
ENST00000406548	ENST00000344954	EWSR1	chr22	29683125	+	FLI1	chr11	128651853	+	0.000416553	0.9995834
ENST00000406548	ENST00000527786	EWSR1	chr22	29683125	+	FLI1	chr11	128651853	+	0.000418063	0.999582
ENST00000406548	ENST00000534087	EWSR1	chr22	29683125	+	FLI1	chr11	128651853	+	0.000418063	0.999582
ENST00000406548	ENST00000281428	EWSR1	chr22	29683125	+	FLI1	chr11	128651853	+	0.000416553	0.9995834
ENST00000331029	ENST00000525560	EWSR1	chr22	29683125	+	FLI1	chr11	128651853	+	0.002930795	0.9970692
ENST00000331029	ENST00000344954	EWSR1	chr22	29683125	+	FLI1	chr11	128651853	+	0.000419438	0.99958056
ENST00000331029	ENST00000527786	EWSR1	chr22	29683125	+	FLI1	chr11	128651853	+	0.000421117	0.9995789
ENST00000331029	ENST00000534087	EWSR1	chr22	29683125	+	FLI1	chr11	128651853	+	0.000421117	0.9995789
ENST00000331029	ENST00000281428	EWSR1	chr22	29683125	+	FLI1	chr11	128651853	+	0.000419438	0.99958056
ENST00000414183	ENST00000525560	EWSR1	chr22	29683125	+	FLI1	chr11	128651853	+	0.002678816	0.9973212
ENST00000414183	ENST00000344954	EWSR1	chr22	29683125	+	FLI1	chr11	128651853	+	0.000405974	0.99959403
ENST00000414183	ENST00000527786	EWSR1	chr22	29683125	+	FLI1	chr11	128651853	+	0.000407534	0.9995925
ENST00000414183	ENST00000534087	EWSR1	chr22	29683125	+	FLI1	chr11	128651853	+	0.000407534	0.9995925
ENST00000414183	ENST00000281428	EWSR1	chr22	29683125	+	FLI1	chr11	128651853	+	0.000405974	0.99959403
ENST00000333395	ENST00000525560	EWSR1	chr22	29683125	+	FLI1	chr11	128651853	+	0.002618467	0.9973815
ENST00000333395	ENST00000344954	EWSR1	chr22	29683125	+	FLI1	chr11	128651853	+	0.000406825	0.9995932
ENST00000333395	ENST00000527786	EWSR1	chr22	29683125	+	FLI1	chr11	128651853	+	0.000408626	0.9995914
ENST00000333395	ENST00000534087	EWSR1	chr22	29683125	+	FLI1	chr11	128651853	+	0.000408626	0.9995914
ENST00000333395	ENST00000281428	EWSR1	chr22	29683125	+	FLI1	chr11	128651853	+	0.000406825	0.9995932
ENST00000332035	ENST00000525560	EWSR1	chr22	29683125	+	FLI1	chr11	128651853	+	0.002247238	0.9977527
ENST00000332035	ENST00000344954	EWSR1	chr22	29683125	+	FLI1	chr11	128651853	+	0.000404184	0.9995958
ENST00000332035	ENST00000527786	EWSR1	chr22	29683125	+	FLI1	chr11	128651853	+	0.00040596	0.99959403
ENST00000332035	ENST00000534087	EWSR1	chr22	29683125	+	FLI1	chr11	128651853	+	0.00040596	0.99959403
ENST00000332035	ENST00000281428	EWSR1	chr22	29683125	+	FLI1	chr11	128651853	+	0.000404184	0.9995958

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 EWSR1-FLI1

+/-13 AA sequence from the breakpoints of the fusion protein sequences.

Hgene	Hchr	Hbp	Tgene	Tchr	Tbp	Length(fusion protein)	BP in fusion protein	Peptide
EWSR1	chr22	29683123	FLI1	chr11	128675261	1112	265	QYSQQSSSYGQQNPSYDSVRRGAWGN
EWSR1	chr22	29683123	FLI1	chr11	128675261	1121	265	QYSQQSSSYGQQNPSYDSVRRGAWGN
EWSR1	chr22	29683123	FLI1	chr11	128675261	636	209	QYSQQSSSYGQQNPSYDSVRRGAWGN
EWSR1	chr22	29683123	FLI1	chr11	128675261	812	265	QYSQQSSSYGQQNPSYDSVRRGAWGN
EWSR1	chr22	29683123	FLI1	chr11	128675261	832	271	QYSQQSSSYGQQNPSYDSVRRGAWGN
EWSR1	chr22	29683123	FLI1	chr11	128675261	839	265	QYSQQSSSYGQQNPSYDSVRRGAWGN
EWSR1	chr22	29683123	FLI1	chr11	128675261	857	265	QYSQQSSSYGQQNPSYDSVRRGAWGN
EWSR1	chr22	29683123	FLI1	chr11	128679052	1112	265	QYSQQSSSYGQQNPYQILGPTSSRLA
EWSR1	chr22	29683123	FLI1	chr11	128679052	1121	265	QYSQQSSSYGQQNPYQILGPTSSRLA
EWSR1	chr22	29683123	FLI1	chr11	128679052	636	209	QYSQQSSSYGQQNPYQILGPTSSRLA
EWSR1	chr22	29683123	FLI1	chr11	128679052	812	265	QYSQQSSSYGQQNPYQILGPTSSRLA
EWSR1	chr22	29683123	FLI1	chr11	128679052	832	271	QYSQQSSSYGQQNPYQILGPTSSRLA
EWSR1	chr22	29683123	FLI1	chr11	128679052	839	265	QYSQQSSSYGQQNPYQILGPTSSRLA
EWSR1	chr22	29683123	FLI1	chr11	128679052	857	265	QYSQQSSSYGQQNPYQILGPTSSRLA
EWSR1	chr22	29683125	FLI1	chr11	128651853	1112	265	QYSQQSSSYGQQSSLLAYNTTSHTDQ
EWSR1	chr22	29683125	FLI1	chr11	128651853	1121	265	QYSQQSSSYGQQSSLLAYNTTSHTDQ
EWSR1	chr22	29683125	FLI1	chr11	128651853	636	209	QYSQQSSSYGQQSSLLAYNTTSHTDQ
EWSR1	chr22	29683125	FLI1	chr11	128651853	812	265	QYSQQSSSYGQQSSLLAYNTTSHTDQ
EWSR1	chr22	29683125	FLI1	chr11	128651853	832	271	QYSQQSSSYGQQSSLLAYNTTSHTDQ
EWSR1	chr22	29683125	FLI1	chr11	128651853	839	265	QYSQQSSSYGQQSSLLAYNTTSHTDQ
EWSR1	chr22	29683125	FLI1	chr11	128651853	857	265	QYSQQSSSYGQQSSLLAYNTTSHTDQ
EWSR1	chr22	29683125	FLI1	chr11	128677075	1112	265	QYSQQSSSYGQQSPPLGGAQTISKNT
EWSR1	chr22	29683125	FLI1	chr11	128677075	1121	265	QYSQQSSSYGQQSPPLGGAQTISKNT
EWSR1	chr22	29683125	FLI1	chr11	128677075	636	209	QYSQQSSSYGQQSPPLGGAQTISKNT
EWSR1	chr22	29683125	FLI1	chr11	128677075	812	265	QYSQQSSSYGQQSPPLGGAQTISKNT
EWSR1	chr22	29683125	FLI1	chr11	128677075	832	271	QYSQQSSSYGQQSPPLGGAQTISKNT
EWSR1	chr22	29683125	FLI1	chr11	128677075	839	265	QYSQQSSSYGQQSPPLGGAQTISKNT
EWSR1	chr22	29683125	FLI1	chr11	128677075	857	265	QYSQQSSSYGQQSPPLGGAQTISKNT

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Potential FusionNeoAntigen Information of EWSR1-FLI1 in HLA I

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.

EWSR1-FLI1_29683123_128675261.msa
EWSR1-FLI1_29683125_128651853.msa
EWSR1-FLI1_29683125_128677075.msa

Potential FusionNeoAntigen Information
* We used NetMHCpan v4.1 (%rank<0.5) and deepHLApan v1.1 (immunogenic score>0.5)

Fusion gene	Hchr	Hbp	Tgene	Tchr	Tbp	HLA I	FusionNeoAntigen peptide	Binding score	Immunogenic score	Neoantigen start (at BP 13)	Neoantigen end (at BP 13)
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-B48:01	QQNPSYDSV	0.9224	0.6671	10	19
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-B13:02	QQNPSYDSV	0.8351	0.7522	10	19
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-A02:21	QQNPSYDSV	0.7605	0.621	10	19
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-B13:01	QQNPSYDSV	0.6113	0.9721	10	19
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-B39:13	QQNPSYDSV	0.5448	0.9536	10	19
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-B15:18	SYGQQNPSY	0.2352	0.5331	7	16
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-B52:01	QQNPSYDSV	0.0461	0.9855	10	19
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-B15:25	SSYGQQNPSY	0.9993	0.715	6	16
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-B15:01	SSYGQQNPSY	0.999	0.6523	6	16
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-B15:17	SSYGQQNPSY	0.9934	0.6987	6	16
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-B15:02	SSYGQQNPSY	0.9932	0.7141	6	16
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-B15:16	SSYGQQNPSY	0.9721	0.5178	6	16
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-B13:02	GQQNPSYDSV	0.8122	0.8286	9	19
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-B15:21	SYGQQNPSY	0.7366	0.7496	7	16
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-B39:08	QQNPSYDSV	0.7139	0.919	10	19
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-B48:03	QQNPSYDSV	0.5009	0.5092	10	19
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-C07:10	SYGQQNPSY	0.4387	0.8136	7	16
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-C07:67	SYGQQNPSY	0.4377	0.7709	7	16
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-C07:80	SYGQQNPSY	0.4377	0.7709	7	16
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-C07:46	SYGQQNPSY	0.4319	0.6619	7	16
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-C07:27	SYGQQNPSY	0.3807	0.8099	7	16
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-B15:05	SSYGQQNPSY	0.9916	0.5035	6	16
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-C15:04	SSYGQQNPSY	0.9874	0.6348	6	16
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-B15:04	SSYGQQNPSY	0.9821	0.6613	6	16
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-B15:73	QQNPSYDSV	0.8864	0.8701	10	19
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-B15:30	QQNPSYDSV	0.7906	0.8473	10	19
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-A02:06	QQNPSYDSV	0.7605	0.621	10	19
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-B39:02	QQNPSYDSV	0.6797	0.9532	10	19
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-B39:11	QQNPSYDSV	0.6227	0.9083	10	19
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-B40:12	QQNPSYDSV	0.5009	0.5092	10	19
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-C07:17	SYGQQNPSY	0.4818	0.8339	7	16
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-C07:02	SYGQQNPSY	0.4377	0.7709	7	16
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-C06:06	SYGQQNPSY	0.0434	0.9666	7	16
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-C14:02	SYGQQNPSY	0.0165	0.8735	7	16
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-C14:03	SYGQQNPSY	0.0165	0.8735	7	16
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-B15:39	SSYGQQNPSY	0.9993	0.6188	6	16
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-B15:27	SSYGQQNPSY	0.999	0.6472	6	16
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-B15:33	SSYGQQNPSY	0.999	0.6523	6	16
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-B15:34	SSYGQQNPSY	0.999	0.6523	6	16
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-B15:125	SSYGQQNPSY	0.999	0.6523	6	16
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-B15:135	SSYGQQNPSY	0.9989	0.6958	6	16
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-B15:50	SSYGQQNPSY	0.998	0.6396	6	16
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-B15:35	SSYGQQNPSY	0.9973	0.5972	6	16
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-B15:20	SSYGQQNPSY	0.992	0.5818	6	16
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-C03:02	SSYGQQNPSY	0.9908	0.8403	6	16
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-B15:12	SSYGQQNPSY	0.9894	0.6725	6	16
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-B35:28	SSYGQQNPSY	0.9876	0.595	6	16
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-C15:09	SSYGQQNPSY	0.9874	0.6348	6	16
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-B58:06	SSYGQQNPSY	0.9852	0.6299	6	16
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-C02:10	SSYGQQNPSY	0.8339	0.8936	6	16
EWSR1-FLI1	chr22	29683123	chr11	128675261	839	HLA-C02:02	SSYGQQNPSY	0.8339	0.8936	6	16
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:01	QQSSLLAY	0.9996	0.803	10	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:25	QQSSLLAY	0.985	0.9282	10	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:03	QQSSLLAY	0.8059	0.8077	10	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:01	GQQSSLLAY	0.9997	0.746	9	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:17	SSYGQQSSL	0.9784	0.8527	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:25	GQQSSLLAY	0.9718	0.8863	9	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-A24:25	SYGQQSSLL	0.9705	0.5555	7	16
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-A24:20	SYGQQSSLL	0.9684	0.554	7	16
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-A24:15	SYGQQSSLL	0.9657	0.5577	7	16
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:16	SSYGQQSSL	0.9627	0.7103	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-A24:31	SYGQQSSLL	0.9624	0.568	7	16
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:02	GQQSSLLAY	0.8977	0.9052	9	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B14:01	SSYGQQSSL	0.8318	0.694	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B14:02	SSYGQQSSL	0.8318	0.694	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-A24:17	SYGQQSSLL	0.8216	0.5246	7	16
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-A24:14	SYGQQSSLL	0.6699	0.5691	7	16
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:03	GQQSSLLAY	0.547	0.707	9	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B52:01	SSYGQQSSL	0.5259	0.9749	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-A30:08	SSYGQQSSL	0.4038	0.7473	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:18	GQQSSLLAY	0.3798	0.6593	9	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B13:01	GQQSSLLAY	0.3147	0.952	9	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:01	YGQQSSLLAY	0.9983	0.737	8	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:25	YGQQSSLLAY	0.9892	0.8483	8	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:02	YGQQSSLLAY	0.9618	0.8665	8	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:03	YGQQSSLLAY	0.8089	0.6313	8	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:25	SYGQQSSLLAY	0.9777	0.8319	7	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:01	SYGQQSSLLAY	0.9761	0.718	7	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:03	SYGQQSSLLAY	0.8041	0.6406	7	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:07	QQSSLLAY	0.9962	0.6588	10	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:05	QQSSLLAY	0.9203	0.8903	10	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C15:04	SSYGQQSSL	0.9997	0.7741	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C03:19	SSYGQQSSL	0.9995	0.9562	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C15:06	SSYGQQSSL	0.9995	0.845	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C03:07	SSYGQQSSL	0.9995	0.9616	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C03:08	SSYGQQSSL	0.9993	0.8613	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C12:12	SSYGQQSSL	0.9976	0.82	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C06:03	SSYGQQSSL	0.9966	0.9703	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C12:04	SSYGQQSSL	0.9963	0.9802	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C04:06	SSYGQQSSL	0.995	0.788	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C08:13	SSYGQQSSL	0.9917	0.8341	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C08:04	SSYGQQSSL	0.9917	0.8341	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C12:16	SSYGQQSSL	0.9902	0.9009	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C01:17	SSYGQQSSL	0.9814	0.9143	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:04	SSYGQQSSL	0.9707	0.8613	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-A24:02	SYGQQSSLL	0.9684	0.554	7	16
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C07:13	SSYGQQSSL	0.9354	0.8749	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C01:30	SSYGQQSSL	0.9284	0.9394	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:04	GQQSSLLAY	0.9109	0.8273	9	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:07	GQQSSLLAY	0.9073	0.5881	9	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C07:29	SSYGQQSSL	0.9028	0.8603	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C02:06	SSYGQQSSL	0.9022	0.9118	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:21	GQQSSLLAY	0.8823	0.8672	9	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C08:03	SSYGQQSSL	0.8657	0.9411	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C03:14	SSYGQQSSL	0.8424	0.9262	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:05	GQQSSLLAY	0.7635	0.7635	9	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B14:03	SSYGQQSSL	0.739	0.7948	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C04:10	SYGQQSSLL	0.6897	0.9185	7	16
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:31	GQQSSLLAY	0.6669	0.7879	9	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C07:13	SYGQQSSLL	0.3837	0.9162	7	16
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C07:29	SYGQQSSLL	0.3763	0.9158	7	16
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C04:14	SYGQQSSLL	0.3333	0.915	7	16
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C07:10	SYGQQSSLL	0.2964	0.9432	7	16
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C07:80	SYGQQSSLL	0.2657	0.9209	7	16
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C07:67	SYGQQSSLL	0.2657	0.9209	7	16
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C15:06	SSYGQQSSLL	0.9984	0.8445	6	16
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C03:08	SSYGQQSSLL	0.998	0.8698	6	16
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C03:08	SSSYGQQSSL	0.9977	0.8508	5	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:07	YGQQSSLLAY	0.9894	0.5749	8	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:21	YGQQSSLLAY	0.9616	0.8398	8	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:05	YGQQSSLLAY	0.9432	0.728	8	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:31	YGQQSSLLAY	0.9224	0.7421	8	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:04	YGQQSSLLAY	0.8384	0.795	8	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:07	SYGQQSSLLAY	0.9694	0.5806	7	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:05	SYGQQSSLLAY	0.9564	0.6568	7	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:04	SYGQQSSLLAY	0.9314	0.7984	7	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:27	QQSSLLAY	0.9996	0.8055	10	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:34	QQSSLLAY	0.9996	0.803	10	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:33	QQSSLLAY	0.9996	0.803	10	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:135	QQSSLLAY	0.9996	0.7988	10	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:125	QQSSLLAY	0.9996	0.803	10	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:50	QQSSLLAY	0.9994	0.8132	10	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:35	QQSSLLAY	0.9984	0.7885	10	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:12	QQSSLLAY	0.998	0.7708	10	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:53	QQSSLLAY	0.9972	0.785	10	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:54	QQSSLLAY	0.9913	0.7622	10	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:39	QQSSLLAY	0.984	0.8458	10	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:20	QQSSLLAY	0.929	0.9301	10	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B35:28	QQSSLLAY	0.9095	0.9291	10	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C14:02	SYGQQSSL	0.8867	0.9488	7	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C14:03	SYGQQSSL	0.8867	0.9488	7	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:68	QQSSLLAY	0.8763	0.5949	10	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B18:04	QQSSLLAY	0.8102	0.8745	10	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B35:20	QQSSLLAY	0.78	0.9384	10	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B48:02	QQSSLLAY	0.565	0.9228	10	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C15:09	SSYGQQSSL	0.9997	0.7741	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:135	GQQSSLLAY	0.9997	0.7573	9	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:125	GQQSSLLAY	0.9997	0.746	9	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:27	GQQSSLLAY	0.9997	0.7714	9	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:34	GQQSSLLAY	0.9997	0.746	9	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:33	GQQSSLLAY	0.9997	0.746	9	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:50	GQQSSLLAY	0.9996	0.8285	9	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C03:04	SSYGQQSSL	0.9995	0.9795	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C03:03	SSYGQQSSL	0.9995	0.9795	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C15:05	SSYGQQSSL	0.9994	0.8542	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C15:02	SSYGQQSSL	0.9993	0.7721	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C03:67	SSYGQQSSL	0.9991	0.9706	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:24	GQQSSLLAY	0.999	0.8155	9	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C03:17	SSYGQQSSL	0.999	0.9541	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C03:05	SSYGQQSSL	0.9989	0.8824	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C03:02	SSYGQQSSL	0.9987	0.9402	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C16:04	SSYGQQSSL	0.9974	0.9305	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C12:03	SSYGQQSSL	0.9973	0.924	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:12	GQQSSLLAY	0.9969	0.7607	9	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C12:02	SSYGQQSSL	0.9964	0.9107	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:35	GQQSSLLAY	0.9963	0.7846	9	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C06:06	SSYGQQSSL	0.9948	0.9833	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C06:17	SSYGQQSSL	0.9939	0.9782	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C06:02	SSYGQQSSL	0.9939	0.9782	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C04:04	SSYGQQSSL	0.9926	0.7599	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C03:06	SSYGQQSSL	0.9891	0.974	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C01:03	SSYGQQSSL	0.9871	0.8302	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:53	GQQSSLLAY	0.9862	0.7272	9	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C01:02	SSYGQQSSL	0.9842	0.9141	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C16:01	SSYGQQSSL	0.9694	0.9573	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:39	GQQSSLLAY	0.969	0.7742	9	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C16:02	SSYGQQSSL	0.9637	0.9869	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:73	SSYGQQSSL	0.9401	0.8348	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C07:04	SSYGQQSSL	0.9319	0.9029	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:54	GQQSSLLAY	0.9233	0.6874	9	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B58:06	SSYGQQSSL	0.9208	0.7712	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:30	SSYGQQSSL	0.9161	0.721	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C07:22	SSYGQQSSL	0.8997	0.5576	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C08:01	SSYGQQSSL	0.8657	0.9411	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C02:10	SSYGQQSSL	0.8431	0.9476	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C02:02	SSYGQQSSL	0.8431	0.9476	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C06:08	SSYGQQSSL	0.8131	0.9731	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B35:13	SSYGQQSSL	0.8118	0.8152	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:20	GQQSSLLAY	0.7733	0.8508	9	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C07:01	SSYGQQSSL	0.7351	0.5589	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B18:11	GQQSSLLAY	0.7328	0.8263	9	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B35:28	GQQSSLLAY	0.7152	0.8591	9	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C17:01	SSYGQQSSL	0.6939	0.8576	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-A32:01	SSYGQQSSL	0.6858	0.8249	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B07:13	SSYGQQSSL	0.6823	0.7763	6	15
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C18:01	SYGQQSSLL	0.642	0.9205	7	16
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B35:20	GQQSSLLAY	0.6377	0.8682	9	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:73	GQQSSLLAY	0.5798	0.9107	9	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B18:04	GQQSSLLAY	0.5598	0.7984	9	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C14:03	SYGQQSSLL	0.4713	0.9533	7	16
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C14:02	SYGQQSSLL	0.4713	0.9533	7	16
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:30	GQQSSLLAY	0.457	0.8433	9	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C06:06	SYGQQSSLL	0.4007	0.9888	7	16
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B18:08	GQQSSLLAY	0.3185	0.7723	9	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B48:02	GQQSSLLAY	0.3062	0.8388	9	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C04:04	SYGQQSSLL	0.2941	0.8936	7	16
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C07:02	SYGQQSSLL	0.2657	0.9209	7	16
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-C07:04	SYGQQSSLL	0.1873	0.9257	7	16
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:27	YGQQSSLLAY	0.9985	0.7746	8	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:125	YGQQSSLLAY	0.9983	0.737	8	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:33	YGQQSSLLAY	0.9983	0.737	8	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:34	YGQQSSLLAY	0.9983	0.737	8	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:135	YGQQSSLLAY	0.998	0.7639	8	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:53	YGQQSSLLAY	0.9979	0.7132	8	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:12	YGQQSSLLAY	0.9954	0.7321	8	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:50	YGQQSSLLAY	0.9953	0.8233	8	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:24	YGQQSSLLAY	0.9949	0.8345	8	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:35	YGQQSSLLAY	0.9925	0.7813	8	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:39	YGQQSSLLAY	0.9894	0.715	8	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:54	YGQQSSLLAY	0.9692	0.6662	8	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:20	YGQQSSLLAY	0.9474	0.837	8	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B35:28	YGQQSSLLAY	0.9338	0.8473	8	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B35:20	YGQQSSLLAY	0.9216	0.8548	8	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B48:02	YGQQSSLLAY	0.602	0.816	8	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:12	SYGQQSSLLAY	0.9803	0.6827	7	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:50	SYGQQSSLLAY	0.9798	0.7443	7	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:39	SYGQQSSLLAY	0.9781	0.7104	7	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:34	SYGQQSSLLAY	0.9761	0.718	7	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:33	SYGQQSSLLAY	0.9761	0.718	7	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:125	SYGQQSSLLAY	0.9761	0.718	7	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:27	SYGQQSSLLAY	0.9754	0.7366	7	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:135	SYGQQSSLLAY	0.9738	0.7584	7	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:35	SYGQQSSLLAY	0.9716	0.7692	7	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:20	SYGQQSSLLAY	0.9594	0.7623	7	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B35:28	SYGQQSSLLAY	0.9486	0.7563	7	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:53	SYGQQSSLLAY	0.9484	0.6965	7	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B15:54	SYGQQSSLLAY	0.8416	0.6578	7	18
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	HLA-B48:02	SYGQQSSLLAY	0.6499	0.735	7	18
EWSR1-FLI1	chr22	29683125	chr11	128677075	839	HLA-A24:14	SYGQQSPPL	0.7362	0.5611	7	16
EWSR1-FLI1	chr22	29683125	chr11	128677075	839	HLA-C07:13	SYGQQSPPL	0.5977	0.8943	7	16
EWSR1-FLI1	chr22	29683125	chr11	128677075	839	HLA-C07:29	SYGQQSPPL	0.5743	0.8916	7	16
EWSR1-FLI1	chr22	29683125	chr11	128677075	839	HLA-B39:10	SPPLGGAQTI	0.2974	0.8736	12	22
EWSR1-FLI1	chr22	29683125	chr11	128677075	839	HLA-C14:03	SYGQQSPPL	0.4673	0.9446	7	16
EWSR1-FLI1	chr22	29683125	chr11	128677075	839	HLA-C14:02	SYGQQSPPL	0.4673	0.9446	7	16
EWSR1-FLI1	chr22	29683125	chr11	128677075	839	HLA-B67:01	SPPLGGAQTI	0.3247	0.8509	12	22

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Potential FusionNeoAntigen Information of EWSR1-FLI1 in HLA II

EWSR1-FLI1_29683125_128651853.msa

Potential FusionNeoAntigen Information
* We used NetMHCIIpan v4.1 (%rank<0.5).

Fusion gene	Hchr	Hbp	Tgene	Tchr	Tbp	HLA II	FusionNeoAntigen peptide	Neoantigen start (at BP 13)	Neoantigen end (at BP 13)
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	DRB1-0473	QSSLLAYNTTSHTDQ	11	26
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	DRB3-0201	QSSLLAYNTTSHTDQ	11	26
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	DRB3-0202	QSSLLAYNTTSHTDQ	11	26
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	DRB3-0204	QSSLLAYNTTSHTDQ	11	26
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	DRB3-0205	QSSLLAYNTTSHTDQ	11	26
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	DRB3-0210	QSSLLAYNTTSHTDQ	11	26
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	DRB3-0211	QSSLLAYNTTSHTDQ	11	26
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	DRB3-0212	QSSLLAYNTTSHTDQ	11	26
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	DRB3-0214	QSSLLAYNTTSHTDQ	11	26
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	DRB3-0215	QSSLLAYNTTSHTDQ	11	26
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	DRB3-0218	QSSLLAYNTTSHTDQ	11	26
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	DRB3-0220	QSSLLAYNTTSHTDQ	11	26
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	DRB3-0223	QSSLLAYNTTSHTDQ	11	26
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	DRB3-0224	QSSLLAYNTTSHTDQ	11	26
EWSR1-FLI1	chr22	29683125	chr11	128651853	839	DRB3-0225	QSSLLAYNTTSHTDQ	11	26

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Fusion breakpoint peptide structures of EWSR1-FLI1

3D 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.

File name	BPseq	Hgene	Tgene	Hchr	Hbp	Tchr	Tbp	AAlen
9079	SSYGQQNPSYDSVR	EWSR1	FLI1	chr22	29683123	chr11	128675261	839

File name	BPseq	Hgene	Tgene	Hchr	Hbp	Tchr	Tbp	AAlen
9083	SSYGQQSPPLGGAQ	EWSR1	FLI1	chr22	29683125	chr11	128677075	839

File name	BPseq	Hgene	Tgene	Hchr	Hbp	Tchr	Tbp	AAlen
9086	SSYGQQSSLLAYNT	EWSR1	FLI1	chr22	29683125	chr11	128651853	839

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Filtering FusionNeoAntigens Through Checking the Interaction with HLAs in 3D of EWSR1-FLI1

Virtual screening between 25 HLAs (from PDB) and FusionNeoAntigens
* We used Glide to predict the interaction between HLAs and neoantigens.

HLA allele	PDB ID	File name	BPseq	Docking score	Glide score
HLA-B14:02	3BVN	9079	SSYGQQNPSYDSVR	-7.63753	-7.75093
HLA-B14:02	3BVN	9079	SSYGQQNPSYDSVR	-4.36349	-5.39879
HLA-B52:01	3W39	9079	SSYGQQNPSYDSVR	-6.74822	-6.86162
HLA-B52:01	3W39	9079	SSYGQQNPSYDSVR	-4.96916	-6.00446
HLA-A24:02	5HGA	9079	SSYGQQNPSYDSVR	-8.26666	-9.30196
HLA-A24:02	5HGA	9079	SSYGQQNPSYDSVR	-7.6208	-7.7342
HLA-B27:03	6PZ5	9079	SSYGQQNPSYDSVR	0.0420189	-0.993281
HLA-B44:05	3DX8	9079	SSYGQQNPSYDSVR	-5.06122	-5.17462
HLA-B44:05	3DX8	9079	SSYGQQNPSYDSVR	-4.87073	-5.90603
HLA-B14:02	3BVN	9083	SSYGQQSPPLGGAQ	-6.15779	-7.19309
HLA-B14:02	3BVN	9083	SSYGQQSPPLGGAQ	-5.42154	-5.53494
HLA-B52:01	3W39	9083	SSYGQQSPPLGGAQ	-6.31003	-7.34533
HLA-B52:01	3W39	9083	SSYGQQSPPLGGAQ	-5.72549	-5.83889
HLA-A11:01	4UQ2	9083	SSYGQQSPPLGGAQ	-10.3617	-10.4751
HLA-A11:01	4UQ2	9083	SSYGQQSPPLGGAQ	-6.62574	-7.66104
HLA-A24:02	5HGA	9083	SSYGQQSPPLGGAQ	-7.32817	-7.44157
HLA-A24:02	5HGA	9083	SSYGQQSPPLGGAQ	-5.51285	-6.54815
HLA-B44:05	3DX8	9083	SSYGQQSPPLGGAQ	-6.27581	-7.31111
HLA-B44:05	3DX8	9083	SSYGQQSPPLGGAQ	-5.0724	-5.1858
HLA-A02:01	6TDR	9083	SSYGQQSPPLGGAQ	-2.75053	-2.86393
HLA-B14:02	3BVN	9086	SSYGQQSSLLAYNT	-5.64589	-6.68119
HLA-B14:02	3BVN	9086	SSYGQQSSLLAYNT	-4.54753	-4.66093
HLA-B52:01	3W39	9086	SSYGQQSSLLAYNT	-6.53765	-6.65105
HLA-B52:01	3W39	9086	SSYGQQSSLLAYNT	-5.80356	-6.83886
HLA-A11:01	4UQ2	9086	SSYGQQSSLLAYNT	-7.98463	-8.09803
HLA-A11:01	4UQ2	9086	SSYGQQSSLLAYNT	1.26497	0.229667
HLA-A24:02	5HGA	9086	SSYGQQSSLLAYNT	-6.61895	-7.65425
HLA-A24:02	5HGA	9086	SSYGQQSSLLAYNT	-6.50579	-6.61919
HLA-B44:05	3DX8	9086	SSYGQQSSLLAYNT	-6.85703	-6.97043
HLA-B44:05	3DX8	9086	SSYGQQSSLLAYNT	-4.89356	-5.92886

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Vaccine Design for the FusionNeoAntigens of EWSR1-FLI1

mRNA and peptide sequences of FusionNeoAntigens that have potential interaction with HLA-Is.

Fusion gene	Hchr	Hbp	Tchr	Tbp	Start in +/-13AA	End in +/-13AA	FusionNeoAntigen peptide sequence	FusionNeoAntigen RNA sequence
EWSR1-FLI1	chr22	29683123	chr11	128675261	10	19	QQNPSYDSV	GGCAGCAGAACCCTTCTTATGACTCAG
EWSR1-FLI1	chr22	29683123	chr11	128675261	6	16	SSYGQQNPSY	GCAGCAGCTACGGGCAGCAGAACCCTTCTT
EWSR1-FLI1	chr22	29683123	chr11	128675261	7	16	SYGQQNPSY	GCAGCTACGGGCAGCAGAACCCTTCTT
EWSR1-FLI1	chr22	29683123	chr11	128675261	9	19	GQQNPSYDSV	ACGGGCAGCAGAACCCTTCTTATGACTCAG
EWSR1-FLI1	chr22	29683125	chr11	128651853	10	18	QQSSLLAY	GGCAGCAGAGTTCACTGCTGGCCT
EWSR1-FLI1	chr22	29683125	chr11	128651853	5	15	SSSYGQQSSL	AGAGCAGCAGCTACGGGCAGCAGAGTTCAC
EWSR1-FLI1	chr22	29683125	chr11	128651853	6	15	SSYGQQSSL	GCAGCAGCTACGGGCAGCAGAGTTCAC
EWSR1-FLI1	chr22	29683125	chr11	128651853	6	16	SSYGQQSSLL	GCAGCAGCTACGGGCAGCAGAGTTCACTGC
EWSR1-FLI1	chr22	29683125	chr11	128651853	7	15	SYGQQSSL	GCAGCTACGGGCAGCAGAGTTCAC
EWSR1-FLI1	chr22	29683125	chr11	128651853	7	16	SYGQQSSLL	GCAGCTACGGGCAGCAGAGTTCACTGC
EWSR1-FLI1	chr22	29683125	chr11	128651853	7	18	SYGQQSSLLAY	GCAGCTACGGGCAGCAGAGTTCACTGCTGGCCT
EWSR1-FLI1	chr22	29683125	chr11	128651853	8	18	YGQQSSLLAY	GCTACGGGCAGCAGAGTTCACTGCTGGCCT
EWSR1-FLI1	chr22	29683125	chr11	128651853	9	18	GQQSSLLAY	ACGGGCAGCAGAGTTCACTGCTGGCCT
EWSR1-FLI1	chr22	29683125	chr11	128677075	12	22	SPPLGGAQTI	AGAGTCCTCCCCTTGGAGGGGCACAAACGA
EWSR1-FLI1	chr22	29683125	chr11	128677075	7	16	SYGQQSPPL	GCAGCTACGGGCAGCAGAGTCCTCCCC

mRNA and peptide sequences of FusionNeoAntigens that have potential interaction with HLA-IIs.

Fusion gene	Hchr	Hbp	Tchr	Tbp	Start in +/-13AA	End in +/-13AA	FusionNeoAntigen peptide	FusionNEoAntigen RNA sequence
EWSR1-FLI1	chr22	29683125	chr11	128651853	11	26	QSSLLAYNTTSHTDQ	AGCAGAGTTCACTGCTGGCCTATAATACAACCTCCCACACCGACC

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Information of the samples that have these potential fusion neoantigens of EWSR1-FLI1

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 type	Fusion gene	Hchr	Hbp	Henst	Tchr	Tbp	Tenst	Sample
meduloblastoma	EWSR1-FLI1	chr22	29683125	ENST00000331029	chr11	128677075	ENST00000281428	AF327066
N/A	EWSR1-FLI1	chr22	29683123	ENST00000331029	chr11	128675261	ENST00000281428	HW906199
N/A	EWSR1-FLI1	chr22	29683125	ENST00000331029	chr11	128651853	ENST00000281428	JF290490
N/A	EWSR1-FLI1	chr22	29683125	ENST00000331029	chr11	128677075	ENST00000281428	S62665

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Potential target of CAR-T therapy development for EWSR1-FLI1

Predicted 3D structure. We used RoseTTAFold.

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, 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'.

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Protein feature

Protein feature note

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.

Hgene

Hchr

Hbp

Henst

Tgene

Tchr

Tbp

Tenst

DeepLoc result

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Related Drugs to EWSR1-FLI1

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

Hgene

Tgene

Drug

Source

PMID

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Related Diseases to EWSR1-FLI1

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

Hgene	Tgene	Disease	Source	PMID
EWSR1	FLI1	Ewing Sarcoma	MyCancerGenome
EWSR1	FLI1	Sarcoma	MyCancerGenome
EWSR1	FLI1	Nos	MyCancerGenome
EWSR1	FLI1	Soft Tissue Neoplasm	MyCancerGenome
EWSR1	FLI1	Unknown	MyCancerGenome
EWSR1	FLI1	Breast Invasive Ductal Carcinoma	MyCancerGenome

Diseases associated with fusion partners.
(DisGeNet 4.0)

Partner	Gene	Disease ID	Disease name	# pubmeds	Source
Hgene	EWSR1	C0553580	Ewings sarcoma	3	CTD_human;ORPHANET
Hgene	EWSR1	C0002736	Amyotrophic Lateral Sclerosis	1	GENOMICS_ENGLAND
Hgene	EWSR1	C0033578	Prostatic Neoplasms	1	CTD_human
Hgene	EWSR1	C0206651	Clear Cell Sarcoma of Soft Tissue	1	ORPHANET
Hgene	EWSR1	C0206663	Neuroectodermal Tumor, Primitive	1	CTD_human
Hgene	EWSR1	C0279980	Extra-osseous Ewing's sarcoma	1	ORPHANET
Hgene	EWSR1	C0334584	Spongioblastoma	1	CTD_human
Hgene	EWSR1	C0334596	Medulloepithelioma	1	CTD_human
Hgene	EWSR1	C0376358	Malignant neoplasm of prostate	1	CTD_human
Hgene	EWSR1	C0700367	Ependymoblastoma	1	CTD_human
Hgene	EWSR1	C0751675	Cerebral Primitive Neuroectodermal Tumor	1	CTD_human
Hgene	EWSR1	C1275278	Extraskeletal Myxoid Chondrosarcoma	1	ORPHANET
Tgene	FLI1	C0279980	Extra-osseous Ewing's sarcoma	4	ORPHANET
Tgene	FLI1	C0553580	Ewings sarcoma	3	CTD_human;ORPHANET
Tgene	FLI1	C4479515	BLEEDING DISORDER, PLATELET-TYPE, 21	3	CTD_human;GENOMICS_ENGLAND;UNIPROT
Tgene	FLI1	C0684337	Ewings sarcoma-primitive neuroectodermal tumor (PNET)	2	ORPHANET
Tgene	FLI1	C1956093	Paris-Trousseau Thrombocytopenia	2	ORPHANET
Tgene	FLI1	C0023893	Liver Cirrhosis, Experimental	1	CTD_human
Tgene	FLI1	C0025149	Medulloblastoma	1	CTD_human
Tgene	FLI1	C0205833	Medullomyoblastoma	1	CTD_human
Tgene	FLI1	C0278510	Childhood Medulloblastoma	1	CTD_human
Tgene	FLI1	C0278876	Adult Medulloblastoma	1	CTD_human
Tgene	FLI1	C0751291	Desmoplastic Medulloblastoma	1	CTD_human
Tgene	FLI1	C0795841	Jacobsen Distal 11q Deletion Syndrome	1	ORPHANET
Tgene	FLI1	C1275668	Melanotic medulloblastoma	1	CTD_human

	Fusion Gene and Fusion Protein Summary
	Fusion Amino Acid Sequences (multiple BPs and multiple gene isoforms)
	Fusion Protein Breakpoint Sequences - (for the Screening of the FusionNeoAntigens)
	Potential FusionNeoAntigens in HLA I - (netMHCpan v4.1 + deepHLApan v1.1)
	Potential FusionNeoAntigens in HLA II - (netMHCIIpan v4.1)
	Fusion Breakpoint 14 AA Peptide Structure - (RoseTTAFold)
	Filtering FusionNeoAntigens Through Checking the Interaction with HLAs in 3D - (Glide)
	Vaccine Design for the FusionNeoAntigens (RNA/protein sequences)
	Potential target of CAR-T therapy development
	Information on the samples that have these potential fusion neoantigens
	Fusion Protein Targeting Drugs - (Manual Curation)
	Fusion Protein Related diseases - (Manual Curation)