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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:CLUAP1-MGST3 (FusionGDB2 ID:17421)

Fusion Gene Summary for CLUAP1-MGST3

check button Fusion gene summary
Fusion gene informationFusion gene name: CLUAP1-MGST3
Fusion gene ID: 17421
HgeneTgene
Gene symbol

CLUAP1

MGST3

Gene ID

23059

4259

Gene nameclusterin associated protein 1microsomal glutathione S-transferase 3
SynonymsCFAP22|FAP22|IFT38GST-III
Cytomap

16p13.3

1q24.1

Type of geneprotein-codingprotein-coding
Descriptionclusterin-associated protein 1cilia and flagella associated protein 22flagellar associated protein 22, qilin-like protein, homologmicrosomal glutathione S-transferase 3LTC4 synthase MGST3glutathione peroxidase MGST3microsomal GST-3microsomal GST-IIImicrosomal glutathione S-transferase III
Modification date2020031320200313
UniProtAcc

Q96AJ1

O14880

Ensembl transtripts involved in fusion geneENST00000341633, ENST00000417763, 
ENST00000445795, ENST00000571025, 
ENST00000572600, ENST00000576634, 
ENST00000367883, ENST00000367884, 
ENST00000367885, ENST00000367886, 
ENST00000367888, ENST00000367889, 
ENST00000461759, 
Fusion gene scores* DoF score4 X 4 X 2=324 X 4 X 3=48
# samples 45
** MAII scorelog2(4/32*10)=0.321928094887362
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0		log2(5/48*10)=0.0588936890535686
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
Context

PubMed: CLUAP1 [Title/Abstract] AND MGST3 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointCLUAP1(3576485)-MGST3(165627743), # samples:1
Anticipated loss of major functional domain due to fusion event.
* 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
TgeneMGST3

GO:0006629

lipid metabolic process

9278457

TgeneMGST3

GO:0019370

leukotriene biosynthetic process

9278457


check buttonFusion gene breakpoints across CLUAP1 (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 MGST3 (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
ChiTaRS5.0N/ACD579476CLUAP1chr16

3576485

+MGST3chr1

165627743

-


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Fusion Gene ORF analysis for CLUAP1-MGST3

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-intronENST00000341633ENST00000367883CLUAP1chr16

3576485

+MGST3chr1

165627743

-
5CDS-intronENST00000341633ENST00000367884CLUAP1chr16

3576485

+MGST3chr1

165627743

-
5CDS-intronENST00000341633ENST00000367885CLUAP1chr16

3576485

+MGST3chr1

165627743

-
5CDS-intronENST00000341633ENST00000367886CLUAP1chr16

3576485

+MGST3chr1

165627743

-
5CDS-intronENST00000341633ENST00000367888CLUAP1chr16

3576485

+MGST3chr1

165627743

-
5CDS-intronENST00000341633ENST00000367889CLUAP1chr16

3576485

+MGST3chr1

165627743

-
5CDS-intronENST00000341633ENST00000461759CLUAP1chr16

3576485

+MGST3chr1

165627743

-
5CDS-intronENST00000417763ENST00000367883CLUAP1chr16

3576485

+MGST3chr1

165627743

-
5CDS-intronENST00000417763ENST00000367884CLUAP1chr16

3576485

+MGST3chr1

165627743

-
5CDS-intronENST00000417763ENST00000367885CLUAP1chr16

3576485

+MGST3chr1

165627743

-
5CDS-intronENST00000417763ENST00000367886CLUAP1chr16

3576485

+MGST3chr1

165627743

-
5CDS-intronENST00000417763ENST00000367888CLUAP1chr16

3576485

+MGST3chr1

165627743

-
5CDS-intronENST00000417763ENST00000367889CLUAP1chr16

3576485

+MGST3chr1

165627743

-
5CDS-intronENST00000417763ENST00000461759CLUAP1chr16

3576485

+MGST3chr1

165627743

-
5CDS-intronENST00000445795ENST00000367883CLUAP1chr16

3576485

+MGST3chr1

165627743

-
5CDS-intronENST00000445795ENST00000367884CLUAP1chr16

3576485

+MGST3chr1

165627743

-
5CDS-intronENST00000445795ENST00000367885CLUAP1chr16

3576485

+MGST3chr1

165627743

-
5CDS-intronENST00000445795ENST00000367886CLUAP1chr16

3576485

+MGST3chr1

165627743

-
5CDS-intronENST00000445795ENST00000367888CLUAP1chr16

3576485

+MGST3chr1

165627743

-
5CDS-intronENST00000445795ENST00000367889CLUAP1chr16

3576485

+MGST3chr1

165627743

-
5CDS-intronENST00000445795ENST00000461759CLUAP1chr16

3576485

+MGST3chr1

165627743

-
5CDS-intronENST00000571025ENST00000367883CLUAP1chr16

3576485

+MGST3chr1

165627743

-
5CDS-intronENST00000571025ENST00000367884CLUAP1chr16

3576485

+MGST3chr1

165627743

-
5CDS-intronENST00000571025ENST00000367885CLUAP1chr16

3576485

+MGST3chr1

165627743

-
5CDS-intronENST00000571025ENST00000367886CLUAP1chr16

3576485

+MGST3chr1

165627743

-
5CDS-intronENST00000571025ENST00000367888CLUAP1chr16

3576485

+MGST3chr1

165627743

-
5CDS-intronENST00000571025ENST00000367889CLUAP1chr16

3576485

+MGST3chr1

165627743

-
5CDS-intronENST00000571025ENST00000461759CLUAP1chr16

3576485

+MGST3chr1

165627743

-
5CDS-intronENST00000572600ENST00000367883CLUAP1chr16

3576485

+MGST3chr1

165627743

-
5CDS-intronENST00000572600ENST00000367884CLUAP1chr16

3576485

+MGST3chr1

165627743

-
5CDS-intronENST00000572600ENST00000367885CLUAP1chr16

3576485

+MGST3chr1

165627743

-
5CDS-intronENST00000572600ENST00000367886CLUAP1chr16

3576485

+MGST3chr1

165627743

-
5CDS-intronENST00000572600ENST00000367888CLUAP1chr16

3576485

+MGST3chr1

165627743

-
5CDS-intronENST00000572600ENST00000367889CLUAP1chr16

3576485

+MGST3chr1

165627743

-
5CDS-intronENST00000572600ENST00000461759CLUAP1chr16

3576485

+MGST3chr1

165627743

-
5CDS-intronENST00000576634ENST00000367883CLUAP1chr16

3576485

+MGST3chr1

165627743

-
5CDS-intronENST00000576634ENST00000367884CLUAP1chr16

3576485

+MGST3chr1

165627743

-
5CDS-intronENST00000576634ENST00000367885CLUAP1chr16

3576485

+MGST3chr1

165627743

-
5CDS-intronENST00000576634ENST00000367886CLUAP1chr16

3576485

+MGST3chr1

165627743

-
5CDS-intronENST00000576634ENST00000367888CLUAP1chr16

3576485

+MGST3chr1

165627743

-
5CDS-intronENST00000576634ENST00000367889CLUAP1chr16

3576485

+MGST3chr1

165627743

-
5CDS-intronENST00000576634ENST00000461759CLUAP1chr16

3576485

+MGST3chr1

165627743

-

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 CLUAP1-MGST3


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 CLUAP1-MGST3


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/:3576485/:165627743)
- 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
CLUAP1

Q96AJ1

MGST3

O14880

FUNCTION: Required for cilia biogenesis. Appears to function within the multiple intraflagellar transport complex B (IFT-B). Key regulator of hedgehog signaling. {ECO:0000250|UniProtKB:Q8R3P7}.FUNCTION: Catalyzes oxydation of hydroxy-fatty acids (PubMed:9278457). Also catalyzes the conjugation of a reduced glutathione to leukotriene A4 in vitro (PubMed:9278457). May participate in the lipid metabolism (PubMed:9278457). {ECO:0000269|PubMed:9278457, ECO:0000303|PubMed:9278457}.

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 CLUAP1-MGST3


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 CLUAP1-MGST3


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 CLUAP1-MGST3


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 CLUAP1-MGST3


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