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Center for Computational Systems Medicine
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Fusion Gene and Fusion Protein Summary

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Fusion Amino Acid Sequences (multiple BPs and multiple gene isoforms)

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Fusion Protein Breakpoint Sequences - (for the Screening of the FusionNeoAntigens)

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Potential FusionNeoAntigens in HLA I - (netMHCpan v4.1 + deepHLApan v1.1)

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Potential FusionNeoAntigens in HLA II - (netMHCIIpan v4.1)

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Fusion Breakpoint 14 AA Peptide Structure - (RoseTTAFold)

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Filtering FusionNeoAntigens Through Checking the Interaction with HLAs in 3D - (Glide)

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Vaccine Design for the FusionNeoAntigens (RNA/protein sequences)

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Potential target of CAR-T therapy development

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Information on the samples that have these potential fusion neoantigens

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Fusion Protein Targeting Drugs - (Manual Curation)

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Fusion Protein Related diseases - (Manual Curation)

Fusion Protein:BCAS3-ZMYND8

Fusion Gene and Fusion Protein Summary

check button Fusion gene summary
Fusion partner gene informationFusion gene name: BCAS3-ZMYND8
FusionPDB ID: 9246
FusionGDB2.0 ID: 9246
HgeneTgene
Gene symbol

BCAS3

ZMYND8

Gene ID

54828

23613

Gene nameBCAS3 microtubule associated cell migration factorzinc finger MYND-type containing 8
SynonymsGAOB1|MAABPRKCBP1|PRO2893|RACK7
Cytomap

17q23.2

20q13.12

Type of geneprotein-codingprotein-coding
Descriptionbreast carcinoma-amplified sequence 3BCAS4/BCAS3 fusionRudhirabreast carcinoma amplified sequence 4/3 fusion proteinmetastasis associated antigen of breast cancerprotein Maab1protein kinase C-binding protein 1CTCL tumor antigen se14-3cutaneous T-cell lymphoma-associated antigen se14-3predicted protein of HQ2893zinc finger MYND domain-containing protein 8
Modification date2020031320200313
UniProtAcc

Q9H6U6

Main function of 5'-partner protein: FUNCTION: Plays a role in angiogenesis. Participates in the regulation of cell polarity and directional endothelial cell migration by mediating both the activation and recruitment of CDC42 and the reorganization of the actin cytoskeleton at the cell leading edge. Promotes filipodia formation (By similarity). Functions synergistically with PELP1 as a transcriptional coactivator of estrogen receptor-responsive genes. Stimulates histone acetyltransferase activity. Binds to chromatin. {ECO:0000250|UniProtKB:Q8CCN5, ECO:0000269|PubMed:17505058}.		.
Ensembl transtripts involved in fusion geneENST idsENST00000390652, ENST00000407086, 
ENST00000408905, ENST00000585744, 
ENST00000588462, ENST00000588874, 
ENST00000589222, ENST00000585812, 
ENST00000468376, ENST00000372023, 
ENST00000461685, ENST00000540497, 
ENST00000262975, ENST00000311275, 
ENST00000352431, ENST00000355972, 
ENST00000360911, ENST00000396281, 
ENST00000446994, ENST00000458360, 
ENST00000471951, ENST00000536340, 
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)* DoF score53 X 35 X 17=3153510 X 12 X 6=720
# samples 6113
** MAII scorelog2(61/31535*10)=-5.69200088030826
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(13/720*10)=-2.46948528330122
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Fusion gene context

PubMed: BCAS3 [Title/Abstract] AND ZMYND8 [Title/Abstract] AND fusion [Title/Abstract]

Fusion neoantigen context

PubMed: BCAS3 [Title/Abstract] AND ZMYND8 [Title/Abstract] AND neoantigen [Title/Abstract]

Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)BCAS3(59161925)-ZMYND8(45891172), # samples:2
Anticipated loss of major functional domain due to fusion event.BCAS3-ZMYND8 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.
BCAS3-ZMYND8 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.
BCAS3-ZMYND8 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.
BCAS3-ZMYND8 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)

check button Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez
PartnerGeneGO IDGO termPubMed ID
HgeneBCAS3

GO:0043085

positive regulation of catalytic activity

17505058

HgeneBCAS3

GO:0045944

positive regulation of transcription by RNA polymerase II

17505058

HgeneBCAS3

GO:0071391

cellular response to estrogen stimulus

17505058



check button Four levels of functional features of fusion genes
Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/chr17:59161925/chr20:45891172)
- 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.
FGviewer

check buttonRetention 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.

check buttonFusion gene breakpoints across BCAS3 (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure

check buttonFusion gene breakpoints across ZMYND8 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure


Top

Fusion Amino Acid Sequences


check buttonFusion information from ORFfinder translation from full-length transcript sequence from FusionPDB.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandSeq length
(transcript)		BP loci
(transcript)		Predicted start
(transcript)		Predicted stop
(transcript)		Seq length
(amino acids)
ENST00000589222BCAS3chr1759161925+ENST00000311275ZMYND8chr2045891172-618124936846331521
ENST00000589222BCAS3chr1759161925+ENST00000360911ZMYND8chr2045891172-604324936844951475
ENST00000589222BCAS3chr1759161925+ENST00000458360ZMYND8chr2045891172-476724936842521394
ENST00000589222BCAS3chr1759161925+ENST00000262975ZMYND8chr2045891172-492824936845791503
ENST00000589222BCAS3chr1759161925+ENST00000471951ZMYND8chr2045891172-503924936847171549
ENST00000589222BCAS3chr1759161925+ENST00000352431ZMYND8chr2045891172-481624936844951475
ENST00000589222BCAS3chr1759161925+ENST00000396281ZMYND8chr2045891172-493524936846331521
ENST00000589222BCAS3chr1759161925+ENST00000446994ZMYND8chr2045891172-463624936845791503
ENST00000589222BCAS3chr1759161925+ENST00000536340ZMYND8chr2045891172-477424936847171549
ENST00000589222BCAS3chr1759161925+ENST00000355972ZMYND8chr2045891172-477424936847171549
ENST00000407086BCAS3chr1759161925+ENST00000311275ZMYND8chr2045891172-616124734846131521
ENST00000407086BCAS3chr1759161925+ENST00000360911ZMYND8chr2045891172-602324734844751475
ENST00000407086BCAS3chr1759161925+ENST00000458360ZMYND8chr2045891172-474724734842321394
ENST00000407086BCAS3chr1759161925+ENST00000262975ZMYND8chr2045891172-490824734845591503
ENST00000407086BCAS3chr1759161925+ENST00000471951ZMYND8chr2045891172-501924734846971549
ENST00000407086BCAS3chr1759161925+ENST00000352431ZMYND8chr2045891172-479624734844751475
ENST00000407086BCAS3chr1759161925+ENST00000396281ZMYND8chr2045891172-491524734846131521
ENST00000407086BCAS3chr1759161925+ENST00000446994ZMYND8chr2045891172-461624734845591503
ENST00000407086BCAS3chr1759161925+ENST00000536340ZMYND8chr2045891172-475424734846971549
ENST00000407086BCAS3chr1759161925+ENST00000355972ZMYND8chr2045891172-475424734846971549
ENST00000390652BCAS3chr1759161925+ENST00000311275ZMYND8chr2045891172-618925013146411536
ENST00000390652BCAS3chr1759161925+ENST00000360911ZMYND8chr2045891172-605125013145031490
ENST00000390652BCAS3chr1759161925+ENST00000458360ZMYND8chr2045891172-477525013142601409
ENST00000390652BCAS3chr1759161925+ENST00000262975ZMYND8chr2045891172-493625013145871518
ENST00000390652BCAS3chr1759161925+ENST00000471951ZMYND8chr2045891172-504725013147251564
ENST00000390652BCAS3chr1759161925+ENST00000352431ZMYND8chr2045891172-482425013145031490
ENST00000390652BCAS3chr1759161925+ENST00000396281ZMYND8chr2045891172-494325013146411536
ENST00000390652BCAS3chr1759161925+ENST00000446994ZMYND8chr2045891172-464425013145871518
ENST00000390652BCAS3chr1759161925+ENST00000536340ZMYND8chr2045891172-478225013147251564
ENST00000390652BCAS3chr1759161925+ENST00000355972ZMYND8chr2045891172-478225013147251564
ENST00000408905BCAS3chr1759161925+ENST00000311275ZMYND8chr2045891172-61132425045651521
ENST00000408905BCAS3chr1759161925+ENST00000360911ZMYND8chr2045891172-59752425044271475
ENST00000408905BCAS3chr1759161925+ENST00000458360ZMYND8chr2045891172-46992425041841394
ENST00000408905BCAS3chr1759161925+ENST00000262975ZMYND8chr2045891172-48602425045111503
ENST00000408905BCAS3chr1759161925+ENST00000471951ZMYND8chr2045891172-49712425046491549
ENST00000408905BCAS3chr1759161925+ENST00000352431ZMYND8chr2045891172-47482425044271475
ENST00000408905BCAS3chr1759161925+ENST00000396281ZMYND8chr2045891172-48672425045651521
ENST00000408905BCAS3chr1759161925+ENST00000446994ZMYND8chr2045891172-45682425045111503
ENST00000408905BCAS3chr1759161925+ENST00000536340ZMYND8chr2045891172-47062425046491549
ENST00000408905BCAS3chr1759161925+ENST00000355972ZMYND8chr2045891172-47062425046491549
ENST00000588462BCAS3chr1759161925+ENST00000311275ZMYND8chr2045891172-61582470046101536
ENST00000588462BCAS3chr1759161925+ENST00000360911ZMYND8chr2045891172-60202470044721490
ENST00000588462BCAS3chr1759161925+ENST00000458360ZMYND8chr2045891172-47442470042291409
ENST00000588462BCAS3chr1759161925+ENST00000262975ZMYND8chr2045891172-49052470045561518
ENST00000588462BCAS3chr1759161925+ENST00000471951ZMYND8chr2045891172-50162470046941564
ENST00000588462BCAS3chr1759161925+ENST00000352431ZMYND8chr2045891172-47932470044721490
ENST00000588462BCAS3chr1759161925+ENST00000396281ZMYND8chr2045891172-49122470046101536
ENST00000588462BCAS3chr1759161925+ENST00000446994ZMYND8chr2045891172-46132470045561518
ENST00000588462BCAS3chr1759161925+ENST00000536340ZMYND8chr2045891172-47512470046941564
ENST00000588462BCAS3chr1759161925+ENST00000355972ZMYND8chr2045891172-47512470046941564
ENST00000585744BCAS3chr1759161925+ENST00000311275ZMYND8chr2045891172-557418861340261337
ENST00000585744BCAS3chr1759161925+ENST00000360911ZMYND8chr2045891172-543618861338881291
ENST00000585744BCAS3chr1759161925+ENST00000458360ZMYND8chr2045891172-416018861336451210
ENST00000585744BCAS3chr1759161925+ENST00000262975ZMYND8chr2045891172-432118861339721319
ENST00000585744BCAS3chr1759161925+ENST00000471951ZMYND8chr2045891172-443218861341101365
ENST00000585744BCAS3chr1759161925+ENST00000352431ZMYND8chr2045891172-420918861338881291
ENST00000585744BCAS3chr1759161925+ENST00000396281ZMYND8chr2045891172-432818861340261337
ENST00000585744BCAS3chr1759161925+ENST00000446994ZMYND8chr2045891172-402918861339721319
ENST00000585744BCAS3chr1759161925+ENST00000536340ZMYND8chr2045891172-416718861341101365
ENST00000585744BCAS3chr1759161925+ENST00000355972ZMYND8chr2045891172-416718861341101365
ENST00000588874BCAS3chr1759161925+ENST00000311275ZMYND8chr2045891172-5614192618840661292
ENST00000588874BCAS3chr1759161925+ENST00000360911ZMYND8chr2045891172-5476192618839281246
ENST00000588874BCAS3chr1759161925+ENST00000458360ZMYND8chr2045891172-4200192618836851165
ENST00000588874BCAS3chr1759161925+ENST00000262975ZMYND8chr2045891172-4361192618840121274
ENST00000588874BCAS3chr1759161925+ENST00000471951ZMYND8chr2045891172-4472192618841501320
ENST00000588874BCAS3chr1759161925+ENST00000352431ZMYND8chr2045891172-4249192618839281246
ENST00000588874BCAS3chr1759161925+ENST00000396281ZMYND8chr2045891172-4368192618840661292
ENST00000588874BCAS3chr1759161925+ENST00000446994ZMYND8chr2045891172-4069192618840121274
ENST00000588874BCAS3chr1759161925+ENST00000536340ZMYND8chr2045891172-4207192618841501320
ENST00000588874BCAS3chr1759161925+ENST00000355972ZMYND8chr2045891172-4207192618841501320

check buttonDeepORF 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.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandNo-coding scoreCoding score
ENST00000589222ENST00000311275BCAS3chr1759161925+ZMYND8chr2045891172-0.0006487590.9993512
ENST00000589222ENST00000360911BCAS3chr1759161925+ZMYND8chr2045891172-0.0005218220.99947816
ENST00000589222ENST00000458360BCAS3chr1759161925+ZMYND8chr2045891172-0.0006129180.999387
ENST00000589222ENST00000262975BCAS3chr1759161925+ZMYND8chr2045891172-0.0014685550.99853146
ENST00000589222ENST00000471951BCAS3chr1759161925+ZMYND8chr2045891172-0.0013140850.9986859
ENST00000589222ENST00000352431BCAS3chr1759161925+ZMYND8chr2045891172-0.0012249830.99877495
ENST00000589222ENST00000396281BCAS3chr1759161925+ZMYND8chr2045891172-0.0018125160.9981875
ENST00000589222ENST00000446994BCAS3chr1759161925+ZMYND8chr2045891172-0.0021161890.99788374
ENST00000589222ENST00000536340BCAS3chr1759161925+ZMYND8chr2045891172-0.001783480.99821645
ENST00000589222ENST00000355972BCAS3chr1759161925+ZMYND8chr2045891172-0.001783480.99821645
ENST00000407086ENST00000311275BCAS3chr1759161925+ZMYND8chr2045891172-0.0006349980.99936503
ENST00000407086ENST00000360911BCAS3chr1759161925+ZMYND8chr2045891172-0.0005110150.99948895
ENST00000407086ENST00000458360BCAS3chr1759161925+ZMYND8chr2045891172-0.000601390.9993986
ENST00000407086ENST00000262975BCAS3chr1759161925+ZMYND8chr2045891172-0.0014491730.99855083
ENST00000407086ENST00000471951BCAS3chr1759161925+ZMYND8chr2045891172-0.0012996890.99870026
ENST00000407086ENST00000352431BCAS3chr1759161925+ZMYND8chr2045891172-0.0012084410.99879164
ENST00000407086ENST00000396281BCAS3chr1759161925+ZMYND8chr2045891172-0.0017969260.99820304
ENST00000407086ENST00000446994BCAS3chr1759161925+ZMYND8chr2045891172-0.0021031030.9978969
ENST00000407086ENST00000536340BCAS3chr1759161925+ZMYND8chr2045891172-0.0017720610.9982279
ENST00000407086ENST00000355972BCAS3chr1759161925+ZMYND8chr2045891172-0.0017720610.9982279
ENST00000390652ENST00000311275BCAS3chr1759161925+ZMYND8chr2045891172-0.0007582390.9992418
ENST00000390652ENST00000360911BCAS3chr1759161925+ZMYND8chr2045891172-0.0003910260.99960905
ENST00000390652ENST00000458360BCAS3chr1759161925+ZMYND8chr2045891172-0.0005755530.99942446
ENST00000390652ENST00000262975BCAS3chr1759161925+ZMYND8chr2045891172-0.0009737940.9990262
ENST00000390652ENST00000471951BCAS3chr1759161925+ZMYND8chr2045891172-0.0011701820.9988298
ENST00000390652ENST00000352431BCAS3chr1759161925+ZMYND8chr2045891172-0.0009243330.99907565
ENST00000390652ENST00000396281BCAS3chr1759161925+ZMYND8chr2045891172-0.0020280990.99797195
ENST00000390652ENST00000446994BCAS3chr1759161925+ZMYND8chr2045891172-0.0014169430.9985831
ENST00000390652ENST00000536340BCAS3chr1759161925+ZMYND8chr2045891172-0.0015908540.9984092
ENST00000390652ENST00000355972BCAS3chr1759161925+ZMYND8chr2045891172-0.0015908540.9984092
ENST00000408905ENST00000311275BCAS3chr1759161925+ZMYND8chr2045891172-0.0006177840.99938214
ENST00000408905ENST00000360911BCAS3chr1759161925+ZMYND8chr2045891172-0.0004896210.9995104
ENST00000408905ENST00000458360BCAS3chr1759161925+ZMYND8chr2045891172-0.0005949450.999405
ENST00000408905ENST00000262975BCAS3chr1759161925+ZMYND8chr2045891172-0.0014189190.99858105
ENST00000408905ENST00000471951BCAS3chr1759161925+ZMYND8chr2045891172-0.0012754390.9987245
ENST00000408905ENST00000352431BCAS3chr1759161925+ZMYND8chr2045891172-0.0011852480.9988148
ENST00000408905ENST00000396281BCAS3chr1759161925+ZMYND8chr2045891172-0.0017686520.99823135
ENST00000408905ENST00000446994BCAS3chr1759161925+ZMYND8chr2045891172-0.0020810820.9979189
ENST00000408905ENST00000536340BCAS3chr1759161925+ZMYND8chr2045891172-0.0017451590.99825484
ENST00000408905ENST00000355972BCAS3chr1759161925+ZMYND8chr2045891172-0.0017451590.99825484
ENST00000588462ENST00000311275BCAS3chr1759161925+ZMYND8chr2045891172-0.0007499530.99925
ENST00000588462ENST00000360911BCAS3chr1759161925+ZMYND8chr2045891172-0.0003854860.9996145
ENST00000588462ENST00000458360BCAS3chr1759161925+ZMYND8chr2045891172-0.0005767350.99942327
ENST00000588462ENST00000262975BCAS3chr1759161925+ZMYND8chr2045891172-0.0009647320.99903524
ENST00000588462ENST00000471951BCAS3chr1759161925+ZMYND8chr2045891172-0.0011587830.9988412
ENST00000588462ENST00000352431BCAS3chr1759161925+ZMYND8chr2045891172-0.0009182650.99908173
ENST00000588462ENST00000396281BCAS3chr1759161925+ZMYND8chr2045891172-0.002008980.9979911
ENST00000588462ENST00000446994BCAS3chr1759161925+ZMYND8chr2045891172-0.0014037620.99859625
ENST00000588462ENST00000536340BCAS3chr1759161925+ZMYND8chr2045891172-0.0015740990.99842596
ENST00000588462ENST00000355972BCAS3chr1759161925+ZMYND8chr2045891172-0.0015740990.99842596
ENST00000585744ENST00000311275BCAS3chr1759161925+ZMYND8chr2045891172-0.0011613390.9988387
ENST00000585744ENST00000360911BCAS3chr1759161925+ZMYND8chr2045891172-0.000598030.9994019
ENST00000585744ENST00000458360BCAS3chr1759161925+ZMYND8chr2045891172-0.0010908450.9989091
ENST00000585744ENST00000262975BCAS3chr1759161925+ZMYND8chr2045891172-0.0017633790.99823666
ENST00000585744ENST00000471951BCAS3chr1759161925+ZMYND8chr2045891172-0.0022129940.997787
ENST00000585744ENST00000352431BCAS3chr1759161925+ZMYND8chr2045891172-0.0017459310.998254
ENST00000585744ENST00000396281BCAS3chr1759161925+ZMYND8chr2045891172-0.0034525620.9965474
ENST00000585744ENST00000446994BCAS3chr1759161925+ZMYND8chr2045891172-0.0026995320.99730045
ENST00000585744ENST00000536340BCAS3chr1759161925+ZMYND8chr2045891172-0.0030203450.9969797
ENST00000585744ENST00000355972BCAS3chr1759161925+ZMYND8chr2045891172-0.0030203450.9969797
ENST00000588874ENST00000311275BCAS3chr1759161925+ZMYND8chr2045891172-0.0009078210.9990922
ENST00000588874ENST00000360911BCAS3chr1759161925+ZMYND8chr2045891172-0.0007144540.9992855
ENST00000588874ENST00000458360BCAS3chr1759161925+ZMYND8chr2045891172-0.0009866750.9990133
ENST00000588874ENST00000262975BCAS3chr1759161925+ZMYND8chr2045891172-0.0022731120.99772686
ENST00000588874ENST00000471951BCAS3chr1759161925+ZMYND8chr2045891172-0.0021947380.9978053
ENST00000588874ENST00000352431BCAS3chr1759161925+ZMYND8chr2045891172-0.0019921220.99800795
ENST00000588874ENST00000396281BCAS3chr1759161925+ZMYND8chr2045891172-0.0029866640.99701333
ENST00000588874ENST00000446994BCAS3chr1759161925+ZMYND8chr2045891172-0.0033055060.99669445
ENST00000588874ENST00000536340BCAS3chr1759161925+ZMYND8chr2045891172-0.0030319580.9969681
ENST00000588874ENST00000355972BCAS3chr1759161925+ZMYND8chr2045891172-0.0030319580.9969681

check button 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 BCAS3-ZMYND8

check button +/-13 AA sequence from the breakpoints of the fusion protein sequences.
HgeneHchrHbpTgeneTchrTbpLength(fusion protein)BP in fusion proteinPeptide
BCAS3chr1759161925ZMYND8chr20458911721886623SDRRGVSTVIDAASASPASTKTGQAG
BCAS3chr1759161925ZMYND8chr20458911721926578SDRRGVSTVIDAASASPASTKTGQAG
BCAS3chr1759161925ZMYND8chr20458911722425807SDRRGVSTVIDAASASPASTKTGQAG
BCAS3chr1759161925ZMYND8chr20458911722470822SDRRGVSTVIDAASASPASTKTGQAG
BCAS3chr1759161925ZMYND8chr20458911722473807SDRRGVSTVIDAASASPASTKTGQAG
BCAS3chr1759161925ZMYND8chr20458911722493807SDRRGVSTVIDAASASPASTKTGQAG
BCAS3chr1759161925ZMYND8chr20458911722501822SDRRGVSTVIDAASASPASTKTGQAG

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Potential FusionNeoAntigen Information of BCAS3-ZMYND8 in HLA I

check button 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.
BCAS3-ZMYND8_59161925_45891172.msa

check button Potential FusionNeoAntigen Information
* We used NetMHCpan v4.1 (%rank<0.5) and deepHLApan v1.1 (immunogenic score>0.5)
Fusion geneHchrHbpTgeneTchrTbpHLA IFusionNeoAntigen peptideBinding scoreImmunogenic scoreNeoantigen start (at BP 13)Neoantigen end (at BP 13)
BCAS3-ZMYND8chr1759161925chr20458911722501HLA-A30:08ASASPASTK0.99150.75551221
BCAS3-ZMYND8chr1759161925chr20458911722501HLA-A30:08AASASPASTK0.99030.78091121
BCAS3-ZMYND8chr1759161925chr20458911722501HLA-A30:01ASASPASTK0.99080.86131221
BCAS3-ZMYND8chr1759161925chr20458911722501HLA-A30:01AASASPASTK0.98850.87531121

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Potential FusionNeoAntigen Information of BCAS3-ZMYND8 in HLA II

check button 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.
BCAS3-ZMYND8_59161925_45891172.msa

check button Potential FusionNeoAntigen Information
* We used NetMHCIIpan v4.1 (%rank<0.5).
Fusion geneHchrHbpTgeneTchrTbpHLA IIFusionNeoAntigen peptideNeoantigen start (at BP 13)Neoantigen end (at BP 13)
BCAS3-ZMYND8chr1759161925chr20458911722501DRB1-0102STVIDAASASPASTK621
BCAS3-ZMYND8chr1759161925chr20458911722501DRB1-0123STVIDAASASPASTK621
BCAS3-ZMYND8chr1759161925chr20458911722501DRB1-0403RRGVSTVIDAASASP217
BCAS3-ZMYND8chr1759161925chr20458911722501DRB1-0439RRGVSTVIDAASASP217
BCAS3-ZMYND8chr1759161925chr20458911722501DRB1-0440RRGVSTVIDAASASP217
BCAS3-ZMYND8chr1759161925chr20458911722501DRB1-0441RRGVSTVIDAASASP217
BCAS3-ZMYND8chr1759161925chr20458911722501DRB1-0446RRGVSTVIDAASASP217
BCAS3-ZMYND8chr1759161925chr20458911722501DRB1-0449RRGVSTVIDAASASP217
BCAS3-ZMYND8chr1759161925chr20458911722501DRB1-0450RRGVSTVIDAASASP217
BCAS3-ZMYND8chr1759161925chr20458911722501DRB1-0451RRGVSTVIDAASASP217
BCAS3-ZMYND8chr1759161925chr20458911722501DRB1-0452RRGVSTVIDAASASP217
BCAS3-ZMYND8chr1759161925chr20458911722501DRB1-0455RRGVSTVIDAASASP217
BCAS3-ZMYND8chr1759161925chr20458911722501DRB1-0456RRGVSTVIDAASASP217
BCAS3-ZMYND8chr1759161925chr20458911722501DRB1-0458RRGVSTVIDAASASP217
BCAS3-ZMYND8chr1759161925chr20458911722501DRB1-0459RRGVSTVIDAASASP217
BCAS3-ZMYND8chr1759161925chr20458911722501DRB1-0460RRGVSTVIDAASASP217
BCAS3-ZMYND8chr1759161925chr20458911722501DRB1-0468RRGVSTVIDAASASP217
BCAS3-ZMYND8chr1759161925chr20458911722501DRB1-0470RRGVSTVIDAASASP217
BCAS3-ZMYND8chr1759161925chr20458911722501DRB1-0471RRGVSTVIDAASASP217
BCAS3-ZMYND8chr1759161925chr20458911722501DRB1-0485RRGVSTVIDAASASP217
BCAS3-ZMYND8chr1759161925chr20458911722501DRB1-0488RRGVSTVIDAASASP217
BCAS3-ZMYND8chr1759161925chr20458911722501DRB1-0902STVIDAASASPASTK621
BCAS3-ZMYND8chr1759161925chr20458911722501DRB1-0906STVIDAASASPASTK621
BCAS3-ZMYND8chr1759161925chr20458911722501DRB1-1002STVIDAASASPASTK621

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Fusion breakpoint peptide structures of BCAS3-ZMYND8

check button3D 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 nameBPseqHgeneTgeneHchrHbpTchrTbpAAlen
9128STVIDAASASPASTBCAS3ZMYND8chr1759161925chr20458911722501

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Filtering FusionNeoAntigens Through Checking the Interaction with HLAs in 3D of BCAS3-ZMYND8

check buttonVirtual screening between 25 HLAs (from PDB) and FusionNeoAntigens
* We used Glide to predict the interaction between HLAs and neoantigens.
HLA allelePDB IDFile nameBPseqDocking scoreGlide score
HLA-B14:023BVN9128STVIDAASASPAST-7.15543-7.26883
HLA-B14:023BVN9128STVIDAASASPAST-4.77435-5.80965
HLA-B52:013W399128STVIDAASASPAST-6.80875-6.92215
HLA-B52:013W399128STVIDAASASPAST-4.20386-5.23916
HLA-A11:014UQ29128STVIDAASASPAST-7.5194-8.5547
HLA-A11:014UQ29128STVIDAASASPAST-6.9601-7.0735
HLA-A24:025HGA9128STVIDAASASPAST-7.52403-7.63743
HLA-A24:025HGA9128STVIDAASASPAST-5.82433-6.85963
HLA-B27:056PYJ9128STVIDAASASPAST-3.28285-4.31815
HLA-B44:053DX89128STVIDAASASPAST-5.91172-6.94702
HLA-B44:053DX89128STVIDAASASPAST-4.24346-4.35686

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Vaccine Design for the FusionNeoAntigens of BCAS3-ZMYND8

check button mRNA and peptide sequences of FusionNeoAntigens that have potential interaction with HLA-Is.
Fusion geneHchrHbpTchrTbpStart in +/-13AAEnd in +/-13AAFusionNeoAntigen peptide sequenceFusionNeoAntigen RNA sequence
BCAS3-ZMYND8chr1759161925chr20458911721121AASASPASTKCCTCAGCTTCACCAGCCTCCACCAAGACGG
BCAS3-ZMYND8chr1759161925chr20458911721221ASASPASTKCAGCTTCACCAGCCTCCACCAAGACGG

check button mRNA and peptide sequences of FusionNeoAntigens that have potential interaction with HLA-IIs.
Fusion geneHchrHbpTchrTbpStart in +/-13AAEnd in +/-13AAFusionNeoAntigen peptideFusionNEoAntigen RNA sequence
BCAS3-ZMYND8chr1759161925chr2045891172217RRGVSTVIDAASASPGGGGAGTTTCCACAGTGATTGATGCTGCCTCAGCTTCACCAGCCT
BCAS3-ZMYND8chr1759161925chr2045891172621STVIDAASASPASTKCAGTGATTGATGCTGCCTCAGCTTCACCAGCCTCCACCAAGACGG

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Information of the samples that have these potential fusion neoantigens of BCAS3-ZMYND8

check button 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 typeFusion geneHchrHbpHenstTchrTbpTenstSample
BLCABCAS3-ZMYND8chr1759161925ENST00000390652chr2045891172ENST00000262975TCGA-FD-A43P-01A

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Potential target of CAR-T therapy development for BCAS3-ZMYND8

check button Predicted 3D structure. We used RoseTTAFold.

check buttonRetention 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'.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note

check button 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.
HgeneHchrHbpHenstTgeneTchrTbpTenstDeepLoc result

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Related Drugs to BCAS3-ZMYND8

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

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Related Diseases to BCAS3-ZMYND8

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

check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource