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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:ERBB2-IKZF3

Fusion Gene and Fusion Protein Summary

check button Fusion gene summary
Fusion partner gene informationFusion gene name: ERBB2-IKZF3
FusionPDB ID: 27151
FusionGDB2.0 ID: 27151
HgeneTgene
Gene symbol

ERBB2

IKZF3

Gene ID

2064

22806

Gene nameerb-b2 receptor tyrosine kinase 2IKAROS family zinc finger 3
SynonymsCD340|HER-2|HER-2/neu|HER2|MLN 19|NEU|NGL|TKR1AIO|AIOLOS|ZNFN1A3
Cytomap

17q12

17q12-q21.1

Type of geneprotein-codingprotein-coding
Descriptionreceptor tyrosine-protein kinase erbB-2c-erb B2/neu proteinherstatinhuman epidermal growth factor receptor 2metastatic lymph node gene 19 proteinneuro/glioblastoma derived oncogene homologneuroblastoma/glioblastoma derived oncogene homologp185erbB2zinc finger protein Aioloszinc finger DNA binding protein Aioloszinc finger protein, subfamily 1A, 3 (Aiolos)
Modification date2020032920200327
UniProtAcc

P04626

Main function of 5'-partner protein: FUNCTION: Protein tyrosine kinase that is part of several cell surface receptor complexes, but that apparently needs a coreceptor for ligand binding. Essential component of a neuregulin-receptor complex, although neuregulins do not interact with it alone. GP30 is a potential ligand for this receptor. Regulates outgrowth and stabilization of peripheral microtubules (MTs). Upon ERBB2 activation, the MEMO1-RHOA-DIAPH1 signaling pathway elicits the phosphorylation and thus the inhibition of GSK3B at cell membrane. This prevents the phosphorylation of APC and CLASP2, allowing its association with the cell membrane. In turn, membrane-bound APC allows the localization of MACF1 to the cell membrane, which is required for microtubule capture and stabilization. {ECO:0000305}.; FUNCTION: In the nucleus is involved in transcriptional regulation. Associates with the 5'-TCAAATTC-3' sequence in the PTGS2/COX-2 promoter and activates its transcription. Implicated in transcriptional activation of CDKN1A; the function involves STAT3 and SRC. Involved in the transcription of rRNA genes by RNA Pol I and enhances protein synthesis and cell growth. {ECO:0000269|PubMed:10358079, ECO:0000269|PubMed:15380516, ECO:0000269|PubMed:21555369}.

Q9UKT9

Main function of 5'-partner protein: FUNCTION: Transcription factor that plays an important role in the regulation of lymphocyte differentiation. Plays an essential role in regulation of B-cell differentiation, proliferation and maturation to an effector state. Involved in regulating BCL2 expression and controlling apoptosis in T-cells in an IL2-dependent manner. {ECO:0000269|PubMed:10369681}.
Ensembl transtripts involved in fusion geneENST idsENST00000584888, ENST00000269571, 
ENST00000406381, ENST00000445658, 
ENST00000540042, ENST00000540147, 
ENST00000541774, ENST00000578199, 
ENST00000584450, ENST00000584601, 
ENST00000346872, ENST00000346243, 
ENST00000350532, ENST00000351680, 
ENST00000377944, ENST00000377945, 
ENST00000377952, ENST00000377958, 
ENST00000394189, ENST00000439016, 
ENST00000439167, ENST00000467757, 
ENST00000535189, ENST00000583368, 
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)* DoF score50 X 44 X 14=3080034 X 12 X 14=5712
# samples 7349
** MAII scorelog2(73/30800*10)=-5.39889007670225
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(49/5712*10)=-3.54314232502653
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Fusion gene context

PubMed: ERBB2 [Title/Abstract] AND IKZF3 [Title/Abstract] AND fusion [Title/Abstract]

Driver Fusions and Their Implications in the Development and Treatment of Human Cancers (pmid: 29617662)
Fusion neoantigen context

PubMed: ERBB2 [Title/Abstract] AND IKZF3 [Title/Abstract] AND neoantigen [Title/Abstract]

Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)ERBB2(37872858)-IKZF3(37985741), # samples:3
Anticipated loss of major functional domain due to fusion event.ERBB2-IKZF3 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.
ERBB2-IKZF3 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.
ERBB2-IKZF3 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.
ERBB2-IKZF3 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.
ERBB2-IKZF3 seems lost the major protein functional domain in Hgene partner, which is a CGC due to the frame-shifted ORF.
ERBB2-IKZF3 seems lost the major protein functional domain in Hgene partner, which is a IUPHAR drug target due to the frame-shifted ORF.
ERBB2-IKZF3 seems lost the major protein functional domain in Hgene partner, which is a kinase due to the frame-shifted ORF.
ERBB2-IKZF3 seems lost the major protein functional domain in Tgene partner, which is a epigenetic factor due to the frame-shifted ORF.
ERBB2-IKZF3 seems lost the major protein functional domain in Tgene partner, which is a essential gene due to the frame-shifted ORF.
ERBB2-IKZF3 seems lost the major protein functional domain in Tgene partner, which is a transcription factor due to the frame-shifted ORF.
ERBB2-IKZF3 seems lost the major protein functional domain in Tgene partner, which is a tumor suppressor 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)

check button Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez
PartnerGeneGO IDGO termPubMed ID
HgeneERBB2

GO:0007165

signal transduction

10572067

HgeneERBB2

GO:0007166

cell surface receptor signaling pathway

9685399

HgeneERBB2

GO:0007169

transmembrane receptor protein tyrosine kinase signaling pathway

7514177

HgeneERBB2

GO:0014065

phosphatidylinositol 3-kinase signaling

7556068

HgeneERBB2

GO:0018108

peptidyl-tyrosine phosphorylation

12000754

HgeneERBB2

GO:0032886

regulation of microtubule-based process

20937854

HgeneERBB2

GO:0035556

intracellular signal transduction

19372587

HgeneERBB2

GO:0042060

wound healing

12646923

HgeneERBB2

GO:0043406

positive regulation of MAP kinase activity

10572067

HgeneERBB2

GO:0045785

positive regulation of cell adhesion

7556068

HgeneERBB2

GO:0046777

protein autophosphorylation

7556068

HgeneERBB2

GO:0050679

positive regulation of epithelial cell proliferation

10572067

HgeneERBB2

GO:0071363

cellular response to growth factor stimulus

20010870

HgeneERBB2

GO:0090314

positive regulation of protein targeting to membrane

20010870



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/chr17:37872858/chr17:37985741)
- 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 ERBB2 (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 IKZF3 (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)
ENST00000584601ERBB2chr1737866134+ENST00000346872IKZF3chr1737988404-371813507522872706
ENST00000584601ERBB2chr1737866134+ENST00000394189IKZF3chr1737988404-283313507522326524
ENST00000584601ERBB2chr1737866134+ENST00000439167IKZF3chr1737988404-316013507522653633
ENST00000584601ERBB2chr1737866134+ENST00000535189IKZF3chr1737988404-327713507522770672
ENST00000584601ERBB2chr1737866134+ENST00000377944IKZF3chr1737988404-295013507522443563
ENST00000584601ERBB2chr1737866134+ENST00000377945IKZF3chr1737988404-297713507522470572
ENST00000584601ERBB2chr1737866134+ENST00000377952IKZF3chr1737988404-271613507522209485
ENST00000584601ERBB2chr1737866134+ENST00000377958IKZF3chr1737988404-311813507522611619
ENST00000584601ERBB2chr1737866134+ENST00000346243IKZF3chr1737988404-263913507522638629
ENST00000584601ERBB2chr1737866134+ENST00000350532IKZF3chr1737988404-275613507522755668
ENST00000584601ERBB2chr1737866134+ENST00000351680IKZF3chr1737988404-275613507522755668
ENST00000584601ERBB2chr1737866134+ENST00000467757IKZF3chr1737988404-270513507522704651
ENST00000584601ERBB2chr1737866134+ENST00000439016IKZF3chr1737988404-258813507522587612
ENST00000406381ERBB2chr1737866134+ENST00000346872IKZF3chr1737988404-343110635102585691
ENST00000406381ERBB2chr1737866134+ENST00000394189IKZF3chr1737988404-254610635102039509
ENST00000406381ERBB2chr1737866134+ENST00000439167IKZF3chr1737988404-287310635102366618
ENST00000406381ERBB2chr1737866134+ENST00000535189IKZF3chr1737988404-299010635102483657
ENST00000406381ERBB2chr1737866134+ENST00000377944IKZF3chr1737988404-266310635102156548
ENST00000406381ERBB2chr1737866134+ENST00000377945IKZF3chr1737988404-269010635102183557
ENST00000406381ERBB2chr1737866134+ENST00000377952IKZF3chr1737988404-242910635101922470
ENST00000406381ERBB2chr1737866134+ENST00000377958IKZF3chr1737988404-283110635102324604
ENST00000406381ERBB2chr1737866134+ENST00000346243IKZF3chr1737988404-235210635102351613
ENST00000406381ERBB2chr1737866134+ENST00000350532IKZF3chr1737988404-246910635102468652
ENST00000406381ERBB2chr1737866134+ENST00000351680IKZF3chr1737988404-246910635102468652
ENST00000406381ERBB2chr1737866134+ENST00000467757IKZF3chr1737988404-241810635102417635
ENST00000406381ERBB2chr1737866134+ENST00000439016IKZF3chr1737988404-230110635102300596
ENST00000541774ERBB2chr1737866134+ENST00000346872IKZF3chr1737988404-296659802120706
ENST00000541774ERBB2chr1737866134+ENST00000394189IKZF3chr1737988404-208159801574524
ENST00000541774ERBB2chr1737866134+ENST00000439167IKZF3chr1737988404-240859801901633
ENST00000541774ERBB2chr1737866134+ENST00000535189IKZF3chr1737988404-252559802018672
ENST00000541774ERBB2chr1737866134+ENST00000377944IKZF3chr1737988404-219859801691563
ENST00000541774ERBB2chr1737866134+ENST00000377945IKZF3chr1737988404-222559801718572
ENST00000541774ERBB2chr1737866134+ENST00000377952IKZF3chr1737988404-196459801457485
ENST00000541774ERBB2chr1737866134+ENST00000377958IKZF3chr1737988404-236659801859619
ENST00000541774ERBB2chr1737866134+ENST00000346243IKZF3chr1737988404-188759801886628
ENST00000541774ERBB2chr1737866134+ENST00000350532IKZF3chr1737988404-200459802003667
ENST00000541774ERBB2chr1737866134+ENST00000351680IKZF3chr1737988404-200459802003667
ENST00000541774ERBB2chr1737866134+ENST00000467757IKZF3chr1737988404-195359801952650
ENST00000541774ERBB2chr1737866134+ENST00000439016IKZF3chr1737988404-183659801835611
ENST00000540147ERBB2chr1737866134+ENST00000346872IKZF3chr1737988404-3249881252403792
ENST00000540147ERBB2chr1737866134+ENST00000394189IKZF3chr1737988404-2364881251857610
ENST00000540147ERBB2chr1737866134+ENST00000439167IKZF3chr1737988404-2691881252184719
ENST00000540147ERBB2chr1737866134+ENST00000535189IKZF3chr1737988404-2808881252301758
ENST00000540147ERBB2chr1737866134+ENST00000377944IKZF3chr1737988404-2481881251974649
ENST00000540147ERBB2chr1737866134+ENST00000377945IKZF3chr1737988404-2508881252001658
ENST00000540147ERBB2chr1737866134+ENST00000377952IKZF3chr1737988404-2247881251740571
ENST00000540147ERBB2chr1737866134+ENST00000377958IKZF3chr1737988404-2649881252142705
ENST00000540147ERBB2chr1737866134+ENST00000346243IKZF3chr1737988404-2170881252169715
ENST00000540147ERBB2chr1737866134+ENST00000350532IKZF3chr1737988404-2287881252286754
ENST00000540147ERBB2chr1737866134+ENST00000351680IKZF3chr1737988404-2287881252286754
ENST00000540147ERBB2chr1737866134+ENST00000467757IKZF3chr1737988404-2236881252235737
ENST00000540147ERBB2chr1737866134+ENST00000439016IKZF3chr1737988404-2119881252118698
ENST00000584450ERBB2chr1737866134+ENST00000346872IKZF3chr1737988404-322685822380792
ENST00000584450ERBB2chr1737866134+ENST00000394189IKZF3chr1737988404-234185821834610
ENST00000584450ERBB2chr1737866134+ENST00000439167IKZF3chr1737988404-266885822161719
ENST00000584450ERBB2chr1737866134+ENST00000535189IKZF3chr1737988404-278585822278758
ENST00000584450ERBB2chr1737866134+ENST00000377944IKZF3chr1737988404-245885821951649
ENST00000584450ERBB2chr1737866134+ENST00000377945IKZF3chr1737988404-248585821978658
ENST00000584450ERBB2chr1737866134+ENST00000377952IKZF3chr1737988404-222485821717571
ENST00000584450ERBB2chr1737866134+ENST00000377958IKZF3chr1737988404-262685822119705
ENST00000584450ERBB2chr1737866134+ENST00000346243IKZF3chr1737988404-214785822146715
ENST00000584450ERBB2chr1737866134+ENST00000350532IKZF3chr1737988404-226485822263754
ENST00000584450ERBB2chr1737866134+ENST00000351680IKZF3chr1737988404-226485822263754
ENST00000584450ERBB2chr1737866134+ENST00000467757IKZF3chr1737988404-221385822212737
ENST00000584450ERBB2chr1737866134+ENST00000439016IKZF3chr1737988404-209685822095698
ENST00000269571ERBB2chr1737866134+ENST00000346872IKZF3chr1737988404-3170802572324755
ENST00000269571ERBB2chr1737866134+ENST00000394189IKZF3chr1737988404-2285802571778573
ENST00000269571ERBB2chr1737866134+ENST00000439167IKZF3chr1737988404-2612802572105682
ENST00000269571ERBB2chr1737866134+ENST00000535189IKZF3chr1737988404-2729802572222721
ENST00000269571ERBB2chr1737866134+ENST00000377944IKZF3chr1737988404-2402802571895612
ENST00000269571ERBB2chr1737866134+ENST00000377945IKZF3chr1737988404-2429802571922621
ENST00000269571ERBB2chr1737866134+ENST00000377952IKZF3chr1737988404-2168802571661534
ENST00000269571ERBB2chr1737866134+ENST00000377958IKZF3chr1737988404-2570802572063668
ENST00000269571ERBB2chr1737866134+ENST00000346243IKZF3chr1737988404-2091802572090677
ENST00000269571ERBB2chr1737866134+ENST00000350532IKZF3chr1737988404-2208802572207716
ENST00000269571ERBB2chr1737866134+ENST00000351680IKZF3chr1737988404-2208802572207716
ENST00000269571ERBB2chr1737866134+ENST00000467757IKZF3chr1737988404-2157802572156699
ENST00000269571ERBB2chr1737866134+ENST00000439016IKZF3chr1737988404-2040802572039660
ENST00000578199ERBB2chr1737866134+ENST00000346872IKZF3chr1737988404-346210945412616691
ENST00000578199ERBB2chr1737866134+ENST00000394189IKZF3chr1737988404-257710945412070509
ENST00000578199ERBB2chr1737866134+ENST00000439167IKZF3chr1737988404-290410945412397618
ENST00000578199ERBB2chr1737866134+ENST00000535189IKZF3chr1737988404-302110945412514657
ENST00000578199ERBB2chr1737866134+ENST00000377944IKZF3chr1737988404-269410945412187548
ENST00000578199ERBB2chr1737866134+ENST00000377945IKZF3chr1737988404-272110945412214557
ENST00000578199ERBB2chr1737866134+ENST00000377952IKZF3chr1737988404-246010945411953470
ENST00000578199ERBB2chr1737866134+ENST00000377958IKZF3chr1737988404-286210945412355604
ENST00000578199ERBB2chr1737866134+ENST00000346243IKZF3chr1737988404-238310945412382614
ENST00000578199ERBB2chr1737866134+ENST00000350532IKZF3chr1737988404-250010945412499653
ENST00000578199ERBB2chr1737866134+ENST00000351680IKZF3chr1737988404-250010945412499653
ENST00000578199ERBB2chr1737866134+ENST00000467757IKZF3chr1737988404-244910945412448636
ENST00000578199ERBB2chr1737866134+ENST00000439016IKZF3chr1737988404-233210945412331597
ENST00000540042ERBB2chr1737866134+ENST00000346872IKZF3chr1737988404-30877191662241691
ENST00000540042ERBB2chr1737866134+ENST00000394189IKZF3chr1737988404-22027191661695509
ENST00000540042ERBB2chr1737866134+ENST00000439167IKZF3chr1737988404-25297191662022618
ENST00000540042ERBB2chr1737866134+ENST00000535189IKZF3chr1737988404-26467191662139657
ENST00000540042ERBB2chr1737866134+ENST00000377944IKZF3chr1737988404-23197191661812548
ENST00000540042ERBB2chr1737866134+ENST00000377945IKZF3chr1737988404-23467191661839557
ENST00000540042ERBB2chr1737866134+ENST00000377952IKZF3chr1737988404-20857191661578470
ENST00000540042ERBB2chr1737866134+ENST00000377958IKZF3chr1737988404-24877191661980604
ENST00000540042ERBB2chr1737866134+ENST00000346243IKZF3chr1737988404-20087191662007614
ENST00000540042ERBB2chr1737866134+ENST00000350532IKZF3chr1737988404-21257191662124653
ENST00000540042ERBB2chr1737866134+ENST00000351680IKZF3chr1737988404-21257191662124653
ENST00000540042ERBB2chr1737866134+ENST00000467757IKZF3chr1737988404-20747191662073636
ENST00000540042ERBB2chr1737866134+ENST00000439016IKZF3chr1737988404-19577191661956597

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
ENST00000584601ENST00000346872ERBB2chr1737866134+IKZF3chr1737988404-0.0028058420.9971942
ENST00000584601ENST00000394189ERBB2chr1737866134+IKZF3chr1737988404-0.007632640.9923673
ENST00000584601ENST00000439167ERBB2chr1737866134+IKZF3chr1737988404-0.0033552480.99664474
ENST00000584601ENST00000535189ERBB2chr1737866134+IKZF3chr1737988404-0.0035897290.9964103
ENST00000584601ENST00000377944ERBB2chr1737866134+IKZF3chr1737988404-0.0068894290.99311054
ENST00000584601ENST00000377945ERBB2chr1737866134+IKZF3chr1737988404-0.0048930760.99510694
ENST00000584601ENST00000377952ERBB2chr1737866134+IKZF3chr1737988404-0.0060283750.99397165
ENST00000584601ENST00000377958ERBB2chr1737866134+IKZF3chr1737988404-0.0067084810.9932915
ENST00000584601ENST00000346243ERBB2chr1737866134+IKZF3chr1737988404-0.0053988770.99460113
ENST00000584601ENST00000350532ERBB2chr1737866134+IKZF3chr1737988404-0.0047478110.99525213
ENST00000584601ENST00000351680ERBB2chr1737866134+IKZF3chr1737988404-0.0060249190.9939751
ENST00000584601ENST00000467757ERBB2chr1737866134+IKZF3chr1737988404-0.0079999660.992
ENST00000584601ENST00000439016ERBB2chr1737866134+IKZF3chr1737988404-0.0079224180.9920775
ENST00000406381ENST00000346872ERBB2chr1737866134+IKZF3chr1737988404-0.0015072140.9984927
ENST00000406381ENST00000394189ERBB2chr1737866134+IKZF3chr1737988404-0.0014859520.998514
ENST00000406381ENST00000439167ERBB2chr1737866134+IKZF3chr1737988404-0.0027804490.99721956
ENST00000406381ENST00000535189ERBB2chr1737866134+IKZF3chr1737988404-0.0020903770.9979096
ENST00000406381ENST00000377944ERBB2chr1737866134+IKZF3chr1737988404-0.0026381310.99736184
ENST00000406381ENST00000377945ERBB2chr1737866134+IKZF3chr1737988404-0.0017325910.9982674
ENST00000406381ENST00000377952ERBB2chr1737866134+IKZF3chr1737988404-0.0017038590.9982962
ENST00000406381ENST00000377958ERBB2chr1737866134+IKZF3chr1737988404-0.0024466830.9975533
ENST00000406381ENST00000346243ERBB2chr1737866134+IKZF3chr1737988404-0.0024603070.99753976
ENST00000406381ENST00000350532ERBB2chr1737866134+IKZF3chr1737988404-0.0023796490.9976203
ENST00000406381ENST00000351680ERBB2chr1737866134+IKZF3chr1737988404-0.0029562820.99704367
ENST00000406381ENST00000467757ERBB2chr1737866134+IKZF3chr1737988404-0.0033079610.99669206
ENST00000406381ENST00000439016ERBB2chr1737866134+IKZF3chr1737988404-0.0032345880.9967654
ENST00000541774ENST00000346872ERBB2chr1737866134+IKZF3chr1737988404-0.0028945720.9971054
ENST00000541774ENST00000394189ERBB2chr1737866134+IKZF3chr1737988404-0.0091886870.99081135
ENST00000541774ENST00000439167ERBB2chr1737866134+IKZF3chr1737988404-0.0037352390.99626476
ENST00000541774ENST00000535189ERBB2chr1737866134+IKZF3chr1737988404-0.0038515380.99614847
ENST00000541774ENST00000377944ERBB2chr1737866134+IKZF3chr1737988404-0.0078772610.9921227
ENST00000541774ENST00000377945ERBB2chr1737866134+IKZF3chr1737988404-0.0052272520.99477273
ENST00000541774ENST00000377952ERBB2chr1737866134+IKZF3chr1737988404-0.0068476970.99315226
ENST00000541774ENST00000377958ERBB2chr1737866134+IKZF3chr1737988404-0.0075555130.99244446
ENST00000541774ENST00000346243ERBB2chr1737866134+IKZF3chr1737988404-0.006771220.9932288
ENST00000541774ENST00000350532ERBB2chr1737866134+IKZF3chr1737988404-0.0056985260.99430144
ENST00000541774ENST00000351680ERBB2chr1737866134+IKZF3chr1737988404-0.007837320.99216264
ENST00000541774ENST00000467757ERBB2chr1737866134+IKZF3chr1737988404-0.0104866280.98951346
ENST00000541774ENST00000439016ERBB2chr1737866134+IKZF3chr1737988404-0.0110726830.98892736
ENST00000540147ENST00000346872ERBB2chr1737866134+IKZF3chr1737988404-0.0040270770.99597293
ENST00000540147ENST00000394189ERBB2chr1737866134+IKZF3chr1737988404-0.0087516940.99124825
ENST00000540147ENST00000439167ERBB2chr1737866134+IKZF3chr1737988404-0.006341940.993658
ENST00000540147ENST00000535189ERBB2chr1737866134+IKZF3chr1737988404-0.0063315370.9936685
ENST00000540147ENST00000377944ERBB2chr1737866134+IKZF3chr1737988404-0.0089592480.99104077
ENST00000540147ENST00000377945ERBB2chr1737866134+IKZF3chr1737988404-0.0056507830.9943492
ENST00000540147ENST00000377952ERBB2chr1737866134+IKZF3chr1737988404-0.0058230830.99417686
ENST00000540147ENST00000377958ERBB2chr1737866134+IKZF3chr1737988404-0.0072683090.99273175
ENST00000540147ENST00000346243ERBB2chr1737866134+IKZF3chr1737988404-0.011058250.9889417
ENST00000540147ENST00000350532ERBB2chr1737866134+IKZF3chr1737988404-0.0076123180.99238765
ENST00000540147ENST00000351680ERBB2chr1737866134+IKZF3chr1737988404-0.0102294710.98977053
ENST00000540147ENST00000467757ERBB2chr1737866134+IKZF3chr1737988404-0.0112375440.98876244
ENST00000540147ENST00000439016ERBB2chr1737866134+IKZF3chr1737988404-0.0133641440.98663586
ENST00000584450ENST00000346872ERBB2chr1737866134+IKZF3chr1737988404-0.0041461260.9958539
ENST00000584450ENST00000394189ERBB2chr1737866134+IKZF3chr1737988404-0.0091779490.9908221
ENST00000584450ENST00000439167ERBB2chr1737866134+IKZF3chr1737988404-0.0065959490.9934041
ENST00000584450ENST00000535189ERBB2chr1737866134+IKZF3chr1737988404-0.0065975020.99340254
ENST00000584450ENST00000377944ERBB2chr1737866134+IKZF3chr1737988404-0.0093608630.9906391
ENST00000584450ENST00000377945ERBB2chr1737866134+IKZF3chr1737988404-0.0059201210.9940799
ENST00000584450ENST00000377952ERBB2chr1737866134+IKZF3chr1737988404-0.0061485730.9938514
ENST00000584450ENST00000377958ERBB2chr1737866134+IKZF3chr1737988404-0.0075549090.99244505
ENST00000584450ENST00000346243ERBB2chr1737866134+IKZF3chr1737988404-0.0117213010.9882786
ENST00000584450ENST00000350532ERBB2chr1737866134+IKZF3chr1737988404-0.0080631170.9919369
ENST00000584450ENST00000351680ERBB2chr1737866134+IKZF3chr1737988404-0.0108907230.9891093
ENST00000584450ENST00000467757ERBB2chr1737866134+IKZF3chr1737988404-0.0119010510.9880989
ENST00000584450ENST00000439016ERBB2chr1737866134+IKZF3chr1737988404-0.0141431630.9858569
ENST00000269571ENST00000346872ERBB2chr1737866134+IKZF3chr1737988404-0.0041837730.9958163
ENST00000269571ENST00000394189ERBB2chr1737866134+IKZF3chr1737988404-0.0093650440.990635
ENST00000269571ENST00000439167ERBB2chr1737866134+IKZF3chr1737988404-0.0067008890.9932991
ENST00000269571ENST00000535189ERBB2chr1737866134+IKZF3chr1737988404-0.006659490.99334055
ENST00000269571ENST00000377944ERBB2chr1737866134+IKZF3chr1737988404-0.0095451850.99045485
ENST00000269571ENST00000377945ERBB2chr1737866134+IKZF3chr1737988404-0.0059464060.99405366
ENST00000269571ENST00000377952ERBB2chr1737866134+IKZF3chr1737988404-0.0061830990.9938169
ENST00000269571ENST00000377958ERBB2chr1737866134+IKZF3chr1737988404-0.0077405030.99225944
ENST00000269571ENST00000346243ERBB2chr1737866134+IKZF3chr1737988404-0.011977430.98802257
ENST00000269571ENST00000350532ERBB2chr1737866134+IKZF3chr1737988404-0.0081615080.9918385
ENST00000269571ENST00000351680ERBB2chr1737866134+IKZF3chr1737988404-0.0111412610.9888587
ENST00000269571ENST00000467757ERBB2chr1737866134+IKZF3chr1737988404-0.0120573350.98794264
ENST00000269571ENST00000439016ERBB2chr1737866134+IKZF3chr1737988404-0.0145554290.9854446
ENST00000578199ENST00000346872ERBB2chr1737866134+IKZF3chr1737988404-0.0013388930.99866104
ENST00000578199ENST00000394189ERBB2chr1737866134+IKZF3chr1737988404-0.0012015860.9987984
ENST00000578199ENST00000439167ERBB2chr1737866134+IKZF3chr1737988404-0.0023592930.9976407
ENST00000578199ENST00000535189ERBB2chr1737866134+IKZF3chr1737988404-0.00179070.99820936
ENST00000578199ENST00000377944ERBB2chr1737866134+IKZF3chr1737988404-0.0021907150.99780935
ENST00000578199ENST00000377945ERBB2chr1737866134+IKZF3chr1737988404-0.0014385480.99856144
ENST00000578199ENST00000377952ERBB2chr1737866134+IKZF3chr1737988404-0.0013839190.9986161
ENST00000578199ENST00000377958ERBB2chr1737866134+IKZF3chr1737988404-0.0020192840.9979808
ENST00000578199ENST00000346243ERBB2chr1737866134+IKZF3chr1737988404-0.0020077160.9979923
ENST00000578199ENST00000350532ERBB2chr1737866134+IKZF3chr1737988404-0.0020047040.9979954
ENST00000578199ENST00000351680ERBB2chr1737866134+IKZF3chr1737988404-0.0024533120.99754673
ENST00000578199ENST00000467757ERBB2chr1737866134+IKZF3chr1737988404-0.0028029270.99719703
ENST00000578199ENST00000439016ERBB2chr1737866134+IKZF3chr1737988404-0.0026393390.99736065
ENST00000540042ENST00000346872ERBB2chr1737866134+IKZF3chr1737988404-0.0014592430.99854076
ENST00000540042ENST00000394189ERBB2chr1737866134+IKZF3chr1737988404-0.0016429670.998357
ENST00000540042ENST00000439167ERBB2chr1737866134+IKZF3chr1737988404-0.0027895040.99721044
ENST00000540042ENST00000535189ERBB2chr1737866134+IKZF3chr1737988404-0.0020347050.99796534
ENST00000540042ENST00000377944ERBB2chr1737866134+IKZF3chr1737988404-0.002747530.9972525
ENST00000540042ENST00000377945ERBB2chr1737866134+IKZF3chr1737988404-0.0017447850.9982552
ENST00000540042ENST00000377952ERBB2chr1737866134+IKZF3chr1737988404-0.0018302430.9981698
ENST00000540042ENST00000377958ERBB2chr1737866134+IKZF3chr1737988404-0.0024515970.9975484
ENST00000540042ENST00000346243ERBB2chr1737866134+IKZF3chr1737988404-0.0026036770.99739635
ENST00000540042ENST00000350532ERBB2chr1737866134+IKZF3chr1737988404-0.0024975880.9975024
ENST00000540042ENST00000351680ERBB2chr1737866134+IKZF3chr1737988404-0.0032967460.9967032
ENST00000540042ENST00000467757ERBB2chr1737866134+IKZF3chr1737988404-0.0038127020.99618727
ENST00000540042ENST00000439016ERBB2chr1737866134+IKZF3chr1737988404-0.0038528560.99614716

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 ERBB2-IKZF3

check button +/-13 AA sequence from the breakpoints of the fusion protein sequences.
HgeneHchrHbpTgeneTchrTbpLength(fusion protein)BP in fusion proteinPeptide
ERBB2chr1737866134IKZF3chr17379884041063183GSRCWGESSEDCQSHIQTNAELKSTQ
ERBB2chr1737866134IKZF3chr17379884041094183GSRCWGESSEDCQSHIQTNAELKSTQ
ERBB2chr1737866134IKZF3chr17379884041350198GSRCWGESSEDCQSHIQTNAELKSTQ
ERBB2chr1737866134IKZF3chr1737988404598198GSRCWGESSEDCQSHIQTNAELKSTQ
ERBB2chr1737866134IKZF3chr1737988404719183GSRCWGESSEDCQSHIQTNAELKSTQ
ERBB2chr1737866134IKZF3chr1737988404802247GSRCWGESSEDCQSHIQTNAELKSTQ
ERBB2chr1737866134IKZF3chr1737988404858284GSRCWGESSEDCQSHIQTNAELKSTQ
ERBB2chr1737866134IKZF3chr1737988404881284GSRCWGESSEDCQSHIQTNAELKSTQ

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Potential FusionNeoAntigen Information of ERBB2-IKZF3 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.
ERBB2-IKZF3_37866134_37988404.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)
ERBB2-IKZF3chr1737866134chr1737988404802HLA-B39:24QSHIQTNAEL0.81910.53111222
ERBB2-IKZF3chr1737866134chr1737988404802HLA-B39:01QSHIQTNAEL0.72550.84541222
ERBB2-IKZF3chr1737866134chr1737988404802HLA-B38:01QSHIQTNAEL0.5610.92611222
ERBB2-IKZF3chr1737866134chr1737988404802HLA-B38:02QSHIQTNAEL0.49490.92741222
ERBB2-IKZF3chr1737866134chr1737988404802HLA-B39:09QSHIQTNAEL0.79650.68981222
ERBB2-IKZF3chr1737866134chr1737988404802HLA-B39:05QSHIQTNAEL0.59340.83221222
ERBB2-IKZF3chr1737866134chr1737988404802HLA-B39:11QSHIQTNAEL0.8070.77961222
ERBB2-IKZF3chr1737866134chr1737988404802HLA-B39:31QSHIQTNAEL0.73070.84611222
ERBB2-IKZF3chr1737866134chr1737988404802HLA-B15:09QSHIQTNAEL0.56130.7621222
ERBB2-IKZF3chr1737866134chr1737988404802HLA-B38:05QSHIQTNAEL0.5610.92611222

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Potential FusionNeoAntigen Information of ERBB2-IKZF3 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.
ERBB2-IKZF3_37866134_37988404.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)
ERBB2-IKZF3chr1737866134chr1737988404802DRB3-0201CQSHIQTNAELKSTQ1126
ERBB2-IKZF3chr1737866134chr1737988404802DRB3-0204CQSHIQTNAELKSTQ1126
ERBB2-IKZF3chr1737866134chr1737988404802DRB3-0224CQSHIQTNAELKSTQ1126

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Fusion breakpoint peptide structures of ERBB2-IKZF3

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
2145ESSEDCQSHIQTNAERBB2IKZF3chr1737866134chr1737988404802

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Filtering FusionNeoAntigens Through Checking the Interaction with HLAs in 3D of ERBB2-IKZF3

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-B14:023BVN2145ESSEDCQSHIQTNA-7.15543-7.26883
HLA-B14:023BVN2145ESSEDCQSHIQTNA-4.77435-5.80965
HLA-B52:013W392145ESSEDCQSHIQTNA-6.80875-6.92215
HLA-B52:013W392145ESSEDCQSHIQTNA-4.20386-5.23916
HLA-A11:014UQ22145ESSEDCQSHIQTNA-7.5194-8.5547
HLA-A11:014UQ22145ESSEDCQSHIQTNA-6.9601-7.0735
HLA-A24:025HGA2145ESSEDCQSHIQTNA-7.52403-7.63743
HLA-A24:025HGA2145ESSEDCQSHIQTNA-5.82433-6.85963
HLA-B27:056PYJ2145ESSEDCQSHIQTNA-3.28285-4.31815
HLA-B44:053DX82145ESSEDCQSHIQTNA-5.91172-6.94702
HLA-B44:053DX82145ESSEDCQSHIQTNA-4.24346-4.35686

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Vaccine Design for the FusionNeoAntigens of ERBB2-IKZF3

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
ERBB2-IKZF3chr1737866134chr17379884041222QSHIQTNAELGCCATATACAAACAAATGCGGAACTGAAAA

check button mRNA and peptide sequences of FusionNeoAntigens that have potential interaction with HLA-IIs.
Fusion geneHchrHbpTchrTbpStart in +/-13AAEnd in +/-13AAFusionNeoAntigen peptideFusionNEoAntigen RNA sequence
ERBB2-IKZF3chr1737866134chr17379884041126CQSHIQTNAELKSTQAGAGCCATATACAAACAAATGCGGAACTGAAAAGCACTCAGGAGC

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Information of the samples that have these potential fusion neoantigens of ERBB2-IKZF3

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
READERBB2-IKZF3chr1737866134ENST00000269571chr1737988404ENST00000346243TCGA-EI-6509

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Potential target of CAR-T therapy development for ERBB2-IKZF3

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 ERBB2-IKZF3

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 ERBB2-IKZF3

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