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Center for Computational Systems Medicine
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Fusion Gene Summary

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Fusion Gene ORF analysis

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Fusion Genomic Features

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Fusion Protein Features

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Fusion Gene Sequence

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Fusion Gene PPI analysis

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Related Drugs

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Related Diseases

Fusion gene:LDLRAD4-DLGAP1 (FusionGDB2 ID:44382)

Fusion Gene Summary for LDLRAD4-DLGAP1

check button Fusion gene summary
Fusion gene informationFusion gene name: LDLRAD4-DLGAP1
Fusion gene ID: 44382
HgeneTgene
Gene symbol

LDLRAD4

DLGAP1

Gene ID

753

9229

Gene namelow density lipoprotein receptor class A domain containing 4DLG associated protein 1
SynonymsC18orf1DAP-1|DAP-1-ALPHA|DAP-1-BETA|DAP1|DLGAP1A|DLGAP1B|GKAP|SAPAP1
Cytomap

18p11.21

18p11.31

Type of geneprotein-codingprotein-coding
Descriptionlow-density lipoprotein receptor class A domain-containing protein 4clone 22disks large-associated protein 1PSD-95/SAP90 binding protein 1SAP90/PSD-95-associated protein 1discs large homolog associated protein 1guanylate kinase-associated protein
Modification date2020032020200313
UniProtAcc

O15165

O14490

Ensembl transtripts involved in fusion geneENST00000359446, ENST00000361205, 
ENST00000399848, ENST00000585931, 
ENST00000586765, ENST00000587757, 
ENST00000590308, ENST00000592991, 
ENST00000400145, ENST00000400149, 
ENST00000400150, ENST00000400155, 
ENST00000478161, ENST00000515196, 
ENST00000534970, ENST00000539435, 
ENST00000581699, ENST00000584874, 
ENST00000315677, ENST00000400147, 
ENST00000581527, 
Fusion gene scores* DoF score18 X 15 X 7=189031 X 20 X 8=4960
# samples 2032
** MAII scorelog2(20/1890*10)=-3.24031432933371
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(32/4960*10)=-3.95419631038688
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: LDLRAD4 [Title/Abstract] AND DLGAP1 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointLDLRAD4(13621270)-DLGAP1(3582246), # samples:1
Anticipated loss of major functional domain due to fusion event.LDLRAD4-DLGAP1 seems lost the major protein functional domain in Tgene partner, which is a essential gene 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
HgeneLDLRAD4

GO:0010991

negative regulation of SMAD protein complex assembly

24627487


check buttonFusion gene breakpoints across LDLRAD4 (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

check buttonFusion gene breakpoints across DLGAP1 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

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
ChimerDB4COADTCGA-F4-6461-01ALDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-


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Fusion Gene ORF analysis for LDLRAD4-DLGAP1

check button Open reading frame (ORF) analsis of fusion genes based on Ensembl gene isoform structure.
* Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser.
ORFHenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrand
5CDS-intronENST00000359446ENST00000400145LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000359446ENST00000400149LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000359446ENST00000400150LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000359446ENST00000400155LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000359446ENST00000478161LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000359446ENST00000515196LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000359446ENST00000534970LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000359446ENST00000539435LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000359446ENST00000581699LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000359446ENST00000584874LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000361205ENST00000400145LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000361205ENST00000400149LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000361205ENST00000400150LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000361205ENST00000400155LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000361205ENST00000478161LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000361205ENST00000515196LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000361205ENST00000534970LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000361205ENST00000539435LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000361205ENST00000581699LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000361205ENST00000584874LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000399848ENST00000400145LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000399848ENST00000400149LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000399848ENST00000400150LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000399848ENST00000400155LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000399848ENST00000478161LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000399848ENST00000515196LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000399848ENST00000534970LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000399848ENST00000539435LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000399848ENST00000581699LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000399848ENST00000584874LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000585931ENST00000400145LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000585931ENST00000400149LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000585931ENST00000400150LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000585931ENST00000400155LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000585931ENST00000478161LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000585931ENST00000515196LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000585931ENST00000534970LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000585931ENST00000539435LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000585931ENST00000581699LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000585931ENST00000584874LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000586765ENST00000400145LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000586765ENST00000400149LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000586765ENST00000400150LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000586765ENST00000400155LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000586765ENST00000478161LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000586765ENST00000515196LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000586765ENST00000534970LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000586765ENST00000539435LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000586765ENST00000581699LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000586765ENST00000584874LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000587757ENST00000400145LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000587757ENST00000400149LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000587757ENST00000400150LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000587757ENST00000400155LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000587757ENST00000478161LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000587757ENST00000515196LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000587757ENST00000534970LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000587757ENST00000539435LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000587757ENST00000581699LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
5CDS-intronENST00000587757ENST00000584874LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
Frame-shiftENST00000359446ENST00000315677LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
Frame-shiftENST00000359446ENST00000400147LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
Frame-shiftENST00000359446ENST00000581527LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
Frame-shiftENST00000361205ENST00000315677LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
Frame-shiftENST00000361205ENST00000400147LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
Frame-shiftENST00000361205ENST00000581527LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
Frame-shiftENST00000399848ENST00000315677LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
Frame-shiftENST00000399848ENST00000400147LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
Frame-shiftENST00000399848ENST00000581527LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
Frame-shiftENST00000585931ENST00000315677LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
Frame-shiftENST00000585931ENST00000400147LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
Frame-shiftENST00000585931ENST00000581527LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
Frame-shiftENST00000586765ENST00000315677LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
Frame-shiftENST00000586765ENST00000400147LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
Frame-shiftENST00000586765ENST00000581527LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
Frame-shiftENST00000587757ENST00000315677LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
Frame-shiftENST00000587757ENST00000400147LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
Frame-shiftENST00000587757ENST00000581527LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
intron-3CDSENST00000590308ENST00000315677LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
intron-3CDSENST00000590308ENST00000400147LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
intron-3CDSENST00000590308ENST00000581527LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
intron-3CDSENST00000592991ENST00000315677LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
intron-3CDSENST00000592991ENST00000400147LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
intron-3CDSENST00000592991ENST00000581527LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
intron-intronENST00000590308ENST00000400145LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
intron-intronENST00000590308ENST00000400149LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
intron-intronENST00000590308ENST00000400150LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
intron-intronENST00000590308ENST00000400155LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
intron-intronENST00000590308ENST00000478161LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
intron-intronENST00000590308ENST00000515196LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
intron-intronENST00000590308ENST00000534970LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
intron-intronENST00000590308ENST00000539435LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
intron-intronENST00000590308ENST00000581699LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
intron-intronENST00000590308ENST00000584874LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
intron-intronENST00000592991ENST00000400145LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
intron-intronENST00000592991ENST00000400149LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
intron-intronENST00000592991ENST00000400150LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
intron-intronENST00000592991ENST00000400155LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
intron-intronENST00000592991ENST00000478161LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
intron-intronENST00000592991ENST00000515196LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
intron-intronENST00000592991ENST00000534970LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
intron-intronENST00000592991ENST00000539435LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
intron-intronENST00000592991ENST00000581699LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-
intron-intronENST00000592991ENST00000584874LDLRAD4chr18

13621270

+DLGAP1chr18

3582246

-

check buttonORFfinder result based on the fusion transcript sequence of in-frame fusion genes.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandSeq length
(transcript)		BP loci
(transcript)		Predicted start
(transcript)		Predicted stop
(transcript)		Seq length
(amino acids)

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

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Fusion Genomic Features for LDLRAD4-DLGAP1


check buttonFusionAI prediction of the potential fusion gene breakpoint based on the pre-mature RNA sequence context (+/- 5kb of individual partner genes, total 20kb length sequence). FusionAI is a fusion gene breakpoint classifier based on convolutional neural network by comparing the fusion positive and negative sequence context of ~ 20K fusion gene data. From here, we can have the relative potentency of the 20K genomic sequence how individual sequnce will be likely used as the gene fusion breakpoints.
HgeneHchrHbpHstrandTgeneTchrTbpTstrand1-pp (fusion gene breakpoint)

check buttonDistribution of 44 human genomic features loci across 20kb length fusion breakpoint regions. We integrated a total of 44 different types of human genomic feature loci information across five big categories including virus integration sites, repeats, structural variants, chromatin states, and gene expression regulation. More details are in help page.

check buttonDistribution of 44 human genomic features loci across 20kb length fusion breakpoint regions that are ovelapped with the top 1% feature importance score regions. More details are in help page.

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Fusion Protein Features for LDLRAD4-DLGAP1


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/:13621270/:3582246)
- 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
LDLRAD4

O15165

DLGAP1

O14490

FUNCTION: Functions as a negative regulator of TGF-beta signaling and thereby probably plays a role in cell proliferation, differentiation, apoptosis, motility, extracellular matrix production and immunosuppression. In the canonical TGF-beta pathway, ZFYVE9/SARA recruits the intracellular signal transducer and transcriptional modulators SMAD2 and SMAD3 to the TGF-beta receptor. Phosphorylated by the receptor, SMAD2 and SMAD3 then form a heteromeric complex with SMAD4 that translocates to the nucleus to regulate transcription. Through interaction with SMAD2 and SMAD3, LDLRAD4 may compete with ZFYVE9 and SMAD4 and prevent propagation of the intracellular signal. {ECO:0000269|PubMed:24627487}.FUNCTION: Part of the postsynaptic scaffold in neuronal cells.

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.
- In-frame and retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note


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Fusion Gene Sequence for LDLRAD4-DLGAP1


check button For in-frame fusion transcripts, we provide the fusion transcript sequences and fusion amino acid sequences. To have fusion amino acid sequence, we ran ORFfinder and chose the longest ORF among the all predicted ones.

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Fusion Gene PPI Analysis for LDLRAD4-DLGAP1


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 (BIOGRID-3.4.160)
HgeneHgene's interactorsTgeneTgene's interactors


check button - Retained PPIs in in-frame fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenStill interaction with


check button - Lost PPIs in in-frame fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


check button - Retained PPIs, but lost function due to frame-shift fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


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Related Drugs for LDLRAD4-DLGAP1


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.8 2021-05-08)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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Related Diseases for LDLRAD4-DLGAP1


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