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Fusion Protein:GTF2I-BCAP29

Fusion Gene and Fusion Protein Summary

Fusion gene summary

Fusion partner gene information	Fusion gene name: GTF2I-BCAP29
	FusionPDB ID: 35219
	FusionGDB2.0 ID: 35219
		Hgene	Tgene
	Gene symbol	GTF2I	BCAP29
	Gene ID	2969	55973
	Gene name	general transcription factor IIi	B cell receptor associated protein 29
	Synonyms	BAP135\|BTKAP1\|DIWS\|GTFII-I\|IB291\|SPIN\|TFII-I\|WBS\|WBSCR6	BAP29
	Cytomap	7q11.23	7q22.3
	Type of gene	protein-coding	protein-coding
	Description	general transcription factor II-IBTK-associated protein, 135kDBruton tyrosine kinase-associated protein 135SRF-Phox1-interacting proteinWilliams-Beuren syndrome chromosome region 6	B-cell receptor-associated protein 29BCR-associated protein 29
	Modification date	20200313	20200313
	UniProtAcc	Q6EKJ0 Main function of 5'-partner protein:	Q9UHQ4 Main function of 5'-partner protein: FUNCTION: May play a role in anterograde transport of membrane proteins from the endoplasmic reticulum to the Golgi. May be involved in CASP8-mediated apoptosis (By similarity). {ECO:0000250}.
Ensembl transtripts involved in fusion gene	ENST ids	ENST00000324896, ENST00000346152, ENST00000353920, ENST00000416070, ENST00000443166, ENST00000438130,	ENST00000379117, ENST00000379119, ENST00000379121, ENST00000445771, ENST00000494086, ENST00000005259, ENST00000465919,
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)	* DoF score	13 X 15 X 8=1560	5 X 5 X 4=100
	# samples	14	5
	** MAII score	log2(14/1560*10)=-3.47804729680464 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0	log2(5/100*10)=-1 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0
Fusion gene context	PubMed: GTF2I [Title/Abstract] AND BCAP29 [Title/Abstract] AND fusion [Title/Abstract]
Fusion neoantigen context	PubMed: GTF2I [Title/Abstract] AND BCAP29 [Title/Abstract] AND neoantigen [Title/Abstract]
Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)	GTF2I(74125440)-BCAP29(107253776), # samples:1
Anticipated loss of major functional domain due to fusion event.	GTF2I-BCAP29 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. GTF2I-BCAP29 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. GTF2I-BCAP29 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. GTF2I-BCAP29 seems lost the major protein functional domain in Hgene partner, which is a essential gene by not retaining the major functional domain in the partially deleted in-frame ORF.

* DoF score (Degree of Frequency) = # partners X # break points X # cancer types
** MAII score (Major Active Isofusion Index) = log2(# samples/DoF score*10)

Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez

Partner	Gene	GO ID	GO term	PubMed ID
Hgene	GTF2I	GO:0016525	negative regulation of angiogenesis	19242469

Four levels of functional features of fusion genes
Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/chr7:74125440/chr7:107253776)
- 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 GTF2I (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 BCAP29 (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)
ENST00000324896	GTF2I	chr7	74125440	+	ENST00000005259	BCAP29	chr7	107253776	+	4796	1152	119	1288	389
ENST00000324896	GTF2I	chr7	74125440	+	ENST00000465919	BCAP29	chr7	107253776	+	1541	1152	119	1288	389
ENST00000353920	GTF2I	chr7	74125440	+	ENST00000005259	BCAP29	chr7	107253776	+	4723	1079	46	1215	389
ENST00000353920	GTF2I	chr7	74125440	+	ENST00000465919	BCAP29	chr7	107253776	+	1468	1079	46	1215	389
ENST00000346152	GTF2I	chr7	74125440	+	ENST00000005259	BCAP29	chr7	107253776	+	4723	1079	46	1215	389
ENST00000346152	GTF2I	chr7	74125440	+	ENST00000465919	BCAP29	chr7	107253776	+	1468	1079	46	1215	389
ENST00000416070	GTF2I	chr7	74125440	+	ENST00000005259	BCAP29	chr7	107253776	+	4723	1079	46	1215	389
ENST00000416070	GTF2I	chr7	74125440	+	ENST00000465919	BCAP29	chr7	107253776	+	1468	1079	46	1215	389
ENST00000443166	GTF2I	chr7	74125440	+	ENST00000005259	BCAP29	chr7	107253776	+	4450	806	43	942	299
ENST00000443166	GTF2I	chr7	74125440	+	ENST00000465919	BCAP29	chr7	107253776	+	1195	806	43	942	299

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
ENST00000324896	ENST00000005259	GTF2I	chr7	74125440	+	BCAP29	chr7	107253776	+	0.000413759	0.9995863
ENST00000324896	ENST00000465919	GTF2I	chr7	74125440	+	BCAP29	chr7	107253776	+	0.001546499	0.9984535
ENST00000353920	ENST00000005259	GTF2I	chr7	74125440	+	BCAP29	chr7	107253776	+	0.000379773	0.9996202
ENST00000353920	ENST00000465919	GTF2I	chr7	74125440	+	BCAP29	chr7	107253776	+	0.001285436	0.99871457
ENST00000346152	ENST00000005259	GTF2I	chr7	74125440	+	BCAP29	chr7	107253776	+	0.000379773	0.9996202
ENST00000346152	ENST00000465919	GTF2I	chr7	74125440	+	BCAP29	chr7	107253776	+	0.001285436	0.99871457
ENST00000416070	ENST00000005259	GTF2I	chr7	74125440	+	BCAP29	chr7	107253776	+	0.000379773	0.9996202
ENST00000416070	ENST00000465919	GTF2I	chr7	74125440	+	BCAP29	chr7	107253776	+	0.001285436	0.99871457
ENST00000443166	ENST00000005259	GTF2I	chr7	74125440	+	BCAP29	chr7	107253776	+	0.000346595	0.99965346
ENST00000443166	ENST00000465919	GTF2I	chr7	74125440	+	BCAP29	chr7	107253776	+	0.000914488	0.99908555

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 GTF2I-BCAP29

+/-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
GTF2I	chr7	74125440	BCAP29	chr7	107253776	1079	344	ESEDPDYYQYNIQALSKAQNDVMEMK
GTF2I	chr7	74125440	BCAP29	chr7	107253776	1152	344	ESEDPDYYQYNIQALSKAQNDVMEMK
GTF2I	chr7	74125440	BCAP29	chr7	107253776	806	254	ESEDPDYYQYNIQALSKAQNDVMEMK

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Potential FusionNeoAntigen Information of GTF2I-BCAP29 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.

GTF2I-BCAP29_74125440_107253776.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)
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-B39:06	YQYNIQAL	0.9891	0.9077	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-B14:02	YQYNIQAL	0.9867	0.7846	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-B14:01	YQYNIQAL	0.9867	0.7846	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-B39:01	YQYNIQAL	0.9818	0.9631	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-B39:13	YQYNIQAL	0.9676	0.969	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-B15:18	YQYNIQAL	0.9663	0.7425	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-B15:10	YQYNIQAL	0.961	0.6426	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-B15:03	YQYNIQAL	0.9607	0.7744	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-B13:01	YQYNIQAL	0.9389	0.8296	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-B47:01	YQYNIQAL	0.9204	0.6587	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-B15:37	YQYNIQAL	0.782	0.5965	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-B52:01	YQYNIQAL	0.6287	0.6281	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-B14:02	YYQYNIQAL	0.8229	0.7233	6	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-B14:01	YYQYNIQAL	0.8229	0.7233	6	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-B15:10	YYQYNIQAL	0.4013	0.5971	6	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-B15:37	YYQYNIQAL	0.2824	0.6206	6	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-C12:12	YQYNIQAL	0.9995	0.9677	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-B15:07	YQYNIQAL	0.9975	0.7438	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-B15:04	YQYNIQAL	0.9968	0.8588	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-B39:09	YQYNIQAL	0.9914	0.7235	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-C03:19	YQYNIQAL	0.991	0.9847	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-C07:13	YQYNIQAL	0.9896	0.9449	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-C08:13	YQYNIQAL	0.9886	0.9633	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-C08:04	YQYNIQAL	0.9886	0.9633	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-C07:29	YQYNIQAL	0.9813	0.9732	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-C08:03	YQYNIQAL	0.9767	0.9805	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-B39:12	YQYNIQAL	0.9719	0.9652	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-C12:16	YQYNIQAL	0.9702	0.9826	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-B39:05	YQYNIQAL	0.9657	0.9531	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-B39:08	YQYNIQAL	0.9438	0.8951	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-C02:06	YQYNIQAL	0.9271	0.9887	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-B14:03	YQYNIQAL	0.8117	0.8214	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-C01:30	YQYNIQAL	0.7764	0.965	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-B51:07	YQYNIQAL	0.5782	0.5756	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-B39:09	YYQYNIQAL	0.6818	0.5952	6	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-B39:12	YYQYNIQAL	0.6521	0.935	6	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-C07:05	YYQYNIQAL	0.5092	0.9724	6	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-C12:16	YYQYNIQAL	0.4972	0.9755	6	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-C07:13	YYQYNIQAL	0.4961	0.9111	6	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-C07:10	YYQYNIQAL	0.4864	0.948	6	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-C07:29	YYQYNIQAL	0.4839	0.9654	6	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-C07:67	YYQYNIQAL	0.4708	0.9392	6	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-C07:80	YYQYNIQAL	0.4708	0.9392	6	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-B15:21	YYQYNIQAL	0.441	0.9121	6	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-C07:46	YYQYNIQAL	0.4375	0.8478	6	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-B14:03	YYQYNIQAL	0.4207	0.801	6	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-C07:19	YYQYNIQAL	0.4166	0.6944	6	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-C04:10	YYQYNIQAL	0.3932	0.7039	6	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-C07:27	YYQYNIQAL	0.3922	0.9596	6	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-C04:07	YYQYNIQAL	0.3856	0.7114	6	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-C04:14	YYQYNIQAL	0.3623	0.7161	6	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-C07:95	YYQYNIQAL	0.3303	0.7112	6	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-C01:17	YYQYNIQAL	0.2792	0.9594	6	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-C01:30	YYQYNIQAL	0.1758	0.9599	6	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-B15:50	YQYNIQAL	0.9981	0.9671	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-B15:73	YQYNIQAL	0.9966	0.8981	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-B15:54	YQYNIQAL	0.9963	0.8655	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-B15:53	YQYNIQAL	0.9957	0.8913	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-B15:68	YQYNIQAL	0.9946	0.6816	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-B15:30	YQYNIQAL	0.9923	0.9089	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-C03:04	YQYNIQAL	0.9892	0.9873	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-C03:03	YQYNIQAL	0.9892	0.9873	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-C12:02	YQYNIQAL	0.9824	0.9871	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-C03:05	YQYNIQAL	0.9785	0.9105	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-B39:31	YQYNIQAL	0.9776	0.9638	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-B39:02	YQYNIQAL	0.9772	0.971	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-C08:01	YQYNIQAL	0.9767	0.9805	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-C03:67	YQYNIQAL	0.9701	0.9777	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-A02:14	YQYNIQAL	0.9623	0.7433	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-C07:17	YQYNIQAL	0.9596	0.9771	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-B39:11	YQYNIQAL	0.9292	0.8652	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-B15:09	YQYNIQAL	0.8912	0.5427	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-B48:02	YQYNIQAL	0.8176	0.9067	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-B35:28	YQYNIQAL	0.6456	0.9108	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-B18:04	YQYNIQAL	0.635	0.9712	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-B07:13	YQYNIQAL	0.6343	0.8489	7	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-C03:67	YYQYNIQAL	0.6508	0.9771	6	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-B39:11	YYQYNIQAL	0.4718	0.7214	6	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-C07:02	YYQYNIQAL	0.4708	0.9392	6	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-C14:02	YYQYNIQAL	0.4686	0.9678	6	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-C14:03	YYQYNIQAL	0.4686	0.9678	6	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-C07:04	YYQYNIQAL	0.4684	0.9258	6	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-C06:17	YYQYNIQAL	0.4526	0.9964	6	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-C06:02	YYQYNIQAL	0.4526	0.9964	6	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-C07:22	YYQYNIQAL	0.4508	0.7947	6	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-C04:04	YYQYNIQAL	0.421	0.7599	6	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-C07:17	YYQYNIQAL	0.4077	0.9714	6	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-C04:01	YYQYNIQAL	0.3856	0.7114	6	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-C07:01	YYQYNIQAL	0.3514	0.6876	6	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-C06:06	YYQYNIQAL	0.3463	0.992	6	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-B15:09	YYQYNIQAL	0.3381	0.5027	6	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-B08:12	YYQYNIQAL	0.3333	0.5283	6	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-C18:01	YYQYNIQAL	0.3327	0.7354	6	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-C01:02	YYQYNIQAL	0.279	0.9586	6	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-C01:03	YYQYNIQAL	0.2731	0.9496	6	15
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	HLA-C06:08	YYQYNIQAL	0.228	0.9942	6	15

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Potential FusionNeoAntigen Information of GTF2I-BCAP29 in HLA II

GTF2I-BCAP29_74125440_107253776.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)
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-0434	PDYYQYNIQALSKAQ	4	19
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-0466	PDYYQYNIQALSKAQ	4	19
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-0466	DPDYYQYNIQALSKA	3	18
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-0802	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-0802	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-0804	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-0804	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-0804	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-0806	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-0806	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-0806	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-0809	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-0809	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-0810	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-0810	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-0810	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-0812	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-0812	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-0812	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-0813	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-0813	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-0815	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-0820	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-0820	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-0820	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-0821	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-0821	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-0822	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-0822	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-0822	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-0824	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-0824	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-0828	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-0828	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-0828	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-0830	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-0831	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-0831	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-0831	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-0832	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-0902	PDYYQYNIQALSKAQ	4	19
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1104	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1104	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1104	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1105	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1105	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1106	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1106	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1106	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1113	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1113	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1118	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1118	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1118	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1125	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1125	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1125	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1130	PDYYQYNIQALSKAQ	4	19
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1130	DPDYYQYNIQALSKA	3	18
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1132	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1132	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1134	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1134	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1135	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1135	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1135	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1137	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1138	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1138	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1138	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1142	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1142	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1142	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1143	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1143	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1143	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1144	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1144	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1144	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1146	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1146	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1146	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1147	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1147	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1147	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1150	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1150	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1150	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1153	PDYYQYNIQALSKAQ	4	19
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1154	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1154	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1154	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1156	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1156	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1156	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1157	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1157	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1157	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1158	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1158	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1158	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1160	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1160	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1160	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1167	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1167	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1167	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1172	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1172	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1177	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1177	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1177	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1178	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1178	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1178	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1183	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1183	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1183	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1184	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1184	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1184	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1188	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1188	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1188	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1189	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1189	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1192	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1192	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1192	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1204	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1204	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1204	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1209	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1209	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1209	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1220	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1220	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1220	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1306	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1306	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1306	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1307	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1311	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1311	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1311	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1318	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1318	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1318	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1326	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1326	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1342	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1342	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1342	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1344	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1344	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1347	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1358	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1358	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1358	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1367	PDYYQYNIQALSKAQ	4	19
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1367	DPDYYQYNIQALSKA	3	18
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1385	PDYYQYNIQALSKAQ	4	19
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1385	DPDYYQYNIQALSKA	3	18
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1402	PDYYQYNIQALSKAQ	4	19
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1403	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1403	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1403	PDYYQYNIQALSKAQ	4	19
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1406	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1406	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1406	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1409	PDYYQYNIQALSKAQ	4	19
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1411	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1411	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1412	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1412	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1412	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1415	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1415	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1415	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1417	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1417	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1419	PDYYQYNIQALSKAQ	4	19
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1419	DPDYYQYNIQALSKA	3	18
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1420	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1420	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1420	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1422	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1424	PDYYQYNIQALSKAQ	4	19
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1424	DPDYYQYNIQALSKA	3	18
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1425	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1427	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1427	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1429	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1429	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1433	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1433	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1434	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1434	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1440	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1440	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1440	PDYYQYNIQALSKAQ	4	19
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1441	PDYYQYNIQALSKAQ	4	19
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1446	PDYYQYNIQALSKAQ	4	19
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1446	DPDYYQYNIQALSKA	3	18
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1447	PDYYQYNIQALSKAQ	4	19
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1447	DPDYYQYNIQALSKA	3	18
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1451	PDYYQYNIQALSKAQ	4	19
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1451	DPDYYQYNIQALSKA	3	18
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1452	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1452	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1452	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1453	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1467	PDYYQYNIQALSKAQ	4	19
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1473	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1473	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1473	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1474	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1474	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1474	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1477	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1477	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1477	PDYYQYNIQALSKAQ	4	19
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1478	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1478	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1478	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1480	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1480	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1480	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1481	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1481	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1483	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1483	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1483	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1484	YQYNIQALSKAQNDV	7	22
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1484	QYNIQALSKAQNDVM	8	23
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1484	YYQYNIQALSKAQND	6	21
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1489	PDYYQYNIQALSKAQ	4	19
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1494	PDYYQYNIQALSKAQ	4	19
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1498	PDYYQYNIQALSKAQ	4	19
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1498	DPDYYQYNIQALSKA	3	18
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1502	DPDYYQYNIQALSKA	3	18
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1502	EDPDYYQYNIQALSK	2	17
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1508	DPDYYQYNIQALSKA	3	18
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1508	EDPDYYQYNIQALSK	2	17
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1511	DPDYYQYNIQALSKA	3	18
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1511	EDPDYYQYNIQALSK	2	17
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1514	DPDYYQYNIQALSKA	3	18
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1514	EDPDYYQYNIQALSK	2	17
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1515	DPDYYQYNIQALSKA	3	18
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1515	EDPDYYQYNIQALSK	2	17
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1519	DPDYYQYNIQALSKA	3	18
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1519	EDPDYYQYNIQALSK	2	17
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1526	DPDYYQYNIQALSKA	3	18
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1526	EDPDYYQYNIQALSK	2	17
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1529	DPDYYQYNIQALSKA	3	18
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1529	EDPDYYQYNIQALSK	2	17
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1529	SEDPDYYQYNIQALS	1	16
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1530	DPDYYQYNIQALSKA	3	18
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1530	EDPDYYQYNIQALSK	2	17
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1531	DPDYYQYNIQALSKA	3	18
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1531	EDPDYYQYNIQALSK	2	17
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1538	DPDYYQYNIQALSKA	3	18
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1538	EDPDYYQYNIQALSK	2	17
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1539	DPDYYQYNIQALSKA	3	18
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1539	EDPDYYQYNIQALSK	2	17
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1544	DPDYYQYNIQALSKA	3	18
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1544	EDPDYYQYNIQALSK	2	17
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1547	DPDYYQYNIQALSKA	3	18
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB1-1547	EDPDYYQYNIQALSK	2	17
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0202	PDYYQYNIQALSKAQ	4	19
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0202	DPDYYQYNIQALSKA	3	18
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0202	EDPDYYQYNIQALSK	2	17
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0202	DYYQYNIQALSKAQN	5	20
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0205	PDYYQYNIQALSKAQ	4	19
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0205	DPDYYQYNIQALSKA	3	18
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0205	EDPDYYQYNIQALSK	2	17
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0205	DYYQYNIQALSKAQN	5	20
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0209	PDYYQYNIQALSKAQ	4	19
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0209	DPDYYQYNIQALSKA	3	18
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0210	PDYYQYNIQALSKAQ	4	19
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0210	DPDYYQYNIQALSKA	3	18
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0210	EDPDYYQYNIQALSK	2	17
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0210	DYYQYNIQALSKAQN	5	20
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0211	PDYYQYNIQALSKAQ	4	19
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0211	DPDYYQYNIQALSKA	3	18
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0211	EDPDYYQYNIQALSK	2	17
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0211	DYYQYNIQALSKAQN	5	20
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0212	PDYYQYNIQALSKAQ	4	19
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0212	DPDYYQYNIQALSKA	3	18
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0212	EDPDYYQYNIQALSK	2	17
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0213	PDYYQYNIQALSKAQ	4	19
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0213	DPDYYQYNIQALSKA	3	18
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0213	EDPDYYQYNIQALSK	2	17
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0214	PDYYQYNIQALSKAQ	4	19
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0214	DPDYYQYNIQALSKA	3	18
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0215	PDYYQYNIQALSKAQ	4	19
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0215	DPDYYQYNIQALSKA	3	18
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0215	EDPDYYQYNIQALSK	2	17
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0216	PDYYQYNIQALSKAQ	4	19
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0216	DPDYYQYNIQALSKA	3	18
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0217	PDYYQYNIQALSKAQ	4	19
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0217	DPDYYQYNIQALSKA	3	18
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0217	EDPDYYQYNIQALSK	2	17
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0217	DYYQYNIQALSKAQN	5	20
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0218	PDYYQYNIQALSKAQ	4	19
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0218	DPDYYQYNIQALSKA	3	18
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0218	EDPDYYQYNIQALSK	2	17
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0218	DYYQYNIQALSKAQN	5	20
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0219	PDYYQYNIQALSKAQ	4	19
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0219	DPDYYQYNIQALSKA	3	18
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0219	EDPDYYQYNIQALSK	2	17
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0220	PDYYQYNIQALSKAQ	4	19
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0220	DPDYYQYNIQALSKA	3	18
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0220	EDPDYYQYNIQALSK	2	17
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0220	DYYQYNIQALSKAQN	5	20
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0221	PDYYQYNIQALSKAQ	4	19
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0221	DPDYYQYNIQALSKA	3	18
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0222	PDYYQYNIQALSKAQ	4	19
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0222	DPDYYQYNIQALSKA	3	18
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0222	EDPDYYQYNIQALSK	2	17
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0223	PDYYQYNIQALSKAQ	4	19
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0223	DPDYYQYNIQALSKA	3	18
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0223	EDPDYYQYNIQALSK	2	17
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0223	DYYQYNIQALSKAQN	5	20
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0225	PDYYQYNIQALSKAQ	4	19
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0225	DPDYYQYNIQALSKA	3	18
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0225	EDPDYYQYNIQALSK	2	17
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB3-0225	DYYQYNIQALSKAQN	5	20
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1152	DRB5-0203	DPDYYQYNIQALSKA	3	18

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Fusion breakpoint peptide structures of GTF2I-BCAP29

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
10874	YYQYNIQALSKAQN	GTF2I	BCAP29	chr7	74125440	chr7	107253776	1152

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Filtering FusionNeoAntigens Through Checking the Interaction with HLAs in 3D of GTF2I-BCAP29

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	10874	YYQYNIQALSKAQN	-7.15543	-7.26883
HLA-B14:02	3BVN	10874	YYQYNIQALSKAQN	-4.77435	-5.80965
HLA-B52:01	3W39	10874	YYQYNIQALSKAQN	-6.80875	-6.92215
HLA-B52:01	3W39	10874	YYQYNIQALSKAQN	-4.20386	-5.23916
HLA-A11:01	4UQ2	10874	YYQYNIQALSKAQN	-7.5194	-8.5547
HLA-A11:01	4UQ2	10874	YYQYNIQALSKAQN	-6.9601	-7.0735
HLA-A24:02	5HGA	10874	YYQYNIQALSKAQN	-7.52403	-7.63743
HLA-A24:02	5HGA	10874	YYQYNIQALSKAQN	-5.82433	-6.85963
HLA-B27:05	6PYJ	10874	YYQYNIQALSKAQN	-3.28285	-4.31815
HLA-B44:05	3DX8	10874	YYQYNIQALSKAQN	-5.91172	-6.94702
HLA-B44:05	3DX8	10874	YYQYNIQALSKAQN	-4.24346	-4.35686

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Vaccine Design for the FusionNeoAntigens of GTF2I-BCAP29

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
GTF2I-BCAP29	chr7	74125440	chr7	107253776	6	15	YYQYNIQAL	ATTATCAATATAACATTCAAGCCCTTT
GTF2I-BCAP29	chr7	74125440	chr7	107253776	7	15	YQYNIQAL	ATCAATATAACATTCAAGCCCTTT

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
GTF2I-BCAP29	chr7	74125440	chr7	107253776	1	16	SEDPDYYQYNIQALS	CAGAAGATCCTGATTATTATCAATATAACATTCAAGCCCTTTCTA
GTF2I-BCAP29	chr7	74125440	chr7	107253776	2	17	EDPDYYQYNIQALSK	AAGATCCTGATTATTATCAATATAACATTCAAGCCCTTTCTAAGG
GTF2I-BCAP29	chr7	74125440	chr7	107253776	3	18	DPDYYQYNIQALSKA	ATCCTGATTATTATCAATATAACATTCAAGCCCTTTCTAAGGCAC
GTF2I-BCAP29	chr7	74125440	chr7	107253776	4	19	PDYYQYNIQALSKAQ	CTGATTATTATCAATATAACATTCAAGCCCTTTCTAAGGCACAAA
GTF2I-BCAP29	chr7	74125440	chr7	107253776	5	20	DYYQYNIQALSKAQN	ATTATTATCAATATAACATTCAAGCCCTTTCTAAGGCACAAAATG
GTF2I-BCAP29	chr7	74125440	chr7	107253776	6	21	YYQYNIQALSKAQND	ATTATCAATATAACATTCAAGCCCTTTCTAAGGCACAAAATGATG
GTF2I-BCAP29	chr7	74125440	chr7	107253776	7	22	YQYNIQALSKAQNDV	ATCAATATAACATTCAAGCCCTTTCTAAGGCACAAAATGATGTGA
GTF2I-BCAP29	chr7	74125440	chr7	107253776	8	23	QYNIQALSKAQNDVM	AATATAACATTCAAGCCCTTTCTAAGGCACAAAATGATGTGATGG

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Information of the samples that have these potential fusion neoantigens of GTF2I-BCAP29

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
BRCA	GTF2I-BCAP29	chr7	74125440	ENST00000324896	chr7	107253776	ENST00000005259	TCGA-BH-A0EE

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Potential target of CAR-T therapy development for GTF2I-BCAP29

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 GTF2I-BCAP29

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 GTF2I-BCAP29

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

Hgene

Tgene

Disease

Source

PMID

Diseases associated with fusion partners.
(DisGeNet 4.0)

Partner

Gene

Disease ID

Disease name

# pubmeds

Source

	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)