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Fusion Protein:RPL28-GLB1

Fusion Gene and Fusion Protein Summary

Fusion gene summary

Fusion partner gene information	Fusion gene name: RPL28-GLB1
	FusionPDB ID: 76372
	FusionGDB2.0 ID: 76372
		Hgene	Tgene
	Gene symbol	RPL28	GLB1
	Gene ID	6158	2720
	Gene name	ribosomal protein L28	galactosidase beta 1
	Synonyms	L28	EBP\|ELNR1\|MPS4B
	Cytomap	19q13.42	3p22.3
	Type of gene	protein-coding	protein-coding
	Description	60S ribosomal protein L28large ribosomal subunit protein eL28	beta-galactosidaseacid beta-galactosidaseelastin binding proteinelastin receptor 1, 67kDalactase
	Modification date	20200313	20200313
	UniProtAcc	.	Q8NCI6 Main function of 5'-partner protein:
Ensembl transtripts involved in fusion gene	ENST ids	ENST00000558131, ENST00000344063, ENST00000458349, ENST00000558815, ENST00000559463, ENST00000560055, ENST00000560583, ENST00000428193, ENST00000431533, ENST00000558752,	ENST00000307363, ENST00000307377, ENST00000399402, ENST00000445488, ENST00000497796,
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)	* DoF score	22 X 17 X 5=1870	9 X 9 X 5=405
	# samples	24	9
	** MAII score	log2(24/1870*10)=-2.96193195916648 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0	log2(9/405*10)=-2.16992500144231 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0
Fusion gene context	PubMed: RPL28 [Title/Abstract] AND GLB1 [Title/Abstract] AND fusion [Title/Abstract]
Fusion neoantigen context	PubMed: RPL28 [Title/Abstract] AND GLB1 [Title/Abstract] AND neoantigen [Title/Abstract]
Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)	RPL28(55899416)-GLB1(33114206), # samples:1
Anticipated loss of major functional domain due to fusion event.

* 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	GLB1	GO:0044262	cellular carbohydrate metabolic process	11927518

Four levels of functional features of fusion genes
Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/chr19:55899416/chr3:33114206)
- 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 RPL28 (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 GLB1 (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)
ENST00000344063	RPL28	chr19	55899416	+	ENST00000307363	GLB1	chr3	33114206	-	3349	953	446	2911	821
ENST00000558815	RPL28	chr19	55899416	+	ENST00000307363	GLB1	chr3	33114206	-	2762	366	42	2324	760
ENST00000560583	RPL28	chr19	55899416	+	ENST00000307363	GLB1	chr3	33114206	-	3481	1085	1100	3043	647
ENST00000560055	RPL28	chr19	55899416	+	ENST00000307363	GLB1	chr3	33114206	-	2758	362	38	2320	760
ENST00000559463	RPL28	chr19	55899416	+	ENST00000307363	GLB1	chr3	33114206	-	3117	721	397	2679	760
ENST00000458349	RPL28	chr19	55899416	+	ENST00000307363	GLB1	chr3	33114206	-	2720	324	0	2282	760

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
ENST00000344063	ENST00000307363	RPL28	chr19	55899416	+	GLB1	chr3	33114206	-	0.001265971	0.99873406
ENST00000558815	ENST00000307363	RPL28	chr19	55899416	+	GLB1	chr3	33114206	-	0.001049121	0.99895084
ENST00000560583	ENST00000307363	RPL28	chr19	55899416	+	GLB1	chr3	33114206	-	0.001758995	0.99824095
ENST00000560055	ENST00000307363	RPL28	chr19	55899416	+	GLB1	chr3	33114206	-	0.001050032	0.99894994
ENST00000559463	ENST00000307363	RPL28	chr19	55899416	+	GLB1	chr3	33114206	-	0.000988573	0.9990114
ENST00000458349	ENST00000307363	RPL28	chr19	55899416	+	GLB1	chr3	33114206	-	0.001010643	0.9989894

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 RPL28-GLB1

+/-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
RPL28	chr19	55899416	GLB1	chr3	33114206	324	108	MIRKNKYRPDLRMNATQRMFEIDYSR
RPL28	chr19	55899416	GLB1	chr3	33114206	362	108	MIRKNKYRPDLRMNATQRMFEIDYSR
RPL28	chr19	55899416	GLB1	chr3	33114206	366	108	MIRKNKYRPDLRMNATQRMFEIDYSR
RPL28	chr19	55899416	GLB1	chr3	33114206	721	108	MIRKNKYRPDLRMNATQRMFEIDYSR
RPL28	chr19	55899416	GLB1	chr3	33114206	953	169	MIRKNKYRPDLRMNATQRMFEIDYSR

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Potential FusionNeoAntigen Information of RPL28-GLB1 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.

RPL28-GLB1_55899416_33114206.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)
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-B27:05	LRMNATQRM	0.9999	0.8387	10	19
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-B27:04	LRMNATQRM	0.9999	0.7483	10	19
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-B27:02	LRMNATQRM	0.9999	0.5243	10	19
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-B15:01	RMNATQRMF	0.9966	0.8693	11	20
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-B39:06	YRPDLRMNA	0.9955	0.7578	6	15
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-A33:05	DLRMNATQR	0.9933	0.5084	9	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-A33:01	DLRMNATQR	0.9933	0.5084	9	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-B14:01	LRMNATQRM	0.9903	0.7815	10	19
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-B14:02	LRMNATQRM	0.9903	0.7815	10	19
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-B15:25	RMNATQRMF	0.9854	0.914	11	20
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-A32:13	RMNATQRMF	0.9741	0.8749	11	20
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-B15:03	RMNATQRMF	0.9479	0.7735	11	20
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-B15:18	LRMNATQRM	0.7402	0.771	10	19
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-B15:10	LRMNATQRM	0.6709	0.5249	10	19
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-B15:37	LRMNATQRM	0.6114	0.5273	10	19
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-B13:01	RMNATQRMF	0.0743	0.8592	11	20
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-B27:04	LRMNATQRMF	0.9999	0.6296	10	20
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-B27:14	LRMNATQRM	0.9999	0.8203	10	19
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-C07:05	LRMNATQRM	0.9986	0.9721	10	19
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-C07:95	LRMNATQRM	0.9977	0.8059	10	19
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-B27:03	LRMNATQRM	0.997	0.8608	10	19
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-C07:27	LRMNATQRM	0.9958	0.9633	10	19
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-B15:07	RMNATQRMF	0.9947	0.7059	11	20
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-C07:13	LRMNATQRM	0.9946	0.9121	10	19
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-C07:29	LRMNATQRM	0.9935	0.9521	10	19
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-B73:01	YRPDLRMNA	0.983	0.727	6	15
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-C07:80	LRMNATQRM	0.9789	0.9655	10	19
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-C07:67	LRMNATQRM	0.9789	0.9655	10	19
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-B39:12	LRMNATQRM	0.9758	0.9465	10	19
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-C07:19	LRMNATQRM	0.9645	0.7831	10	19
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-B15:04	RMNATQRMF	0.9561	0.865	11	20
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-C07:46	LRMNATQRM	0.95	0.9209	10	19
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-C07:10	LRMNATQRM	0.9189	0.97	10	19
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-C07:13	YRPDLRMNA	0.8265	0.867	6	15
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-B15:05	RMNATQRMF	0.8091	0.8724	11	20
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-C07:29	YRPDLRMNA	0.7976	0.9271	6	15
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-C07:10	YRPDLRMNA	0.7415	0.9232	6	15
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-C07:46	YRPDLRMNA	0.7352	0.81	6	15
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-C07:80	YRPDLRMNA	0.7303	0.9203	6	15
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-C07:67	YRPDLRMNA	0.7303	0.9203	6	15
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-C07:19	YRPDLRMNA	0.7187	0.658	6	15
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-C12:16	LRMNATQRM	0.0886	0.9769	10	19
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-B27:08	LRMNATQRM	0.9999	0.7261	10	19
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-B27:10	LRMNATQRM	0.9998	0.8888	10	19
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-B27:06	LRMNATQRM	0.9998	0.746	10	19
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-B27:09	LRMNATQRM	0.9993	0.8248	10	19
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-C07:01	LRMNATQRM	0.9982	0.7726	10	19
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-B15:27	RMNATQRMF	0.9967	0.8879	11	20
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-B15:34	RMNATQRMF	0.9966	0.8693	11	20
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-B15:125	RMNATQRMF	0.9966	0.8693	11	20
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-B15:33	RMNATQRMF	0.9966	0.8693	11	20
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-B15:135	RMNATQRMF	0.9962	0.8655	11	20
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-B15:24	RMNATQRMF	0.9955	0.8877	11	20
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-A32:01	RMNATQRMF	0.9948	0.9388	11	20
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-B15:50	RMNATQRMF	0.9934	0.9275	11	20
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-C07:17	LRMNATQRM	0.9933	0.9772	10	19
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-B15:35	RMNATQRMF	0.992	0.8662	11	20
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-B15:39	RMNATQRMF	0.9869	0.838	11	20
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-B15:12	RMNATQRMF	0.9852	0.8021	11	20
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-B15:53	RMNATQRMF	0.9794	0.8505	11	20
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-C07:02	LRMNATQRM	0.9789	0.9655	10	19
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-B58:06	RMNATQRMF	0.9771	0.8399	11	20
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-C06:08	LRMNATQRM	0.9496	0.9907	10	19
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-B39:31	LRMNATQRM	0.9481	0.9452	10	19
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-C06:08	YRPDLRMNA	0.9332	0.9852	6	15
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-B15:54	RMNATQRMF	0.9323	0.8234	11	20
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-B15:68	RMNATQRMF	0.9256	0.6478	11	20
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-C07:22	LRMNATQRM	0.8361	0.8896	10	19
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-B15:73	RMNATQRMF	0.8178	0.8194	11	20
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-B15:20	RMNATQRMF	0.8076	0.9208	11	20
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-B35:28	RMNATQRMF	0.7646	0.9248	11	20
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-C07:02	YRPDLRMNA	0.7303	0.9203	6	15
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-C07:22	YRPDLRMNA	0.6717	0.7464	6	15
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-B15:30	RMNATQRMF	0.6076	0.8223	11	20
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-C06:06	LRMNATQRM	0.3431	0.9899	10	19
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-C06:02	LRMNATQRM	0.0799	0.9936	10	19
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-C06:17	LRMNATQRM	0.0799	0.9936	10	19
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-C06:17	YRPDLRMNA	0.0335	0.9941	6	15
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-C06:02	YRPDLRMNA	0.0335	0.9941	6	15
RPL28-GLB1	chr19	55899416	chr3	33114206	953	HLA-A30:01	KYRPDLRMNA	0.8306	0.7718	5	15

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Potential FusionNeoAntigen Information of RPL28-GLB1 in HLA II

RPL28-GLB1_55899416_33114206.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)
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-0303	RPDLRMNATQRMFEI	7	22
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-0303	YRPDLRMNATQRMFE	6	21
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-0305	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-0305	RKNKYRPDLRMNATQ	2	17
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-0305	IRKNKYRPDLRMNAT	1	16
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-0305	NKYRPDLRMNATQRM	4	19
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-0338	RPDLRMNATQRMFEI	7	22
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-0338	YRPDLRMNATQRMFE	6	21
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-0338	KYRPDLRMNATQRMF	5	20
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-0340	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-0340	RKNKYRPDLRMNATQ	2	17
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-0340	IRKNKYRPDLRMNAT	1	16
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-0340	NKYRPDLRMNATQRM	4	19
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-0466	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-0466	RKNKYRPDLRMNATQ	2	17
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-0466	IRKNKYRPDLRMNAT	1	16
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-0466	NKYRPDLRMNATQRM	4	19
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-0824	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-0840	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1108	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1111	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1119	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1127	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1127	RKNKYRPDLRMNATQ	2	17
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1131	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1137	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1137	RKNKYRPDLRMNATQ	2	17
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1153	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1153	RKNKYRPDLRMNATQ	2	17
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1153	IRKNKYRPDLRMNAT	1	16
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1153	NKYRPDLRMNATQRM	4	19
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1168	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1169	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1169	RKNKYRPDLRMNATQ	2	17
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1172	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1173	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1173	RKNKYRPDLRMNATQ	2	17
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1173	IRKNKYRPDLRMNAT	1	16
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1173	NKYRPDLRMNATQRM	4	19
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1179	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1179	RKNKYRPDLRMNATQ	2	17
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1179	IRKNKYRPDLRMNAT	1	16
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1179	NKYRPDLRMNATQRM	4	19
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1180	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1180	RKNKYRPDLRMNATQ	2	17
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1182	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1182	RKNKYRPDLRMNATQ	2	17
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1187	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1187	RKNKYRPDLRMNATQ	2	17
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1193	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1193	RKNKYRPDLRMNATQ	2	17
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1193	IRKNKYRPDLRMNAT	1	16
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1193	NKYRPDLRMNATQRM	4	19
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1303	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1303	RKNKYRPDLRMNATQ	2	17
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1307	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1307	RKNKYRPDLRMNATQ	2	17
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-13101	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-13101	RKNKYRPDLRMNATQ	2	17
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-13101	IRKNKYRPDLRMNAT	1	16
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1310	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1310	RKNKYRPDLRMNATQ	2	17
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1310	IRKNKYRPDLRMNAT	1	16
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1326	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1329	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1333	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1333	RKNKYRPDLRMNATQ	2	17
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1333	IRKNKYRPDLRMNAT	1	16
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1333	NKYRPDLRMNATQRM	4	19
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1336	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1336	RKNKYRPDLRMNATQ	2	17
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1337	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1337	RKNKYRPDLRMNATQ	2	17
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1337	IRKNKYRPDLRMNAT	1	16
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1337	NKYRPDLRMNATQRM	4	19
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1338	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1341	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1341	RKNKYRPDLRMNATQ	2	17
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1347	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1356	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1360	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1360	RKNKYRPDLRMNATQ	2	17
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1363	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1365	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1366	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1366	RKNKYRPDLRMNATQ	2	17
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1382	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1385	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1385	RKNKYRPDLRMNATQ	2	17
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1385	IRKNKYRPDLRMNAT	1	16
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1385	NKYRPDLRMNATQRM	4	19
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1386	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1386	RKNKYRPDLRMNATQ	2	17
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1388	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1388	RKNKYRPDLRMNATQ	2	17
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1390	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1390	RKNKYRPDLRMNATQ	2	17
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1395	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1395	RKNKYRPDLRMNATQ	2	17
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1396	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1402	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1402	RKNKYRPDLRMNATQ	2	17
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1403	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1409	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1409	RKNKYRPDLRMNATQ	2	17
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1409	IRKNKYRPDLRMNAT	1	16
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1413	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1413	RKNKYRPDLRMNATQ	2	17
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1414	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1414	RKNKYRPDLRMNATQ	2	17
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1419	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1419	RKNKYRPDLRMNATQ	2	17
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1419	NKYRPDLRMNATQRM	4	19
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1419	IRKNKYRPDLRMNAT	1	16
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1424	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1424	RKNKYRPDLRMNATQ	2	17
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1430	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1430	RKNKYRPDLRMNATQ	2	17
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1436	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1436	RKNKYRPDLRMNATQ	2	17
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1440	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1441	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1441	RKNKYRPDLRMNATQ	2	17
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1442	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1442	RKNKYRPDLRMNATQ	2	17
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1444	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1444	RKNKYRPDLRMNATQ	2	17
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1447	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1447	RKNKYRPDLRMNATQ	2	17
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1447	RPDLRMNATQRMFEI	7	22
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1447	YRPDLRMNATQRMFE	6	21
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1449	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1451	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1451	RKNKYRPDLRMNATQ	2	17
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1451	IRKNKYRPDLRMNAT	1	16
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1469	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1477	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1489	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1494	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1494	RKNKYRPDLRMNATQ	2	17
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1498	KNKYRPDLRMNATQR	3	18
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB1-1498	RKNKYRPDLRMNATQ	2	17
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0201	YRPDLRMNATQRMFE	6	21
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0201	RPDLRMNATQRMFEI	7	22
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0201	KYRPDLRMNATQRMF	5	20
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0201	PDLRMNATQRMFEID	8	23
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0202	RPDLRMNATQRMFEI	7	22
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0202	YRPDLRMNATQRMFE	6	21
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0202	KYRPDLRMNATQRMF	5	20
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0204	RPDLRMNATQRMFEI	7	22
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0204	YRPDLRMNATQRMFE	6	21
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0204	KYRPDLRMNATQRMF	5	20
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0204	PDLRMNATQRMFEID	8	23
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0205	RPDLRMNATQRMFEI	7	22
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0205	YRPDLRMNATQRMFE	6	21
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0205	KYRPDLRMNATQRMF	5	20
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0209	YRPDLRMNATQRMFE	6	21
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0209	RPDLRMNATQRMFEI	7	22
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0209	KYRPDLRMNATQRMF	5	20
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0210	RPDLRMNATQRMFEI	7	22
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0210	YRPDLRMNATQRMFE	6	21
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0210	KYRPDLRMNATQRMF	5	20
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0211	RPDLRMNATQRMFEI	7	22
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0211	YRPDLRMNATQRMFE	6	21
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0211	KYRPDLRMNATQRMF	5	20
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0212	YRPDLRMNATQRMFE	6	21
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0212	RPDLRMNATQRMFEI	7	22
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0212	KYRPDLRMNATQRMF	5	20
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0213	RPDLRMNATQRMFEI	7	22
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0213	YRPDLRMNATQRMFE	6	21
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0214	RPDLRMNATQRMFEI	7	22
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0214	YRPDLRMNATQRMFE	6	21
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0214	KYRPDLRMNATQRMF	5	20
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0214	PDLRMNATQRMFEID	8	23
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0215	YRPDLRMNATQRMFE	6	21
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0215	RPDLRMNATQRMFEI	7	22
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0216	YRPDLRMNATQRMFE	6	21
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0216	RPDLRMNATQRMFEI	7	22
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0216	KYRPDLRMNATQRMF	5	20
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0217	RPDLRMNATQRMFEI	7	22
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0217	YRPDLRMNATQRMFE	6	21
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0218	RPDLRMNATQRMFEI	7	22
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0218	YRPDLRMNATQRMFE	6	21
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0218	KYRPDLRMNATQRMF	5	20
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0219	RPDLRMNATQRMFEI	7	22
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0219	YRPDLRMNATQRMFE	6	21
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0219	KYRPDLRMNATQRMF	5	20
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0220	RPDLRMNATQRMFEI	7	22
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0220	YRPDLRMNATQRMFE	6	21
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0220	KYRPDLRMNATQRMF	5	20
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0221	YRPDLRMNATQRMFE	6	21
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0221	RPDLRMNATQRMFEI	7	22
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0221	KYRPDLRMNATQRMF	5	20
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0222	RPDLRMNATQRMFEI	7	22
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0222	YRPDLRMNATQRMFE	6	21
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0222	KYRPDLRMNATQRMF	5	20
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0223	RPDLRMNATQRMFEI	7	22
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0223	YRPDLRMNATQRMFE	6	21
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0223	KYRPDLRMNATQRMF	5	20
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0224	YRPDLRMNATQRMFE	6	21
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0224	RPDLRMNATQRMFEI	7	22
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0224	KYRPDLRMNATQRMF	5	20
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0224	PDLRMNATQRMFEID	8	23
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0225	RPDLRMNATQRMFEI	7	22
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0225	YRPDLRMNATQRMFE	6	21
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0225	KYRPDLRMNATQRMF	5	20
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0301	YRPDLRMNATQRMFE	6	21
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0301	RPDLRMNATQRMFEI	7	22
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0301	KYRPDLRMNATQRMF	5	20
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0301	PDLRMNATQRMFEID	8	23
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0303	RPDLRMNATQRMFEI	7	22
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0303	YRPDLRMNATQRMFE	6	21
RPL28-GLB1	chr19	55899416	chr3	33114206	953	DRB3-0303	KYRPDLRMNATQRMF	5	20

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Fusion breakpoint peptide structures of RPL28-GLB1

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
10796	YRPDLRMNATQRMF	RPL28	GLB1	chr19	55899416	chr3	33114206	953

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Filtering FusionNeoAntigens Through Checking the Interaction with HLAs in 3D of RPL28-GLB1

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-B53:01	1A1O	10796	YRPDLRMNATQRMF	-4.17128	-4.28468
HLA-B53:01	1A1O	10796	YRPDLRMNATQRMF	-3.4824	-4.5177
HLA-B51:01	1E28	10796	YRPDLRMNATQRMF	-3.8039	-3.9173
HLA-B51:01	1E28	10796	YRPDLRMNATQRMF	-3.0982	-4.1335
HLA-B57:03	2BVO	10796	YRPDLRMNATQRMF	-2.25252	-3.28782
HLA-B57:03	2BVO	10796	YRPDLRMNATQRMF	-1.1301	-1.2435
HLA-A03:01	2XPG	10796	YRPDLRMNATQRMF	-4.44786	-4.56126
HLA-A03:01	2XPG	10796	YRPDLRMNATQRMF	-4.14835	-5.18365
HLA-B14:02	3BVN	10796	YRPDLRMNATQRMF	-5.80238	-5.91578
HLA-B14:02	3BVN	10796	YRPDLRMNATQRMF	-3.55223	-4.58753
HLA-B52:01	3W39	10796	YRPDLRMNATQRMF	-5.11856	-5.23196
HLA-B52:01	3W39	10796	YRPDLRMNATQRMF	-3.25922	-4.29452
HLA-B18:01	4JQV	10796	YRPDLRMNATQRMF	-4.41315	-4.52655
HLA-B18:01	4JQV	10796	YRPDLRMNATQRMF	-3.36095	-4.39625
HLA-A11:01	4UQ2	10796	YRPDLRMNATQRMF	-8.56989	-8.68329
HLA-A11:01	4UQ2	10796	YRPDLRMNATQRMF	-6.72556	-7.76086
HLA-A24:02	5HGA	10796	YRPDLRMNATQRMF	-6.2734	-6.3868
HLA-A24:02	5HGA	10796	YRPDLRMNATQRMF	-4.24193	-5.27723
HLA-B57:01	5VUD	10796	YRPDLRMNATQRMF	-3.95679	-4.99209
HLA-B57:01	5VUD	10796	YRPDLRMNATQRMF	-2.97944	-3.09284
HLA-C08:02	6JTP	10796	YRPDLRMNATQRMF	-4.74128	-4.85468
HLA-C08:02	6JTP	10796	YRPDLRMNATQRMF	-2.44773	-3.48303
HLA-B37:01	6MT4	10796	YRPDLRMNATQRMF	-3.77829	-4.81359
HLA-B27:05	6PYJ	10796	YRPDLRMNATQRMF	-3.40019	-3.51359
HLA-B27:05	6PYJ	10796	YRPDLRMNATQRMF	-1.99024	-3.02554
HLA-B27:03	6PZ5	10796	YRPDLRMNATQRMF	-3.1249	-3.2383
HLA-B27:03	6PZ5	10796	YRPDLRMNATQRMF	-0.148491	-1.18379
HLA-B44:05	3DX8	10796	YRPDLRMNATQRMF	-5.76333	-5.87673
HLA-B44:05	3DX8	10796	YRPDLRMNATQRMF	-3.98513	-5.02043
HLA-B44:02	1M6O	10796	YRPDLRMNATQRMF	-1.76802	-2.80332
HLA-B07:02	5EO0	10796	YRPDLRMNATQRMF	-3.47003	-3.58343
HLA-B07:02	5EO0	10796	YRPDLRMNATQRMF	0.983323	-0.0519774
HLA-A02:01	6TDR	10796	YRPDLRMNATQRMF	-2.71064	-3.74594
HLA-A02:01	6TDR	10796	YRPDLRMNATQRMF	-2.80613	-2.91953

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Vaccine Design for the FusionNeoAntigens of RPL28-GLB1

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
RPL28-GLB1	chr19	55899416	chr3	33114206	10	19	LRMNATQRM	CTGCGCATGAATGCCACCCAGAGGATG
RPL28-GLB1	chr19	55899416	chr3	33114206	10	20	LRMNATQRMF	CTGCGCATGAATGCCACCCAGAGGATGTTT
RPL28-GLB1	chr19	55899416	chr3	33114206	11	20	RMNATQRMF	CGCATGAATGCCACCCAGAGGATGTTT
RPL28-GLB1	chr19	55899416	chr3	33114206	5	15	KYRPDLRMNA	AAGTACCGCCCCGACCTGCGCATGAATGCC
RPL28-GLB1	chr19	55899416	chr3	33114206	6	15	YRPDLRMNA	TACCGCCCCGACCTGCGCATGAATGCC
RPL28-GLB1	chr19	55899416	chr3	33114206	9	18	DLRMNATQR	GACCTGCGCATGAATGCCACCCAGAGG

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
RPL28-GLB1	chr19	55899416	chr3	33114206	1	16	IRKNKYRPDLRMNAT	ATCCGCAAGAACAAGTACCGCCCCGACCTGCGCATGAATGCCACC
RPL28-GLB1	chr19	55899416	chr3	33114206	2	17	RKNKYRPDLRMNATQ	CGCAAGAACAAGTACCGCCCCGACCTGCGCATGAATGCCACCCAG
RPL28-GLB1	chr19	55899416	chr3	33114206	3	18	KNKYRPDLRMNATQR	AAGAACAAGTACCGCCCCGACCTGCGCATGAATGCCACCCAGAGG
RPL28-GLB1	chr19	55899416	chr3	33114206	4	19	NKYRPDLRMNATQRM	AACAAGTACCGCCCCGACCTGCGCATGAATGCCACCCAGAGGATG
RPL28-GLB1	chr19	55899416	chr3	33114206	5	20	KYRPDLRMNATQRMF	AAGTACCGCCCCGACCTGCGCATGAATGCCACCCAGAGGATGTTT
RPL28-GLB1	chr19	55899416	chr3	33114206	6	21	YRPDLRMNATQRMFE	TACCGCCCCGACCTGCGCATGAATGCCACCCAGAGGATGTTTGAA
RPL28-GLB1	chr19	55899416	chr3	33114206	7	22	RPDLRMNATQRMFEI	CGCCCCGACCTGCGCATGAATGCCACCCAGAGGATGTTTGAAATT
RPL28-GLB1	chr19	55899416	chr3	33114206	8	23	PDLRMNATQRMFEID	CCCGACCTGCGCATGAATGCCACCCAGAGGATGTTTGAAATTGAC

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Information of the samples that have these potential fusion neoantigens of RPL28-GLB1

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
N/A	RPL28-GLB1	chr19	55899416	ENST00000344063	chr3	33114206	ENST00000307363	DA524376

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Potential target of CAR-T therapy development for RPL28-GLB1

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 RPL28-GLB1

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 RPL28-GLB1

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)