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Fusion Protein:RBBP4-PLCB1

Fusion Gene and Fusion Protein Summary

Fusion gene summary

Fusion partner gene information	Fusion gene name: RBBP4-PLCB1
	FusionPDB ID: 72587
	FusionGDB2.0 ID: 72587
		Hgene	Tgene
	Gene symbol	RBBP4	PLCB1
	Gene ID	5928	23236
	Gene name	RB binding protein 4, chromatin remodeling factor	phospholipase C beta 1
	Synonyms	NURF55\|RBAP48\|lin-53	EIEE12\|PI-PLC\|PLC-154\|PLC-I\|PLC-beta-1\|PLC154\|PLCB1A\|PLCB1B
	Cytomap	1p35.1	20p12.3
	Type of gene	protein-coding	protein-coding
	Description	histone-binding protein RBBP4CAF-1 subunit CCAF-I 48 kDa subunitCAF-I p48MSI1 protein homologRBBP-4chromatin assembly factor 1 subunit Cchromatin assembly factor I p48 subunitchromatin assembly factor/CAF-1 p48 subunitnucleosome-remodeling factor	1-phosphatidylinositol 4,5-bisphosphate phosphodiesterase beta-11-phosphatidyl-D-myo-inositol-4,5-bisphosphateinositoltrisphosphohydrolasemonophosphatidylinositol phosphodiesterasephosphoinositidase Cphosphoinositide phospholipase Cphospholipase C,
	Modification date	20200329	20200313
	UniProtAcc	.	.
Ensembl transtripts involved in fusion gene	ENST ids	ENST00000373485, ENST00000373493, ENST00000414241, ENST00000458695, ENST00000544435, ENST00000524393,	ENST00000494924, ENST00000338037, ENST00000378637, ENST00000378641,
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)	* DoF score	8 X 6 X 5=240	13 X 13 X 5=845
	# samples	10	14
	** MAII score	log2(10/240*10)=-1.26303440583379 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0	log2(14/845*10)=-2.59352451422458 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0
Fusion gene context	PubMed: RBBP4 [Title/Abstract] AND PLCB1 [Title/Abstract] AND fusion [Title/Abstract]
Fusion neoantigen context	PubMed: RBBP4 [Title/Abstract] AND PLCB1 [Title/Abstract] AND neoantigen [Title/Abstract]
Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)	RBBP4(33138502)-PLCB1(8608940), # samples:1 RBBP4(33138502)-PLCB1(8608941), # samples:1
Anticipated loss of major functional domain due to fusion event.	RBBP4-PLCB1 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. RBBP4-PLCB1 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	RBBP4	GO:0006335	DNA replication-dependent nucleosome assembly	14718166
Hgene	RBBP4	GO:0006336	DNA replication-independent nucleosome assembly	14718166
Hgene	RBBP4	GO:0006338	chromatin remodeling	14609955
Hgene	RBBP4	GO:0031497	chromatin assembly	8858152
Tgene	PLCB1	GO:0035722	interleukin-12-mediated signaling pathway	11743656
Tgene	PLCB1	GO:0035723	interleukin-15-mediated signaling pathway	11743656
Tgene	PLCB1	GO:0046330	positive regulation of JNK cascade	9500449
Tgene	PLCB1	GO:0070498	interleukin-1-mediated signaling pathway	8872139

Four levels of functional features of fusion genes
Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/chr1:33138502/chr20:8608940)
- 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 RBBP4 (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 PLCB1 (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)
ENST00000414241	RBBP4	chr1	33138502	+	ENST00000378641	PLCB1	chr20	8608940	+	7948	1374	156	4649	1497
ENST00000414241	RBBP4	chr1	33138502	+	ENST00000338037	PLCB1	chr20	8608940	+	7830	1374	156	4778	1540
ENST00000414241	RBBP4	chr1	33138502	+	ENST00000378637	PLCB1	chr20	8608940	+	4979	1374	156	4649	1497
ENST00000373493	RBBP4	chr1	33138502	+	ENST00000378641	PLCB1	chr20	8608940	+	7945	1371	150	4646	1498
ENST00000373493	RBBP4	chr1	33138502	+	ENST00000338037	PLCB1	chr20	8608940	+	7827	1371	150	4775	1541
ENST00000373493	RBBP4	chr1	33138502	+	ENST00000378637	PLCB1	chr20	8608940	+	4976	1371	150	4646	1498
ENST00000544435	RBBP4	chr1	33138502	+	ENST00000378641	PLCB1	chr20	8608940	+	7556	982	280	4257	1325
ENST00000544435	RBBP4	chr1	33138502	+	ENST00000338037	PLCB1	chr20	8608940	+	7438	982	280	4386	1368
ENST00000544435	RBBP4	chr1	33138502	+	ENST00000378637	PLCB1	chr20	8608940	+	4587	982	280	4257	1325
ENST00000373485	RBBP4	chr1	33138502	+	ENST00000378641	PLCB1	chr20	8608940	+	7859	1285	64	4560	1498
ENST00000373485	RBBP4	chr1	33138502	+	ENST00000338037	PLCB1	chr20	8608940	+	7741	1285	64	4689	1541
ENST00000373485	RBBP4	chr1	33138502	+	ENST00000378637	PLCB1	chr20	8608940	+	4890	1285	64	4560	1498
ENST00000458695	RBBP4	chr1	33138502	+	ENST00000378641	PLCB1	chr20	8608940	+	7847	1273	58	4548	1496
ENST00000458695	RBBP4	chr1	33138502	+	ENST00000338037	PLCB1	chr20	8608940	+	7729	1273	58	4677	1539
ENST00000458695	RBBP4	chr1	33138502	+	ENST00000378637	PLCB1	chr20	8608940	+	4878	1273	58	4548	1496
ENST00000414241	RBBP4	chr1	33138502	+	ENST00000378641	PLCB1	chr20	8608941	+	7948	1374	156	4649	1497
ENST00000414241	RBBP4	chr1	33138502	+	ENST00000338037	PLCB1	chr20	8608941	+	7830	1374	156	4778	1540
ENST00000414241	RBBP4	chr1	33138502	+	ENST00000378637	PLCB1	chr20	8608941	+	4979	1374	156	4649	1497
ENST00000373493	RBBP4	chr1	33138502	+	ENST00000378641	PLCB1	chr20	8608941	+	7945	1371	150	4646	1498
ENST00000373493	RBBP4	chr1	33138502	+	ENST00000338037	PLCB1	chr20	8608941	+	7827	1371	150	4775	1541
ENST00000373493	RBBP4	chr1	33138502	+	ENST00000378637	PLCB1	chr20	8608941	+	4976	1371	150	4646	1498
ENST00000544435	RBBP4	chr1	33138502	+	ENST00000378641	PLCB1	chr20	8608941	+	7556	982	280	4257	1325
ENST00000544435	RBBP4	chr1	33138502	+	ENST00000338037	PLCB1	chr20	8608941	+	7438	982	280	4386	1368
ENST00000544435	RBBP4	chr1	33138502	+	ENST00000378637	PLCB1	chr20	8608941	+	4587	982	280	4257	1325
ENST00000373485	RBBP4	chr1	33138502	+	ENST00000378641	PLCB1	chr20	8608941	+	7859	1285	64	4560	1498
ENST00000373485	RBBP4	chr1	33138502	+	ENST00000338037	PLCB1	chr20	8608941	+	7741	1285	64	4689	1541
ENST00000373485	RBBP4	chr1	33138502	+	ENST00000378637	PLCB1	chr20	8608941	+	4890	1285	64	4560	1498
ENST00000458695	RBBP4	chr1	33138502	+	ENST00000378641	PLCB1	chr20	8608941	+	7847	1273	58	4548	1496
ENST00000458695	RBBP4	chr1	33138502	+	ENST00000338037	PLCB1	chr20	8608941	+	7729	1273	58	4677	1539
ENST00000458695	RBBP4	chr1	33138502	+	ENST00000378637	PLCB1	chr20	8608941	+	4878	1273	58	4548	1496

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
ENST00000414241	ENST00000378641	RBBP4	chr1	33138502	+	PLCB1	chr20	8608940	+	0.00010241	0.9998976
ENST00000414241	ENST00000338037	RBBP4	chr1	33138502	+	PLCB1	chr20	8608940	+	0.000144259	0.99985576
ENST00000414241	ENST00000378637	RBBP4	chr1	33138502	+	PLCB1	chr20	8608940	+	0.000454494	0.9995455
ENST00000373493	ENST00000378641	RBBP4	chr1	33138502	+	PLCB1	chr20	8608940	+	0.000103327	0.99989665
ENST00000373493	ENST00000338037	RBBP4	chr1	33138502	+	PLCB1	chr20	8608940	+	0.000145577	0.99985445
ENST00000373493	ENST00000378637	RBBP4	chr1	33138502	+	PLCB1	chr20	8608940	+	0.000472277	0.9995277
ENST00000544435	ENST00000378641	RBBP4	chr1	33138502	+	PLCB1	chr20	8608940	+	0.000147316	0.99985266
ENST00000544435	ENST00000338037	RBBP4	chr1	33138502	+	PLCB1	chr20	8608940	+	0.000211174	0.9997888
ENST00000544435	ENST00000378637	RBBP4	chr1	33138502	+	PLCB1	chr20	8608940	+	0.000719874	0.99928015
ENST00000373485	ENST00000378641	RBBP4	chr1	33138502	+	PLCB1	chr20	8608940	+	9.59E-05	0.99990404
ENST00000373485	ENST00000338037	RBBP4	chr1	33138502	+	PLCB1	chr20	8608940	+	0.000134721	0.9998653
ENST00000373485	ENST00000378637	RBBP4	chr1	33138502	+	PLCB1	chr20	8608940	+	0.000458364	0.99954164
ENST00000458695	ENST00000378641	RBBP4	chr1	33138502	+	PLCB1	chr20	8608940	+	0.000100455	0.9998995
ENST00000458695	ENST00000338037	RBBP4	chr1	33138502	+	PLCB1	chr20	8608940	+	0.000141169	0.99985886
ENST00000458695	ENST00000378637	RBBP4	chr1	33138502	+	PLCB1	chr20	8608940	+	0.000447209	0.9995528
ENST00000414241	ENST00000378641	RBBP4	chr1	33138502	+	PLCB1	chr20	8608941	+	0.00010241	0.9998976
ENST00000414241	ENST00000338037	RBBP4	chr1	33138502	+	PLCB1	chr20	8608941	+	0.000144259	0.99985576
ENST00000414241	ENST00000378637	RBBP4	chr1	33138502	+	PLCB1	chr20	8608941	+	0.000454494	0.9995455
ENST00000373493	ENST00000378641	RBBP4	chr1	33138502	+	PLCB1	chr20	8608941	+	0.000103327	0.99989665
ENST00000373493	ENST00000338037	RBBP4	chr1	33138502	+	PLCB1	chr20	8608941	+	0.000145577	0.99985445
ENST00000373493	ENST00000378637	RBBP4	chr1	33138502	+	PLCB1	chr20	8608941	+	0.000472277	0.9995277
ENST00000544435	ENST00000378641	RBBP4	chr1	33138502	+	PLCB1	chr20	8608941	+	0.000147316	0.99985266
ENST00000544435	ENST00000338037	RBBP4	chr1	33138502	+	PLCB1	chr20	8608941	+	0.000211174	0.9997888
ENST00000544435	ENST00000378637	RBBP4	chr1	33138502	+	PLCB1	chr20	8608941	+	0.000719874	0.99928015
ENST00000373485	ENST00000378641	RBBP4	chr1	33138502	+	PLCB1	chr20	8608941	+	9.59E-05	0.99990404
ENST00000373485	ENST00000338037	RBBP4	chr1	33138502	+	PLCB1	chr20	8608941	+	0.000134721	0.9998653
ENST00000373485	ENST00000378637	RBBP4	chr1	33138502	+	PLCB1	chr20	8608941	+	0.000458364	0.99954164
ENST00000458695	ENST00000378641	RBBP4	chr1	33138502	+	PLCB1	chr20	8608941	+	0.000100455	0.9998995
ENST00000458695	ENST00000338037	RBBP4	chr1	33138502	+	PLCB1	chr20	8608941	+	0.000141169	0.99985886
ENST00000458695	ENST00000378637	RBBP4	chr1	33138502	+	PLCB1	chr20	8608941	+	0.000447209	0.9995528

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 RBBP4-PLCB1

+/-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
RBBP4	chr1	33138502	PLCB1	chr20	8608940	1273	405	SVSEDNIMQVWQMDPKLRELLDVGNI
RBBP4	chr1	33138502	PLCB1	chr20	8608940	1285	407	SVSEDNIMQVWQMDPKLRELLDVGNI
RBBP4	chr1	33138502	PLCB1	chr20	8608940	1371	407	SVSEDNIMQVWQMDPKLRELLDVGNI
RBBP4	chr1	33138502	PLCB1	chr20	8608940	1374	406	SVSEDNIMQVWQMDPKLRELLDVGNI
RBBP4	chr1	33138502	PLCB1	chr20	8608940	982	234	SVSEDNIMQVWQMDPKLRELLDVGNI
RBBP4	chr1	33138502	PLCB1	chr20	8608941	1273	405	SVSEDNIMQVWQMDPKLRELLDVGNI
RBBP4	chr1	33138502	PLCB1	chr20	8608941	1285	407	SVSEDNIMQVWQMDPKLRELLDVGNI
RBBP4	chr1	33138502	PLCB1	chr20	8608941	1371	407	SVSEDNIMQVWQMDPKLRELLDVGNI
RBBP4	chr1	33138502	PLCB1	chr20	8608941	1374	406	SVSEDNIMQVWQMDPKLRELLDVGNI
RBBP4	chr1	33138502	PLCB1	chr20	8608941	982	234	SVSEDNIMQVWQMDPKLRELLDVGNI

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Potential FusionNeoAntigen Information of RBBP4-PLCB1 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.

RBBP4-PLCB1_33138502_8608940.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)
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-A02:22	QMDPKLREL	0.9816	0.6363	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-A02:67	QMDPKLREL	0.9666	0.7466	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-A02:24	QMDPKLREL	0.9666	0.7466	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-A02:30	QMDPKLREL	0.9666	0.7466	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-A02:60	QMDPKLREL	0.9663	0.7244	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-A02:11	QMDPKLREL	0.9596	0.763	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-B08:01	QMDPKLREL	0.9494	0.6742	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-A02:13	QMDPKLREL	0.9485	0.7742	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-A02:27	QMDPKLREL	0.9466	0.6432	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-A02:04	QMDPKLREL	0.9415	0.7289	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-A02:16	QMDPKLREL	0.9414	0.6439	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-A02:38	QMDPKLREL	0.9405	0.7434	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-A02:21	QMDPKLREL	0.9343	0.8275	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-A02:17	QMDPKLREL	0.9305	0.5659	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-B08:09	QMDPKLREL	0.918	0.7375	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-A02:35	QMDPKLREL	0.8417	0.7767	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-A02:29	QMDPKLREL	0.8388	0.7452	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-B48:01	QMDPKLREL	0.8235	0.6258	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-A02:20	QMDPKLREL	0.8127	0.7598	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-A02:19	QMDPKLREL	0.8089	0.5567	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-A24:14	QMDPKLREL	0.5738	0.5854	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-B82:01	QMDPKLREL	0.3799	0.5852	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-B13:01	QMDPKLREL	0.1836	0.9664	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-B13:01	QVWQMDPKL	0.1277	0.976	8	17
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-B39:01	WQMDPKLREL	0.9934	0.9703	10	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-B48:01	WQMDPKLREL	0.9917	0.7478	10	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-B39:13	WQMDPKLREL	0.9844	0.9834	10	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-B13:02	WQMDPKLREL	0.7655	0.8846	10	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-B13:01	WQMDPKLREL	0.7245	0.9702	10	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-B48:01	WQMDPKLRELL	0.9977	0.7955	10	21
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-B13:02	WQMDPKLRELL	0.9752	0.9044	10	21
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-B13:01	WQMDPKLRELL	0.9683	0.9834	10	21
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C04:10	QMDPKLREL	1	0.9274	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C04:07	QMDPKLREL	1	0.9262	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C05:09	QMDPKLREL	1	0.9765	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C08:15	QMDPKLREL	0.9999	0.9803	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C01:17	QMDPKLREL	0.9994	0.9662	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C15:06	QMDPKLREL	0.9983	0.9419	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C03:19	QMDPKLREL	0.9981	0.9889	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C03:07	QMDPKLREL	0.9978	0.9846	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C04:06	QMDPKLREL	0.9971	0.9659	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C03:08	QMDPKLREL	0.9967	0.9294	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C04:14	QMDPKLREL	0.9929	0.929	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C08:13	QMDPKLREL	0.9871	0.9816	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C08:04	QMDPKLREL	0.9871	0.9816	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-B42:02	QMDPKLREL	0.9772	0.6472	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-A02:07	QMDPKLREL	0.9676	0.7868	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-A02:01	QMDPKLREL	0.9666	0.7466	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-A02:05	QMDPKLREL	0.9632	0.5448	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C12:16	QMDPKLREL	0.9628	0.9708	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C02:06	QMDPKLREL	0.9544	0.9731	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C07:05	QMDPKLREL	0.9257	0.9842	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C01:30	QMDPKLREL	0.9233	0.9603	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C08:03	QMDPKLREL	0.9231	0.9919	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C03:14	QMDPKLREL	0.9183	0.9889	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-B14:03	QMDPKLREL	0.8988	0.8301	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-B39:10	QMDPKLREL	0.8765	0.9713	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C07:13	QMDPKLREL	0.8745	0.9537	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-B39:09	QMDPKLREL	0.8629	0.8559	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C07:29	QMDPKLREL	0.8505	0.9754	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-B39:12	QMDPKLREL	0.8482	0.9725	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C07:10	QMDPKLREL	0.8409	0.9786	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C07:67	QMDPKLREL	0.8271	0.9784	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C07:80	QMDPKLREL	0.8271	0.9784	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C07:27	QMDPKLREL	0.826	0.977	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-B39:08	QMDPKLREL	0.8101	0.9292	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C07:95	QMDPKLREL	0.7868	0.8751	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C07:19	QMDPKLREL	0.782	0.85	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C07:46	QMDPKLREL	0.7571	0.951	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-B39:08	WQMDPKLREL	0.9744	0.9427	10	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-A02:05	WQMDPKLREL	0.973	0.579	10	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-B48:03	WQMDPKLREL	0.951	0.6368	10	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-A02:07	QMDPKLRELL	0.8081	0.7884	11	21
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C04:10	VWQMDPKLREL	0.9997	0.9634	9	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C04:07	VWQMDPKLREL	0.9996	0.9599	9	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C04:14	VWQMDPKLREL	0.999	0.9456	9	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-B48:03	WQMDPKLRELL	0.9526	0.6522	10	21
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C18:01	QMDPKLREL	1	0.9207	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C04:01	QMDPKLREL	1	0.9262	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C05:01	QMDPKLREL	1	0.9765	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C04:03	QMDPKLREL	1	0.9432	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C08:02	QMDPKLREL	0.9999	0.9803	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C01:03	QMDPKLREL	0.9999	0.9572	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C01:02	QMDPKLREL	0.9998	0.9637	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C06:06	QMDPKLREL	0.9995	0.9946	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C15:05	QMDPKLREL	0.9982	0.9384	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C15:02	QMDPKLREL	0.9976	0.8801	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C03:04	QMDPKLREL	0.9972	0.9911	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C03:03	QMDPKLREL	0.9972	0.9911	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C04:04	QMDPKLREL	0.9966	0.9648	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C03:67	QMDPKLREL	0.9964	0.9861	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C03:05	QMDPKLREL	0.9952	0.9243	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C03:06	QMDPKLREL	0.9909	0.9928	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C16:02	QMDPKLREL	0.9803	0.9921	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-A02:03	QMDPKLREL	0.9706	0.8071	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C07:04	QMDPKLREL	0.9665	0.9304	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-B08:18	QMDPKLREL	0.9494	0.6742	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C06:08	QMDPKLREL	0.9387	0.9881	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-A02:14	QMDPKLREL	0.9361	0.7561	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-A02:06	QMDPKLREL	0.9343	0.8275	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C08:01	QMDPKLREL	0.9231	0.9919	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-B08:12	QMDPKLREL	0.9216	0.845	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C07:22	QMDPKLREL	0.8996	0.825	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-B39:02	QMDPKLREL	0.8781	0.9819	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C07:17	QMDPKLREL	0.8286	0.9818	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C07:02	QMDPKLREL	0.8271	0.9784	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C17:01	QMDPKLREL	0.8138	0.9138	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C07:01	QMDPKLREL	0.7802	0.8105	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-B39:11	QMDPKLREL	0.7568	0.9032	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-B15:73	QMDPKLREL	0.7173	0.9708	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-B15:30	QMDPKLREL	0.6633	0.9641	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-B07:13	QMDPKLREL	0.6588	0.8376	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-A02:14	QVWQMDPKL	0.657	0.6193	8	17
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-B15:09	QMDPKLREL	0.5747	0.886	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-B82:02	QMDPKLREL	0.3799	0.5852	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-B40:21	QMDPKLREL	0.1676	0.627	11	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-B40:21	QVWQMDPKL	0.114	0.5853	8	17
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-B39:02	WQMDPKLREL	0.9931	0.9817	10	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-B15:73	WQMDPKLREL	0.9899	0.9728	10	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-B15:30	WQMDPKLREL	0.9752	0.9679	10	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-B39:11	WQMDPKLREL	0.9603	0.922	10	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-B40:12	WQMDPKLREL	0.951	0.6368	10	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-A02:14	WQMDPKLREL	0.8718	0.7083	10	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-B40:49	WQMDPKLREL	0.8453	0.5985	10	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-B40:21	WQMDPKLREL	0.7888	0.7075	10	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C04:01	VWQMDPKLREL	0.9996	0.9599	9	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-C18:01	VWQMDPKLREL	0.9996	0.957	9	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-B39:02	WQMDPKLRELL	0.9933	0.9795	10	21
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-B40:49	WQMDPKLRELL	0.9625	0.61	10	21
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-B40:21	WQMDPKLRELL	0.959	0.7334	10	21
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	HLA-B40:12	WQMDPKLRELL	0.9526	0.6522	10	21

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Potential FusionNeoAntigen Information of RBBP4-PLCB1 in HLA II

RBBP4-PLCB1_33138502_8608940.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)
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-0305	MQVWQMDPKLRELLD	7	22
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-0305	IMQVWQMDPKLRELL	6	21
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-0305	QVWQMDPKLRELLDV	8	23
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-0305	NIMQVWQMDPKLREL	5	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-0340	MQVWQMDPKLRELLD	7	22
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-0340	IMQVWQMDPKLRELL	6	21
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-0340	NIMQVWQMDPKLREL	5	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-0340	QVWQMDPKLRELLDV	8	23
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-0466	MQVWQMDPKLRELLD	7	22
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-0840	MQVWQMDPKLRELLD	7	22
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-0840	IMQVWQMDPKLRELL	6	21
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-0840	NIMQVWQMDPKLREL	5	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-0840	QVWQMDPKLRELLDV	8	23
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-1153	MQVWQMDPKLRELLD	7	22
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-1179	MQVWQMDPKLRELLD	7	22
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-1303	MQVWQMDPKLRELLD	7	22
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-1303	IMQVWQMDPKLRELL	6	21
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-1303	NIMQVWQMDPKLREL	5	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-1303	QVWQMDPKLRELLDV	8	23
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-13101	MQVWQMDPKLRELLD	7	22
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-13101	IMQVWQMDPKLRELL	6	21
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-13101	NIMQVWQMDPKLREL	5	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-13101	QVWQMDPKLRELLDV	8	23
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-1310	MQVWQMDPKLRELLD	7	22
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-1310	IMQVWQMDPKLRELL	6	21
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-1310	NIMQVWQMDPKLREL	5	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-1310	QVWQMDPKLRELLDV	8	23
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-1312	MQVWQMDPKLRELLD	7	22
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-1333	MQVWQMDPKLRELLD	7	22
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-1333	IMQVWQMDPKLRELL	6	21
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-1333	NIMQVWQMDPKLREL	5	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-1333	QVWQMDPKLRELLDV	8	23
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-1333	DNIMQVWQMDPKLRE	4	19
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-1337	MQVWQMDPKLRELLD	7	22
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-1338	MQVWQMDPKLRELLD	7	22
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-1365	MQVWQMDPKLRELLD	7	22
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-1366	MQVWQMDPKLRELLD	7	22
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-1366	IMQVWQMDPKLRELL	6	21
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-1366	NIMQVWQMDPKLREL	5	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-1366	QVWQMDPKLRELLDV	8	23
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-1388	MQVWQMDPKLRELLD	7	22
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-1388	IMQVWQMDPKLRELL	6	21
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-1388	NIMQVWQMDPKLREL	5	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-1388	QVWQMDPKLRELLDV	8	23
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-1390	MQVWQMDPKLRELLD	7	22
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-1390	IMQVWQMDPKLRELL	6	21
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-1390	NIMQVWQMDPKLREL	5	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-1390	QVWQMDPKLRELLDV	8	23
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-1395	MQVWQMDPKLRELLD	7	22
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-1395	IMQVWQMDPKLRELL	6	21
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-1395	NIMQVWQMDPKLREL	5	20
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-1395	QVWQMDPKLRELLDV	8	23
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-1413	MQVWQMDPKLRELLD	7	22
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-1413	IMQVWQMDPKLRELL	6	21
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB1-1469	MQVWQMDPKLRELLD	7	22
RBBP4-PLCB1	chr1	33138502	chr20	8608940	1285	DRB3-0114	MQVWQMDPKLRELLD	7	22

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Fusion breakpoint peptide structures of RBBP4-PLCB1

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
3843	IMQVWQMDPKLREL	RBBP4	PLCB1	chr1	33138502	chr20	8608940	1285

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Filtering FusionNeoAntigens Through Checking the Interaction with HLAs in 3D of RBBP4-PLCB1

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	3843	IMQVWQMDPKLREL	-4.94269	-5.69719
HLA-B14:02	3BVN	3843	IMQVWQMDPKLREL	-4.51593	-4.71043
HLA-B52:01	3W39	3843	IMQVWQMDPKLREL	-8.249	-8.4435
HLA-B52:01	3W39	3843	IMQVWQMDPKLREL	-7.17937	-7.93387
HLA-A11:01	4UQ2	3843	IMQVWQMDPKLREL	-8.03173	-8.22623
HLA-A11:01	4UQ2	3843	IMQVWQMDPKLREL	-4.95743	-5.71193
HLA-A24:02	5HGA	3843	IMQVWQMDPKLREL	-6.4174	-6.6119
HLA-A24:02	5HGA	3843	IMQVWQMDPKLREL	-4.65241	-5.40691
HLA-B27:05	6PYJ	3843	IMQVWQMDPKLREL	-7.17858	-7.93308
HLA-B27:05	6PYJ	3843	IMQVWQMDPKLREL	-3.10309	-3.29759
HLA-B44:05	3DX8	3843	IMQVWQMDPKLREL	-4.08639	-4.28089
HLA-B44:05	3DX8	3843	IMQVWQMDPKLREL	-3.78094	-4.53544

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Vaccine Design for the FusionNeoAntigens of RBBP4-PLCB1

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
RBBP4-PLCB1	chr1	33138502	chr20	8608940	10	20	WQMDPKLREL	TGGCAAATGGACCCCAAATTACGTGAACTT
RBBP4-PLCB1	chr1	33138502	chr20	8608940	10	21	WQMDPKLRELL	TGGCAAATGGACCCCAAATTACGTGAACTTTTG
RBBP4-PLCB1	chr1	33138502	chr20	8608940	11	20	QMDPKLREL	CAAATGGACCCCAAATTACGTGAACTT
RBBP4-PLCB1	chr1	33138502	chr20	8608940	11	21	QMDPKLRELL	CAAATGGACCCCAAATTACGTGAACTTTTG
RBBP4-PLCB1	chr1	33138502	chr20	8608940	8	17	QVWQMDPKL	CAAGTGTGGCAAATGGACCCCAAATTA
RBBP4-PLCB1	chr1	33138502	chr20	8608940	9	20	VWQMDPKLREL	GTGTGGCAAATGGACCCCAAATTACGTGAACTT

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
RBBP4-PLCB1	chr1	33138502	chr20	8608940	4	19	DNIMQVWQMDPKLRE	GACAATATCATGCAAGTGTGGCAAATGGACCCCAAATTACGTGAA
RBBP4-PLCB1	chr1	33138502	chr20	8608940	5	20	NIMQVWQMDPKLREL	AATATCATGCAAGTGTGGCAAATGGACCCCAAATTACGTGAACTT
RBBP4-PLCB1	chr1	33138502	chr20	8608940	6	21	IMQVWQMDPKLRELL	ATCATGCAAGTGTGGCAAATGGACCCCAAATTACGTGAACTTTTG
RBBP4-PLCB1	chr1	33138502	chr20	8608940	7	22	MQVWQMDPKLRELLD	ATGCAAGTGTGGCAAATGGACCCCAAATTACGTGAACTTTTGGAT
RBBP4-PLCB1	chr1	33138502	chr20	8608940	8	23	QVWQMDPKLRELLDV	CAAGTGTGGCAAATGGACCCCAAATTACGTGAACTTTTGGATGTG

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Information of the samples that have these potential fusion neoantigens of RBBP4-PLCB1

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
STAD	RBBP4-PLCB1	chr1	33138502	ENST00000373485	chr20	8608940	ENST00000338037	TCGA-VQ-A91Q

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Potential target of CAR-T therapy development for RBBP4-PLCB1

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 RBBP4-PLCB1

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 RBBP4-PLCB1

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)