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Center for Computational Systems Medicine level1
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Fusion Gene Summary

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Fusion Gene Sample Information

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Fusion ORF Analysis

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Fusion Amino Acid Sequences

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Fusion Protein Functional Features

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Fusion Protein-Protein Interaction

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Related drugs with this fusion protein

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Related disease with this fusion protein

Fusion Protein:ITGB5-PDLIM5

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

.
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
Context (manual curation of fusion genes in FusionPDB)

PubMed: ITGB5 [Title/Abstract] AND PDLIM5 [Title/Abstract] AND fusion [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 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 Gene Sample Information

check buttonFusion gene information from FusionGDB2.0.
check button Fusion gene information from two resources (ChiTars 5.0 and ChimerDB 4.0)
* All genome coordinats were lifted-over on hg19.
* Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser.
SourceDiseaseSampleHgeneHchrHbpHstrandTgeneTchrTbpTstrand
ChimerDB4OVTCGA-24-1843-01AITGB5chr3

124578089

-PDLIM5chr4

95507559

+


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Fusion ORF Analysis


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

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Fusion Amino Acid Sequences


check button For individual full-length fusion transcript sequence from FusionPDB, we ran ORFfinder and chose the longest ORF among the all predicted ones.
>FusionGDB ID_FusionGDB isoform ID_FGname_Hgene_Hchr_Hbp_Henst_Tgene_Tchr_Tbp_Tenst_length(fusion AA) seq_BP

>40562_40562_1_ITGB5-PDLIM5_ITGB5_chr3_124578089_ENST00000296181_PDLIM5_chr4_95507559_ENST00000317968_length(amino acids)=422AA_BP=120
MPRAPAPLYACLLGLCALLPRLAGLNICTSGSATSCEECLLIHPKCAWCSKEDFGSPRSITSRCDLRANLVKNGCGGEIESPASSFHVLR
SLPLSSKGSGSAGWDVIQMTPQEIAVNLRPVKESEADNTKKANNSQEPSPQLASSVASTRSMPESLDSPTSGRPGVTSLTAAAAFKPVGS
TGVIKSPSWQRPNQGVPSTGRISNSATYSGSVAPANSALGQTQPSDQDTLVQRAEHIPAGKRTPMCAHCNQVIRGPFLVALGKSWHPEEF
NCAHCKNTMAYIGFVEEKGALYCELCYEKFFAPECGRCQRKILGEVISALKQTWHVSCFVCVACGKPIRNNVFHLEDGEPYCETDYYALF

--------------------------------------------------------------

>40562_40562_2_ITGB5-PDLIM5_ITGB5_chr3_124578089_ENST00000296181_PDLIM5_chr4_95507559_ENST00000318007_length(amino acids)=205AA_BP=
MTSQPAEPEPLLLRGRLLRTWKLLAGLSISPPQPFLTRFALRSHREVMDRGLPKSSLEHQAHFGWISRHSSHEVALPLVHMLRPASRGRS
AQSPRRQAYSGAGARGMVGRLPQRRRGRCTPRGPAAGAGAGARGPRAGGRSRMPRAQLRLTAPALARAPPPPSVPQHSRPSPGTAAALAG

--------------------------------------------------------------

>40562_40562_3_ITGB5-PDLIM5_ITGB5_chr3_124578089_ENST00000296181_PDLIM5_chr4_95507559_ENST00000380180_length(amino acids)=205AA_BP=
MTSQPAEPEPLLLRGRLLRTWKLLAGLSISPPQPFLTRFALRSHREVMDRGLPKSSLEHQAHFGWISRHSSHEVALPLVHMLRPASRGRS
AQSPRRQAYSGAGARGMVGRLPQRRRGRCTPRGPAAGAGAGARGPRAGGRSRMPRAQLRLTAPALARAPPPPSVPQHSRPSPGTAAALAG

--------------------------------------------------------------

>40562_40562_4_ITGB5-PDLIM5_ITGB5_chr3_124578089_ENST00000296181_PDLIM5_chr4_95507559_ENST00000437932_length(amino acids)=422AA_BP=120
MPRAPAPLYACLLGLCALLPRLAGLNICTSGSATSCEECLLIHPKCAWCSKEDFGSPRSITSRCDLRANLVKNGCGGEIESPASSFHVLR
SLPLSSKGSGSAGWDVIQMTPQEIAVNLRPVKESEADNTKKANNSQEPSPQLASSVASTRSMPESLDSPTSGRPGVTSLTAAAAFKPVGS
TGVIKSPSWQRPNQGVPSTGRISNSATYSGSVAPANSALGQTQPSDQDTLVQRAEHIPAGKRTPMCAHCNQVIRGPFLVALGKSWHPEEF
NCAHCKNTMAYIGFVEEKGALYCELCYEKFFAPECGRCQRKILGEVISALKQTWHVSCFVCVACGKPIRNNVFHLEDGEPYCETDYYALF

--------------------------------------------------------------

>40562_40562_5_ITGB5-PDLIM5_ITGB5_chr3_124578089_ENST00000296181_PDLIM5_chr4_95507559_ENST00000450793_length(amino acids)=205AA_BP=
MTSQPAEPEPLLLRGRLLRTWKLLAGLSISPPQPFLTRFALRSHREVMDRGLPKSSLEHQAHFGWISRHSSHEVALPLVHMLRPASRGRS
AQSPRRQAYSGAGARGMVGRLPQRRRGRCTPRGPAAGAGAGARGPRAGGRSRMPRAQLRLTAPALARAPPPPSVPQHSRPSPGTAAALAG

--------------------------------------------------------------

>40562_40562_6_ITGB5-PDLIM5_ITGB5_chr3_124578089_ENST00000296181_PDLIM5_chr4_95507559_ENST00000508216_length(amino acids)=163AA_BP=120
MPRAPAPLYACLLGLCALLPRLAGLNICTSGSATSCEECLLIHPKCAWCSKEDFGSPRSITSRCDLRANLVKNGCGGEIESPASSFHVLR

--------------------------------------------------------------

>40562_40562_7_ITGB5-PDLIM5_ITGB5_chr3_124578089_ENST00000296181_PDLIM5_chr4_95507559_ENST00000514743_length(amino acids)=554AA_BP=120
MPRAPAPLYACLLGLCALLPRLAGLNICTSGSATSCEECLLIHPKCAWCSKEDFGSPRSITSRCDLRANLVKNGCGGEIESPASSFHVLR
SLPLSSKGSGSAGWDVIQMTPQEIAVNLRPVKESEADNTKKAKFDSALEDLPKSGPHPPATPQVLTIGSQVATLSKVATTYSSLSSSTGN
VEDSFEGFRNFSTFSSPARYSAAVLSSAAATVSAVIATKTRLYTPERYHSLLDALCISPVSKPLAFSYLQSSRKSTGSIHVKKTSNSQEP
SPQLASSVASTRSMPESLDSPTSGRPGVTSLTAAAAFKPVGSTGVIKSPSWQRPNQGVPSTGRISNSATYSGSVAPANSALGQTQPSDQD
TLVQRAEHIPAGKRTPMCAHCNQVIRGPFLVALGKSWHPEEFNCAHCKNTMAYIGFVEEKGALYCELCYEKFFAPECGRCQRKILGEVIS
ALKQTWHVSCFVCVACGKPIRNNVFHLEDGEPYCETDYYALFGTICHGCEFPIEAGDMFLEALGYTWHDTCFVCSVCCESLEGQTFFSKK

--------------------------------------------------------------

>40562_40562_8_ITGB5-PDLIM5_ITGB5_chr3_124578089_ENST00000296181_PDLIM5_chr4_95507559_ENST00000538141_length(amino acids)=205AA_BP=
MTSQPAEPEPLLLRGRLLRTWKLLAGLSISPPQPFLTRFALRSHREVMDRGLPKSSLEHQAHFGWISRHSSHEVALPLVHMLRPASRGRS
AQSPRRQAYSGAGARGMVGRLPQRRRGRCTPRGPAAGAGAGARGPRAGGRSRMPRAQLRLTAPALARAPPPPSVPQHSRPSPGTAAALAG

--------------------------------------------------------------

>40562_40562_9_ITGB5-PDLIM5_ITGB5_chr3_124578089_ENST00000296181_PDLIM5_chr4_95507559_ENST00000542407_length(amino acids)=422AA_BP=120
MPRAPAPLYACLLGLCALLPRLAGLNICTSGSATSCEECLLIHPKCAWCSKEDFGSPRSITSRCDLRANLVKNGCGGEIESPASSFHVLR
SLPLSSKGSGSAGWDVIQMTPQEIAVNLRPVKESEADNTKKANNSQEPSPQLASSVASTRSMPESLDSPTSGRPGVTSLTAAAAFKPVGS
TGVIKSPSWQRPNQGVPSTGRISNSATYSGSVAPANSALGQTQPSDQDTLVQRAEHIPAGKRTPMCAHCNQVIRGPFLVALGKSWHPEEF
NCAHCKNTMAYIGFVEEKGALYCELCYEKFFAPECGRCQRKILGEVISALKQTWHVSCFVCVACGKPIRNNVFHLEDGEPYCETDYYALF

--------------------------------------------------------------

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Fusion Protein Functional Features


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 buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
ITGB5

P18084

.
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}.FUNCTION: Might normally function as a transcriptional repressor. EWS-fusion-proteins (EFPS) may play a role in the tumorigenic process. They may disturb gene expression by mimicking, or interfering with the normal function of CTD-POLII within the transcription initiation complex. They may also contribute to an aberrant activation of the fusion protein target genes.

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, because of limited space for viewing, we only show the protein feature retention information belong to the 13 regional features. All retention annotation result can be downloaded at

download page

* Minus value of BPloci means that the break pointn is located before the CDS.
- Retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneITGB5chr3:124578089chr4:95507559ENST00000296181-31527_76120.33333333333333800.0DomainNote=PSI
TgenePDLIM5chr3:124578089chr4:95507559ENST00000317968513418_477294.3333333333333597.0DomainLIM zinc-binding 1
TgenePDLIM5chr3:124578089chr4:95507559ENST00000317968513477_536294.3333333333333597.0DomainLIM zinc-binding 2
TgenePDLIM5chr3:124578089chr4:95507559ENST00000317968513536_596294.3333333333333597.0DomainLIM zinc-binding 3
TgenePDLIM5chr3:124578089chr4:95507559ENST00000318007710418_477171.33333333333334215.0DomainLIM zinc-binding 1
TgenePDLIM5chr3:124578089chr4:95507559ENST00000318007710477_536171.33333333333334215.0DomainLIM zinc-binding 2
TgenePDLIM5chr3:124578089chr4:95507559ENST00000318007710536_596171.33333333333334215.0DomainLIM zinc-binding 3
TgenePDLIM5chr3:124578089chr4:95507559ENST00000359265032_850137.0DomainPDZ
TgenePDLIM5chr3:124578089chr4:95507559ENST0000035926503418_4770137.0DomainLIM zinc-binding 1
TgenePDLIM5chr3:124578089chr4:95507559ENST0000035926503477_5360137.0DomainLIM zinc-binding 2
TgenePDLIM5chr3:124578089chr4:95507559ENST0000035926503536_5960137.0DomainLIM zinc-binding 3
TgenePDLIM5chr3:124578089chr4:95507559ENST0000038018069418_477191.33333333333334235.0DomainLIM zinc-binding 1
TgenePDLIM5chr3:124578089chr4:95507559ENST0000038018069477_536191.33333333333334235.0DomainLIM zinc-binding 2
TgenePDLIM5chr3:124578089chr4:95507559ENST0000038018069536_596191.33333333333334235.0DomainLIM zinc-binding 3
TgenePDLIM5chr3:124578089chr4:95507559ENST00000437932513418_477185.33333333333334488.0DomainLIM zinc-binding 1
TgenePDLIM5chr3:124578089chr4:95507559ENST00000437932513477_536185.33333333333334488.0DomainLIM zinc-binding 2
TgenePDLIM5chr3:124578089chr4:95507559ENST00000437932513536_596185.33333333333334488.0DomainLIM zinc-binding 3
TgenePDLIM5chr3:124578089chr4:95507559ENST0000050821658418_477191.33333333333334235.0DomainLIM zinc-binding 1
TgenePDLIM5chr3:124578089chr4:95507559ENST0000050821658477_536191.33333333333334235.0DomainLIM zinc-binding 2
TgenePDLIM5chr3:124578089chr4:95507559ENST0000050821658536_596191.33333333333334235.0DomainLIM zinc-binding 3

- Not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneITGB5chr3:124578089chr4:95507559ENST00000296181-315136_378120.33333333333333800.0DomainNote=VWFA
HgeneITGB5chr3:124578089chr4:95507559ENST00000296181-315465_630120.33333333333333800.0RegionNote=Cysteine-rich tandem repeats
HgeneITGB5chr3:124578089chr4:95507559ENST00000296181-315465_512120.33333333333333800.0RepeatNote=I
HgeneITGB5chr3:124578089chr4:95507559ENST00000296181-315513_554120.33333333333333800.0RepeatNote=II
HgeneITGB5chr3:124578089chr4:95507559ENST00000296181-315555_593120.33333333333333800.0RepeatNote=III
HgeneITGB5chr3:124578089chr4:95507559ENST00000296181-315594_630120.33333333333333800.0RepeatNote=IV
HgeneITGB5chr3:124578089chr4:95507559ENST00000296181-31524_719120.33333333333333800.0Topological domainExtracellular
HgeneITGB5chr3:124578089chr4:95507559ENST00000296181-315743_799120.33333333333333800.0Topological domainCytoplasmic
HgeneITGB5chr3:124578089chr4:95507559ENST00000296181-315720_742120.33333333333333800.0TransmembraneHelical
TgenePDLIM5chr3:124578089chr4:95507559ENST000003179685132_85294.3333333333333597.0DomainPDZ
TgenePDLIM5chr3:124578089chr4:95507559ENST000003180077102_85171.33333333333334215.0DomainPDZ
TgenePDLIM5chr3:124578089chr4:95507559ENST00000380180692_85191.33333333333334235.0DomainPDZ
TgenePDLIM5chr3:124578089chr4:95507559ENST000004379325132_85185.33333333333334488.0DomainPDZ
TgenePDLIM5chr3:124578089chr4:95507559ENST00000508216582_85191.33333333333334235.0DomainPDZ


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Fusion Protein-Protein Interaction


check button Go to ChiPPI (Chimeric Protein-Protein interactions) to see the chimeric PPI interaction in

ChiPPI page.


check button Protein-protein interactors with each fusion partner protein in wild-type from validated records (BIOGRID-3.4.160)
GenePPI interactors


check button Protein-protein interactors based on sequence similarity (STRING)
GeneSTRING network
ITGB5
PDLIM5


check button - Retained interactions in fusion protein (protein functional feature from UniProt).
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenStill interaction with


check button - Lost interactions due to fusion (protein functional feature from UniProt).
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


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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