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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:ITGB5-PDLIM5

Fusion Gene and Fusion Protein Summary

check button Fusion gene summary
Fusion partner gene informationFusion gene name: ITGB5-PDLIM5
FusionPDB ID: 40562
FusionGDB2.0 ID: 40562
HgeneTgene
Gene symbol

ITGB5

PDLIM5

Gene ID

3693

10611

Gene nameintegrin subunit beta 5PDZ and LIM domain 5
Synonyms-ENH|ENH1|L9|LIM
Cytomap

3q21.2

4q22.3

Type of geneprotein-codingprotein-coding
Descriptionintegrin beta-5testis secretory sperm-binding protein Li 217pPDZ and LIM domain protein 5enigma homologenigma-like LIM domain proteinenigma-like PDZ and LIM domains protein
Modification date2020031320200313
UniProtAcc

P18084

Main function of 5'-partner protein: FUNCTION: Integrin alpha-V/beta-5 (ITGAV:ITGB5) is a receptor for fibronectin. It recognizes the sequence R-G-D in its ligand.; FUNCTION: (Microbial infection) Integrin ITGAV:ITGB5 acts as a receptor for adenovirus type C. {ECO:0000269|PubMed:20615244}.
.
Ensembl transtripts involved in fusion geneENST idsENST00000296181, ENST00000461306, 
ENST00000380176, ENST00000359265, 
ENST00000504489, ENST00000512274, 
ENST00000317968, ENST00000318007, 
ENST00000380180, ENST00000437932, 
ENST00000450793, ENST00000508216, 
ENST00000514743, ENST00000538141, 
ENST00000542407, 
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)* DoF score12 X 15 X 8=144015 X 18 X 7=1890
# samples 1621
** MAII scorelog2(16/1440*10)=-3.16992500144231
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(21/1890*10)=-3.16992500144231
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Fusion gene context

PubMed: ITGB5 [Title/Abstract] AND PDLIM5 [Title/Abstract] AND fusion [Title/Abstract]

Fusion neoantigen context

PubMed: ITGB5 [Title/Abstract] AND PDLIM5 [Title/Abstract] AND neoantigen [Title/Abstract]

Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)ITGB5(124578089)-PDLIM5(95507559), # samples:1
Anticipated loss of major functional domain due to fusion event.ITGB5-PDLIM5 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.
ITGB5-PDLIM5 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.
ITGB5-PDLIM5 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.
ITGB5-PDLIM5 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


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/chr3:124578089/chr4:95507559)
- 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 ITGB5 (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 PDLIM5 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure


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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)
ENST00000296181ITGB5chr3124578089-ENST00000450793PDLIM5chr495507559+7896586162205
ENST00000296181ITGB5chr3124578089-ENST00000538141PDLIM5chr495507559+7896586162205
ENST00000296181ITGB5chr3124578089-ENST00000380180PDLIM5chr495507559+19236586162205
ENST00000296181ITGB5chr3124578089-ENST00000318007PDLIM5chr495507559+19236586162205
ENST00000296181ITGB5chr3124578089-ENST00000437932PDLIM5chr495507559+57256582971565422
ENST00000296181ITGB5chr3124578089-ENST00000317968PDLIM5chr495507559+57226582971565422
ENST00000296181ITGB5chr3124578089-ENST00000542407PDLIM5chr495507559+16856582971565422
ENST00000296181ITGB5chr3124578089-ENST00000508216PDLIM5chr495507559+1834658297788163
ENST00000296181ITGB5chr3124578089-ENST00000514743PDLIM5chr495507559+33966582971961554

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
ENST00000296181ENST00000450793ITGB5chr3124578089-PDLIM5chr495507559+0.133281530.86671853
ENST00000296181ENST00000538141ITGB5chr3124578089-PDLIM5chr495507559+0.133281530.86671853
ENST00000296181ENST00000380180ITGB5chr3124578089-PDLIM5chr495507559+0.0300717910.96992815
ENST00000296181ENST00000318007ITGB5chr3124578089-PDLIM5chr495507559+0.0300717910.96992815
ENST00000296181ENST00000437932ITGB5chr3124578089-PDLIM5chr495507559+0.0001715650.99982846
ENST00000296181ENST00000317968ITGB5chr3124578089-PDLIM5chr495507559+0.000170380.99982965
ENST00000296181ENST00000542407ITGB5chr3124578089-PDLIM5chr495507559+0.0046740250.9953259
ENST00000296181ENST00000508216ITGB5chr3124578089-PDLIM5chr495507559+0.0311508070.9688492
ENST00000296181ENST00000514743ITGB5chr3124578089-PDLIM5chr495507559+0.0018555110.9981445

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 ITGB5-PDLIM5

check button +/-13 AA sequence from the breakpoints of the fusion protein sequences.
HgeneHchrHbpTgeneTchrTbpLength(fusion protein)BP in fusion proteinPeptide
ITGB5chr3124578089PDLIM5chr495507559658120QMTPQEIAVNLRPVKESEADNTKKAK
ITGB5chr3124578089PDLIM5chr495507559658120QMTPQEIAVNLRPVKESEADNTKKAN

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Potential FusionNeoAntigen Information of ITGB5-PDLIM5 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.
ITGB5-PDLIM5_124578089_95507559.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)
ITGB5-PDLIM5chr3124578089chr495507559658HLA-A68:02EIAVNLRPV0.99720.6563514
ITGB5-PDLIM5chr3124578089chr495507559658HLA-A69:01EIAVNLRPV0.98580.6667514

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Potential FusionNeoAntigen Information of ITGB5-PDLIM5 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.
ITGB5-PDLIM5_124578089_95507559.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)
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-0303PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-0303TPQEIAVNLRPVKES217
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-0303MTPQEIAVNLRPVKE116
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-0303PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-0303TPQEIAVNLRPVKES217
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-0303MTPQEIAVNLRPVKE116
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-0307PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-0307PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-0324PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-0324TPQEIAVNLRPVKES217
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-0324MTPQEIAVNLRPVKE116
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-0324PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-0324TPQEIAVNLRPVKES217
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-0324MTPQEIAVNLRPVKE116
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1107PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1107PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1114PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1114PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1120PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1120PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1136PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1136PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1148PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1148PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1168PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1168PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1186PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1186PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1302PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1302PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1308PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1308PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1316PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1316PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1319PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1319TPQEIAVNLRPVKES217
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1319PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1319TPQEIAVNLRPVKES217
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1320PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1320PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1323PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1323PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1327PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1327PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1329PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1329PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1334PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1334PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1336PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1336PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1339PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1339PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1341PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1341PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1353PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1353TPQEIAVNLRPVKES217
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1353PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1353TPQEIAVNLRPVKES217
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1361PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1361TPQEIAVNLRPVKES217
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1361PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1361TPQEIAVNLRPVKES217
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1370PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1370PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1371PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1371TPQEIAVNLRPVKES217
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1371PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1371TPQEIAVNLRPVKES217
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1372PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1372PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1373PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1373PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1374PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1374PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1376PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1376PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1378PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1378PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1384PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1384PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1396PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1396TPQEIAVNLRPVKES217
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1396PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1396TPQEIAVNLRPVKES217
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1397PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1397PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1399PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1399PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1412PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1412PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1421PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1421PQEIAVNLRPVKESE318
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1503AVNLRPVKESEADNT722
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1503IAVNLRPVKESEADN621
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1503AVNLRPVKESEADNT722
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1503IAVNLRPVKESEADN621
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1523AVNLRPVKESEADNT722
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1523IAVNLRPVKESEADN621
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1523AVNLRPVKESEADNT722
ITGB5-PDLIM5chr3124578089chr495507559658DRB1-1523IAVNLRPVKESEADN621

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Fusion breakpoint peptide structures of ITGB5-PDLIM5

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
3607IAVNLRPVKESEADITGB5PDLIM5chr3124578089chr495507559658

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Filtering FusionNeoAntigens Through Checking the Interaction with HLAs in 3D of ITGB5-PDLIM5

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-B14:023BVN3607IAVNLRPVKESEAD-6.11479-7.15009
HLA-B14:023BVN3607IAVNLRPVKESEAD-4.76706-4.88046
HLA-B52:013W393607IAVNLRPVKESEAD-6.87405-6.98745
HLA-B52:013W393607IAVNLRPVKESEAD-5.3619-6.3972
HLA-A11:014UQ23607IAVNLRPVKESEAD-9.79836-9.91176
HLA-A24:025HGA3607IAVNLRPVKESEAD-8.83847-8.95187
HLA-A24:025HGA3607IAVNLRPVKESEAD-8.05027-9.08557
HLA-B44:053DX83607IAVNLRPVKESEAD-7.51915-7.63255
HLA-B44:053DX83607IAVNLRPVKESEAD-4.45384-5.48914
HLA-A02:016TDR3607IAVNLRPVKESEAD-2.8902-3.9255

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Vaccine Design for the FusionNeoAntigens of ITGB5-PDLIM5

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
ITGB5-PDLIM5chr3124578089chr495507559514EIAVNLRPVAGATTGCCGTGAACCTCCGGCCCGTGA

check button mRNA and peptide sequences of FusionNeoAntigens that have potential interaction with HLA-IIs.
Fusion geneHchrHbpTchrTbpStart in +/-13AAEnd in +/-13AAFusionNeoAntigen peptideFusionNEoAntigen RNA sequence
ITGB5-PDLIM5chr3124578089chr495507559116MTPQEIAVNLRPVKETGACACCACAGGAGATTGCCGTGAACCTCCGGCCCGTGAAAGAAT
ITGB5-PDLIM5chr3124578089chr495507559217TPQEIAVNLRPVKESCACCACAGGAGATTGCCGTGAACCTCCGGCCCGTGAAAGAATCTG
ITGB5-PDLIM5chr3124578089chr495507559318PQEIAVNLRPVKESECACAGGAGATTGCCGTGAACCTCCGGCCCGTGAAAGAATCTGAAG
ITGB5-PDLIM5chr3124578089chr495507559621IAVNLRPVKESEADNTTGCCGTGAACCTCCGGCCCGTGAAAGAATCTGAAGCCGATAATA
ITGB5-PDLIM5chr3124578089chr495507559722AVNLRPVKESEADNTCCGTGAACCTCCGGCCCGTGAAAGAATCTGAAGCCGATAATACAA

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Information of the samples that have these potential fusion neoantigens of ITGB5-PDLIM5

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
OVITGB5-PDLIM5chr3124578089ENST00000296181chr495507559ENST00000508216TCGA-24-1843-01A

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Potential target of CAR-T therapy development for ITGB5-PDLIM5

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 ITGB5-PDLIM5

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 ITGB5-PDLIM5

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