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Fusion Protein:BPTF-RGS9

Fusion Gene and Fusion Protein Summary

Fusion gene summary

Fusion partner gene information	Fusion gene name: BPTF-RGS9
	FusionPDB ID: 10101
	FusionGDB2.0 ID: 10101
		Hgene	Tgene
	Gene symbol	BPTF	RGS9
	Gene ID	2186	388531
	Gene name	bromodomain PHD finger transcription factor	regulator of G protein signaling 9 binding protein
	Synonyms	FAC1\|FALZ\|NEDDFL\|NURF301	PERRS\|R9AP\|RGS9
	Cytomap	17q24.2	19q13.11
	Type of gene	protein-coding	protein-coding
	Description	nucleosome-remodeling factor subunit BPTFbromodomain and PHD domain transcription factorbromodomain and PHD finger-containing transcription factorfetal Alz-50 clone 1 proteinfetal Alz-50 reactive clone 1fetal Alzheimer antigennucleosome remodeling f	regulator of G-protein signaling 9-binding proteinRGS9 anchor proteinRGS9-anchoring protein
	Modification date	20200313	20200313
	UniProtAcc	Q12830 Main function of 5'-partner protein: FUNCTION: Histone-binding component of NURF (nucleosome-remodeling factor), a complex which catalyzes ATP-dependent nucleosome sliding and facilitates transcription of chromatin. Specifically recognizes H3 tails trimethylated on 'Lys-4' (H3K4me3), which mark transcription start sites of virtually all active genes. May also regulate transcription through direct binding to DNA or transcription factors.	.
Ensembl transtripts involved in fusion gene	ENST ids	ENST00000306378, ENST00000321892, ENST00000335221, ENST00000424123, ENST00000577770,	ENST00000577186, ENST00000262406, ENST00000443584, ENST00000449996,
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)	* DoF score	27 X 21 X 13=7371	13 X 16 X 5=1040
	# samples	42	15
	** MAII score	log2(42/7371*10)=-4.1333991254172 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0	log2(15/1040*10)=-2.79354912253257 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0
Fusion gene context	PubMed: BPTF [Title/Abstract] AND RGS9 [Title/Abstract] AND fusion [Title/Abstract]
Fusion neoantigen context	PubMed: BPTF [Title/Abstract] AND RGS9 [Title/Abstract] AND neoantigen [Title/Abstract]
Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)	BPTF(65850878)-RGS9(63164318), # samples:2
Anticipated loss of major functional domain due to fusion event.	BPTF-RGS9 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. BPTF-RGS9 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. BPTF-RGS9 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. BPTF-RGS9 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. BPTF-RGS9 seems lost the major protein functional domain in Hgene partner, which is a epigenetic factor due to the frame-shifted ORF. BPTF-RGS9 seems lost the major protein functional domain in Hgene partner, which is a essential gene due to the frame-shifted ORF. BPTF-RGS9 seems lost the major protein functional domain in Hgene partner, which is a IUPHAR drug target due to the frame-shifted ORF. BPTF-RGS9 seems lost the major protein functional domain in Hgene partner, which is a transcription factor due to the frame-shifted ORF. BPTF-RGS9 seems lost the major protein functional domain in Tgene partner, which is a IUPHAR drug target due to the frame-shifted ORF.

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

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

Partner	Gene	GO ID	GO term	PubMed ID
Hgene	BPTF	GO:0000122	negative regulation of transcription by RNA polymerase II	10727212
Hgene	BPTF	GO:0006338	chromatin remodeling	14609955

Four levels of functional features of fusion genes
Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/chr17:65850878/chr17:63164318)
- 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 BPTF (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 RGS9 (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)
ENST00000335221	BPTF	chr17	65850878	+	ENST00000443584	RGS9	chr17	63164318	+	2982	1497	61	2883	940
ENST00000335221	BPTF	chr17	65850878	+	ENST00000449996	RGS9	chr17	63164318	+	3309	1497	61	3012	983
ENST00000335221	BPTF	chr17	65850878	+	ENST00000262406	RGS9	chr17	63164318	+	3305	1497	61	3021	986
ENST00000321892	BPTF	chr17	65850878	+	ENST00000443584	RGS9	chr17	63164318	+	2982	1497	61	2883	940
ENST00000321892	BPTF	chr17	65850878	+	ENST00000449996	RGS9	chr17	63164318	+	3309	1497	61	3012	983
ENST00000321892	BPTF	chr17	65850878	+	ENST00000262406	RGS9	chr17	63164318	+	3305	1497	61	3021	986
ENST00000306378	BPTF	chr17	65850878	+	ENST00000443584	RGS9	chr17	63164318	+	2981	1496	60	2882	940
ENST00000306378	BPTF	chr17	65850878	+	ENST00000449996	RGS9	chr17	63164318	+	3308	1496	60	3011	983
ENST00000306378	BPTF	chr17	65850878	+	ENST00000262406	RGS9	chr17	63164318	+	3304	1496	60	3020	986
ENST00000424123	BPTF	chr17	65850878	+	ENST00000443584	RGS9	chr17	63164318	+	2504	1019	0	2405	801
ENST00000424123	BPTF	chr17	65850878	+	ENST00000449996	RGS9	chr17	63164318	+	2831	1019	0	2534	844
ENST00000424123	BPTF	chr17	65850878	+	ENST00000262406	RGS9	chr17	63164318	+	2827	1019	0	2543	847
ENST00000335221	BPTF	chr17	65850878	+	ENST00000443584	RGS9	chr17	63164317	+	2982	1497	61	2883	940
ENST00000335221	BPTF	chr17	65850878	+	ENST00000449996	RGS9	chr17	63164317	+	3309	1497	61	3012	983
ENST00000335221	BPTF	chr17	65850878	+	ENST00000262406	RGS9	chr17	63164317	+	3305	1497	61	3021	986
ENST00000321892	BPTF	chr17	65850878	+	ENST00000443584	RGS9	chr17	63164317	+	2982	1497	61	2883	940
ENST00000321892	BPTF	chr17	65850878	+	ENST00000449996	RGS9	chr17	63164317	+	3309	1497	61	3012	983
ENST00000321892	BPTF	chr17	65850878	+	ENST00000262406	RGS9	chr17	63164317	+	3305	1497	61	3021	986
ENST00000306378	BPTF	chr17	65850878	+	ENST00000443584	RGS9	chr17	63164317	+	2981	1496	60	2882	940
ENST00000306378	BPTF	chr17	65850878	+	ENST00000449996	RGS9	chr17	63164317	+	3308	1496	60	3011	983
ENST00000306378	BPTF	chr17	65850878	+	ENST00000262406	RGS9	chr17	63164317	+	3304	1496	60	3020	986
ENST00000424123	BPTF	chr17	65850878	+	ENST00000443584	RGS9	chr17	63164317	+	2504	1019	0	2405	801
ENST00000424123	BPTF	chr17	65850878	+	ENST00000449996	RGS9	chr17	63164317	+	2831	1019	0	2534	844
ENST00000424123	BPTF	chr17	65850878	+	ENST00000262406	RGS9	chr17	63164317	+	2827	1019	0	2543	847
ENST00000335221	BPTF	chr17	65850877	+	ENST00000443584	RGS9	chr17	63164317	+	2982	1497	61	2883	940
ENST00000335221	BPTF	chr17	65850877	+	ENST00000449996	RGS9	chr17	63164317	+	3309	1497	61	3012	983
ENST00000335221	BPTF	chr17	65850877	+	ENST00000262406	RGS9	chr17	63164317	+	3305	1497	61	3021	986
ENST00000321892	BPTF	chr17	65850877	+	ENST00000443584	RGS9	chr17	63164317	+	2982	1497	61	2883	940
ENST00000321892	BPTF	chr17	65850877	+	ENST00000449996	RGS9	chr17	63164317	+	3309	1497	61	3012	983
ENST00000321892	BPTF	chr17	65850877	+	ENST00000262406	RGS9	chr17	63164317	+	3305	1497	61	3021	986
ENST00000306378	BPTF	chr17	65850877	+	ENST00000443584	RGS9	chr17	63164317	+	2981	1496	60	2882	940
ENST00000306378	BPTF	chr17	65850877	+	ENST00000449996	RGS9	chr17	63164317	+	3308	1496	60	3011	983
ENST00000306378	BPTF	chr17	65850877	+	ENST00000262406	RGS9	chr17	63164317	+	3304	1496	60	3020	986
ENST00000424123	BPTF	chr17	65850877	+	ENST00000443584	RGS9	chr17	63164317	+	2504	1019	0	2405	801
ENST00000424123	BPTF	chr17	65850877	+	ENST00000449996	RGS9	chr17	63164317	+	2831	1019	0	2534	844
ENST00000424123	BPTF	chr17	65850877	+	ENST00000262406	RGS9	chr17	63164317	+	2827	1019	0	2543	847

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
ENST00000335221	ENST00000443584	BPTF	chr17	65850878	+	RGS9	chr17	63164318	+	0.005122455	0.9948775
ENST00000335221	ENST00000449996	BPTF	chr17	65850878	+	RGS9	chr17	63164318	+	0.00307905	0.99692094
ENST00000335221	ENST00000262406	BPTF	chr17	65850878	+	RGS9	chr17	63164318	+	0.00307069	0.99692935
ENST00000321892	ENST00000443584	BPTF	chr17	65850878	+	RGS9	chr17	63164318	+	0.005122455	0.9948775
ENST00000321892	ENST00000449996	BPTF	chr17	65850878	+	RGS9	chr17	63164318	+	0.00307905	0.99692094
ENST00000321892	ENST00000262406	BPTF	chr17	65850878	+	RGS9	chr17	63164318	+	0.00307069	0.99692935
ENST00000306378	ENST00000443584	BPTF	chr17	65850878	+	RGS9	chr17	63164318	+	0.00512128	0.99487865
ENST00000306378	ENST00000449996	BPTF	chr17	65850878	+	RGS9	chr17	63164318	+	0.003076853	0.99692315
ENST00000306378	ENST00000262406	BPTF	chr17	65850878	+	RGS9	chr17	63164318	+	0.003068512	0.99693143
ENST00000424123	ENST00000443584	BPTF	chr17	65850878	+	RGS9	chr17	63164318	+	0.003574377	0.99642557
ENST00000424123	ENST00000449996	BPTF	chr17	65850878	+	RGS9	chr17	63164318	+	0.002581279	0.99741876
ENST00000424123	ENST00000262406	BPTF	chr17	65850878	+	RGS9	chr17	63164318	+	0.002592675	0.9974074
ENST00000335221	ENST00000443584	BPTF	chr17	65850878	+	RGS9	chr17	63164317	+	0.005122455	0.9948775
ENST00000335221	ENST00000449996	BPTF	chr17	65850878	+	RGS9	chr17	63164317	+	0.00307905	0.99692094
ENST00000335221	ENST00000262406	BPTF	chr17	65850878	+	RGS9	chr17	63164317	+	0.00307069	0.99692935
ENST00000321892	ENST00000443584	BPTF	chr17	65850878	+	RGS9	chr17	63164317	+	0.005122455	0.9948775
ENST00000321892	ENST00000449996	BPTF	chr17	65850878	+	RGS9	chr17	63164317	+	0.00307905	0.99692094
ENST00000321892	ENST00000262406	BPTF	chr17	65850878	+	RGS9	chr17	63164317	+	0.00307069	0.99692935
ENST00000306378	ENST00000443584	BPTF	chr17	65850878	+	RGS9	chr17	63164317	+	0.00512128	0.99487865
ENST00000306378	ENST00000449996	BPTF	chr17	65850878	+	RGS9	chr17	63164317	+	0.003076853	0.99692315
ENST00000306378	ENST00000262406	BPTF	chr17	65850878	+	RGS9	chr17	63164317	+	0.003068512	0.99693143
ENST00000424123	ENST00000443584	BPTF	chr17	65850878	+	RGS9	chr17	63164317	+	0.003574377	0.99642557
ENST00000424123	ENST00000449996	BPTF	chr17	65850878	+	RGS9	chr17	63164317	+	0.002581279	0.99741876
ENST00000424123	ENST00000262406	BPTF	chr17	65850878	+	RGS9	chr17	63164317	+	0.002592675	0.9974074
ENST00000335221	ENST00000443584	BPTF	chr17	65850877	+	RGS9	chr17	63164317	+	0.005122455	0.9948775
ENST00000335221	ENST00000449996	BPTF	chr17	65850877	+	RGS9	chr17	63164317	+	0.00307905	0.99692094
ENST00000335221	ENST00000262406	BPTF	chr17	65850877	+	RGS9	chr17	63164317	+	0.00307069	0.99692935
ENST00000321892	ENST00000443584	BPTF	chr17	65850877	+	RGS9	chr17	63164317	+	0.005122455	0.9948775
ENST00000321892	ENST00000449996	BPTF	chr17	65850877	+	RGS9	chr17	63164317	+	0.00307905	0.99692094
ENST00000321892	ENST00000262406	BPTF	chr17	65850877	+	RGS9	chr17	63164317	+	0.00307069	0.99692935
ENST00000306378	ENST00000443584	BPTF	chr17	65850877	+	RGS9	chr17	63164317	+	0.00512128	0.99487865
ENST00000306378	ENST00000449996	BPTF	chr17	65850877	+	RGS9	chr17	63164317	+	0.003076853	0.99692315
ENST00000306378	ENST00000262406	BPTF	chr17	65850877	+	RGS9	chr17	63164317	+	0.003068512	0.99693143
ENST00000424123	ENST00000443584	BPTF	chr17	65850877	+	RGS9	chr17	63164317	+	0.003574377	0.99642557
ENST00000424123	ENST00000449996	BPTF	chr17	65850877	+	RGS9	chr17	63164317	+	0.002581279	0.99741876
ENST00000424123	ENST00000262406	BPTF	chr17	65850877	+	RGS9	chr17	63164317	+	0.002592675	0.9974074

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 BPTF-RGS9

+/-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
BPTF	chr17	65850877	RGS9	chr17	63164317	1019	340	RRKYWFLNRRLIMAGKERNKADRYAL
BPTF	chr17	65850878	RGS9	chr17	63164317	1019	340	RRKYWFLNRRLIMAGKERNKADRYAL
BPTF	chr17	65850878	RGS9	chr17	63164318	1019	340	RRKYWFLNRRLIMAGKERNKADRYAL

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Potential FusionNeoAntigen Information of BPTF-RGS9 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.

BPTF-RGS9_65850877_63164317.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)
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	HLA-B08:09	FLNRRLIMA	0.99	0.6784	5	14
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	HLA-A02:22	FLNRRLIMA	0.9858	0.694	5	14
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	HLA-A02:13	FLNRRLIMA	0.9818	0.591	5	14
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	HLA-A02:27	FLNRRLIMA	0.9789	0.5824	5	14
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	HLA-A02:11	FLNRRLIMA	0.9748	0.6205	5	14
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	HLA-A02:30	FLNRRLIMA	0.9728	0.5798	5	14
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	HLA-A02:67	FLNRRLIMA	0.9728	0.5798	5	14
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	HLA-A02:24	FLNRRLIMA	0.9728	0.5798	5	14
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	HLA-A02:60	FLNRRLIMA	0.9724	0.5626	5	14
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	HLA-A74:11	RLIMAGKER	0.9677	0.5164	9	18
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	HLA-A74:03	RLIMAGKER	0.9677	0.5164	9	18
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	HLA-A74:09	RLIMAGKER	0.9677	0.5164	9	18
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	HLA-A02:38	FLNRRLIMA	0.9497	0.5343	5	14
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	HLA-A02:16	FLNRRLIMA	0.9492	0.549	5	14
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	HLA-A02:29	FLNRRLIMA	0.9296	0.5832	5	14
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	HLA-A02:04	FLNRRLIMA	0.9202	0.7591	5	14
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	HLA-A31:02	RLIMAGKER	0.9081	0.5068	9	18
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	HLA-A02:20	FLNRRLIMA	0.8992	0.5822	5	14
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	HLA-A02:35	FLNRRLIMA	0.8937	0.6205	5	14
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	HLA-A02:02	FLNRRLIMA	0.9854	0.6571	5	14
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	HLA-A02:01	FLNRRLIMA	0.9728	0.5798	5	14
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	HLA-A02:03	FLNRRLIMA	0.9942	0.7346	5	14
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	HLA-A74:01	RLIMAGKER	0.9677	0.5164	9	18

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Potential FusionNeoAntigen Information of BPTF-RGS9 in HLA II

BPTF-RGS9_65850877_63164317.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)
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-0466	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-0802	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-0804	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-0804	LNRRLIMAGKERNKA	6	21
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-0806	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-0809	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-0820	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-0820	LNRRLIMAGKERNKA	6	21
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-0821	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-0824	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-0828	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-0831	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-0831	LNRRLIMAGKERNKA	6	21
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1101	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1103	RLIMAGKERNKADRY	9	24
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1103	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1103	RRLIMAGKERNKADR	8	23
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1104	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1104	LNRRLIMAGKERNKA	6	21
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1106	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1108	RRKYWFLNRRLIMAG	0	15
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1109	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1110	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1111	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1112	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1114	RRKYWFLNRRLIMAG	0	15
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1115	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1117	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1117	LNRRLIMAGKERNKA	6	21
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1118	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1119	RRKYWFLNRRLIMAG	0	15
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1120	RRKYWFLNRRLIMAG	0	15
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1124	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1125	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1127	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1127	RRKYWFLNRRLIMAG	0	15
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1128	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1129	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1131	RRKYWFLNRRLIMAG	0	15
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1132	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1133	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1134	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1135	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1135	LNRRLIMAGKERNKA	6	21
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1137	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1137	LNRRLIMAGKERNKA	6	21
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1138	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1138	LNRRLIMAGKERNKA	6	21
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1139	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1141	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1141	RRLIMAGKERNKADR	8	23
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1141	RLIMAGKERNKADRY	9	24
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1141	LNRRLIMAGKERNKA	6	21
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1142	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1143	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1143	LNRRLIMAGKERNKA	6	21
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1144	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1144	LNRRLIMAGKERNKA	6	21
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1145	RRKYWFLNRRLIMAG	0	15
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1146	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1146	LNRRLIMAGKERNKA	6	21
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1147	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1148	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1149	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1150	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1150	LNRRLIMAGKERNKA	6	21
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1151	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1152	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1152	LNRRLIMAGKERNKA	6	21
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1153	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1153	LNRRLIMAGKERNKA	6	21
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1154	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1154	LNRRLIMAGKERNKA	6	21
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1154	RRLIMAGKERNKADR	8	23
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1155	RLIMAGKERNKADRY	9	24
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1155	RRLIMAGKERNKADR	8	23
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1155	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1156	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1156	LNRRLIMAGKERNKA	6	21
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1157	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1158	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1158	LNRRLIMAGKERNKA	6	21
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1159	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1159	RRLIMAGKERNKADR	8	23
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1159	RLIMAGKERNKADRY	9	24
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1160	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1160	LNRRLIMAGKERNKA	6	21
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1161	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1162	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1163	RLIMAGKERNKADRY	9	24
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1163	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1163	RRLIMAGKERNKADR	8	23
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1164	RRKYWFLNRRLIMAG	0	15
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1166	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1167	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1168	RRKYWFLNRRLIMAG	0	15
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1169	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1172	RRKYWFLNRRLIMAG	0	15
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1172	RKYWFLNRRLIMAGK	1	16
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1172	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1173	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1174	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1175	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1176	RLIMAGKERNKADRY	9	24
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1176	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1176	RRLIMAGKERNKADR	8	23
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1177	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1177	LNRRLIMAGKERNKA	6	21
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1178	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1178	LNRRLIMAGKERNKA	6	21
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1180	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1181	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1183	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1183	LNRRLIMAGKERNKA	6	21
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1184	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1184	LNRRLIMAGKERNKA	6	21
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1185	RLIMAGKERNKADRY	9	24
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1185	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1185	RRLIMAGKERNKADR	8	23
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1187	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1188	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1188	LNRRLIMAGKERNKA	6	21
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1189	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1189	LNRRLIMAGKERNKA	6	21
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1190	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1191	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1192	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1192	LNRRLIMAGKERNKA	6	21
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1193	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1194	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1195	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1196	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1302	RRKYWFLNRRLIMAG	0	15
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1305	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1306	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1307	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1307	LNRRLIMAGKERNKA	6	21
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1308	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-13100	RRKYWFLNRRLIMAG	0	15
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1311	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1311	LNRRLIMAGKERNKA	6	21
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1314	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1318	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1323	RRKYWFLNRRLIMAG	0	15
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1324	RLIMAGKERNKADRY	9	24
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1324	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1324	RRLIMAGKERNKADR	8	23
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1326	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1326	LNRRLIMAGKERNKA	6	21
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1329	RRKYWFLNRRLIMAG	0	15
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1331	RRKYWFLNRRLIMAG	0	15
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1334	RRKYWFLNRRLIMAG	0	15
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1337	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1339	RRKYWFLNRRLIMAG	0	15
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1342	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1342	LNRRLIMAGKERNKA	6	21
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1344	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1346	RRKYWFLNRRLIMAG	0	15
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1347	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1347	LNRRLIMAGKERNKA	6	21
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1350	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1355	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1356	RRKYWFLNRRLIMAG	0	15
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1360	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1362	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1363	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1370	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1372	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1373	RRKYWFLNRRLIMAG	0	15
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1374	RRKYWFLNRRLIMAG	0	15
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1375	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1375	RRLIMAGKERNKADR	8	23
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1376	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1376	RRLIMAGKERNKADR	8	23
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1382	RRKYWFLNRRLIMAG	0	15
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1384	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1385	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1385	LNRRLIMAGKERNKA	6	21
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1386	RRKYWFLNRRLIMAG	0	15
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1389	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1394	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1396	RRKYWFLNRRLIMAG	0	15
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1396	RKYWFLNRRLIMAGK	1	16
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1397	RRKYWFLNRRLIMAG	0	15
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1399	RRKYWFLNRRLIMAG	0	15
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1402	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1403	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1405	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1405	LNRRLIMAGKERNKA	6	21
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1406	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1408	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1408	LNRRLIMAGKERNKA	6	21
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1409	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1411	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1412	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1413	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1414	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1414	RRKYWFLNRRLIMAG	0	15
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1415	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1415	LNRRLIMAGKERNKA	6	21
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1417	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1418	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1418	LNRRLIMAGKERNKA	6	21
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1419	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1420	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1421	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1422	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1423	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1423	LNRRLIMAGKERNKA	6	21
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1424	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1425	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1427	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1427	LNRRLIMAGKERNKA	6	21
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1429	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1430	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1433	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1433	LNRRLIMAGKERNKA	6	21
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1434	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1436	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1436	RRKYWFLNRRLIMAG	0	15
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1437	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1440	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1441	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1442	RRKYWFLNRRLIMAG	0	15
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1442	RKYWFLNRRLIMAGK	1	16
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1442	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1443	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1443	LNRRLIMAGKERNKA	6	21
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1444	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1444	RRKYWFLNRRLIMAG	0	15
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1445	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1451	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1451	LNRRLIMAGKERNKA	6	21
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1453	RRKYWFLNRRLIMAG	0	15
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1456	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1456	LNRRLIMAGKERNKA	6	21
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1459	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1459	LNRRLIMAGKERNKA	6	21
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1464	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1467	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1467	RRKYWFLNRRLIMAG	0	15
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1472	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1473	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1473	LNRRLIMAGKERNKA	6	21
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1477	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1478	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1480	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1480	LNRRLIMAGKERNKA	6	21
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1481	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1483	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1484	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1484	LNRRLIMAGKERNKA	6	21
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1485	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1489	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1491	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1491	LNRRLIMAGKERNKA	6	21
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1494	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1495	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1496	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1496	LNRRLIMAGKERNKA	6	21
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1498	NRRLIMAGKERNKAD	7	22
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1498	RRKYWFLNRRLIMAG	0	15
BPTF-RGS9	chr17	65850877	chr17	63164317	1019	DRB1-1498	RKYWFLNRRLIMAGK	1	16

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Fusion breakpoint peptide structures of BPTF-RGS9

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
5343	LNRRLIMAGKERNK	BPTF	RGS9	chr17	65850877	chr17	63164317	1019

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Filtering FusionNeoAntigens Through Checking the Interaction with HLAs in 3D of BPTF-RGS9

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	5343	LNRRLIMAGKERNK	-7.15543	-7.26883
HLA-B14:02	3BVN	5343	LNRRLIMAGKERNK	-4.77435	-5.80965
HLA-B52:01	3W39	5343	LNRRLIMAGKERNK	-6.80875	-6.92215
HLA-B52:01	3W39	5343	LNRRLIMAGKERNK	-4.20386	-5.23916
HLA-A11:01	4UQ2	5343	LNRRLIMAGKERNK	-7.5194	-8.5547
HLA-A11:01	4UQ2	5343	LNRRLIMAGKERNK	-6.9601	-7.0735
HLA-A24:02	5HGA	5343	LNRRLIMAGKERNK	-7.52403	-7.63743
HLA-A24:02	5HGA	5343	LNRRLIMAGKERNK	-5.82433	-6.85963
HLA-B27:05	6PYJ	5343	LNRRLIMAGKERNK	-3.28285	-4.31815
HLA-B44:05	3DX8	5343	LNRRLIMAGKERNK	-5.91172	-6.94702
HLA-B44:05	3DX8	5343	LNRRLIMAGKERNK	-4.24346	-4.35686

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Vaccine Design for the FusionNeoAntigens of BPTF-RGS9

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
BPTF-RGS9	chr17	65850877	chr17	63164317	5	14	FLNRRLIMA	GTTCTTGAACCGAAGACTCATAATGGC
BPTF-RGS9	chr17	65850877	chr17	63164317	9	18	RLIMAGKER	AAGACTCATAATGGCTGGAAAGGAGAG

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
BPTF-RGS9	chr17	65850877	chr17	63164317	0	15	RRKYWFLNRRLIMAG	TCGGAGGAAATACTGGTTCTTGAACCGAAGACTCATAATGGCTGG
BPTF-RGS9	chr17	65850877	chr17	63164317	1	16	RKYWFLNRRLIMAGK	GAGGAAATACTGGTTCTTGAACCGAAGACTCATAATGGCTGGAAA
BPTF-RGS9	chr17	65850877	chr17	63164317	6	21	LNRRLIMAGKERNKA	CTTGAACCGAAGACTCATAATGGCTGGAAAGGAGAGGAACAAAGC
BPTF-RGS9	chr17	65850877	chr17	63164317	7	22	NRRLIMAGKERNKAD	GAACCGAAGACTCATAATGGCTGGAAAGGAGAGGAACAAAGCAGA
BPTF-RGS9	chr17	65850877	chr17	63164317	8	23	RRLIMAGKERNKADR	CCGAAGACTCATAATGGCTGGAAAGGAGAGGAACAAAGCAGACAG
BPTF-RGS9	chr17	65850877	chr17	63164317	9	24	RLIMAGKERNKADRY	AAGACTCATAATGGCTGGAAAGGAGAGGAACAAAGCAGACAGATA

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Information of the samples that have these potential fusion neoantigens of BPTF-RGS9

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	BPTF-RGS9	chr17	65850877	ENST00000424123	chr17	63164317	ENST00000262406	TCGA-E9-A22D-01A

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Potential target of CAR-T therapy development for BPTF-RGS9

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 BPTF-RGS9

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 BPTF-RGS9

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)