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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:FBXO25-ATG4B (FusionGDB2 ID:29772)

Fusion Gene Summary for FBXO25-ATG4B

check button Fusion gene summary
Fusion gene informationFusion gene name: FBXO25-ATG4B
Fusion gene ID: 29772
HgeneTgene
Gene symbol

FBXO25

ATG4B

Gene ID

26260

23192

Gene nameF-box protein 25autophagy related 4B cysteine peptidase
SynonymsFBX25APG4B|AUTL1
Cytomap

8p23.3

2q37.3

Type of geneprotein-codingprotein-coding
DescriptionF-box only protein 25F-box protein Fbx25cysteine protease ATG4BAPG4 autophagy 4 homolog BATG4 autophagy related 4 homolog BAUT-like 1 cysteine endopeptidaseautophagin-1autophagy-related cysteine endopeptidase 1autophagy-related protein 4 homolog BhAPG4B
Modification date2020031320200329
UniProtAcc

Q8TCJ0

Q9Y4P1

Ensembl transtripts involved in fusion geneENST00000276326, ENST00000350302, 
ENST00000352684, ENST00000382824, 
ENST00000519376, 		ENST00000396411, 
ENST00000474739, ENST00000491867, 
ENST00000402096, ENST00000404914, 
ENST00000405546, 
Fusion gene scores* DoF score6 X 3 X 5=904 X 4 X 3=48
# samples 65
** MAII scorelog2(6/90*10)=-0.584962500721156
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
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: FBXO25 [Title/Abstract] AND ATG4B [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointFBXO25(363213)-ATG4B(242606059), # samples:1
Anticipated loss of major functional domain due to fusion event.FBXO25-ATG4B seems lost the major protein functional domain in Hgene partner, which is a tumor suppressor due to the frame-shifted ORF.
FBXO25-ATG4B seems lost the major protein functional domain in Tgene partner, which is a essential gene due to the frame-shifted ORF.
FBXO25-ATG4B seems lost the major protein functional domain in Tgene partner, which is a IUPHAR drug target 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
TgeneATG4B

GO:0006508

proteolysis

15169837|18387192

TgeneATG4B

GO:0006914

autophagy

18387192

TgeneATG4B

GO:0051697

protein delipidation

25327288


check buttonFusion gene breakpoints across FBXO25 (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 ATG4B (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
ChimerDB4STADTCGA-D7-A4YUFBXO25chr8

363213

+ATG4Bchr2

242606059

+


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Fusion Gene ORF analysis for FBXO25-ATG4B

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-intronENST00000276326ENST00000396411FBXO25chr8

363213

+ATG4Bchr2

242606059

+
5CDS-intronENST00000276326ENST00000474739FBXO25chr8

363213

+ATG4Bchr2

242606059

+
5CDS-intronENST00000276326ENST00000491867FBXO25chr8

363213

+ATG4Bchr2

242606059

+
5CDS-intronENST00000350302ENST00000396411FBXO25chr8

363213

+ATG4Bchr2

242606059

+
5CDS-intronENST00000350302ENST00000474739FBXO25chr8

363213

+ATG4Bchr2

242606059

+
5CDS-intronENST00000350302ENST00000491867FBXO25chr8

363213

+ATG4Bchr2

242606059

+
5UTR-3CDSENST00000352684ENST00000402096FBXO25chr8

363213

+ATG4Bchr2

242606059

+
5UTR-3CDSENST00000352684ENST00000404914FBXO25chr8

363213

+ATG4Bchr2

242606059

+
5UTR-3CDSENST00000352684ENST00000405546FBXO25chr8

363213

+ATG4Bchr2

242606059

+
5UTR-3CDSENST00000382824ENST00000402096FBXO25chr8

363213

+ATG4Bchr2

242606059

+
5UTR-3CDSENST00000382824ENST00000404914FBXO25chr8

363213

+ATG4Bchr2

242606059

+
5UTR-3CDSENST00000382824ENST00000405546FBXO25chr8

363213

+ATG4Bchr2

242606059

+
5UTR-intronENST00000352684ENST00000396411FBXO25chr8

363213

+ATG4Bchr2

242606059

+
5UTR-intronENST00000352684ENST00000474739FBXO25chr8

363213

+ATG4Bchr2

242606059

+
5UTR-intronENST00000352684ENST00000491867FBXO25chr8

363213

+ATG4Bchr2

242606059

+
5UTR-intronENST00000382824ENST00000396411FBXO25chr8

363213

+ATG4Bchr2

242606059

+
5UTR-intronENST00000382824ENST00000474739FBXO25chr8

363213

+ATG4Bchr2

242606059

+
5UTR-intronENST00000382824ENST00000491867FBXO25chr8

363213

+ATG4Bchr2

242606059

+
Frame-shiftENST00000276326ENST00000402096FBXO25chr8

363213

+ATG4Bchr2

242606059

+
Frame-shiftENST00000276326ENST00000404914FBXO25chr8

363213

+ATG4Bchr2

242606059

+
Frame-shiftENST00000276326ENST00000405546FBXO25chr8

363213

+ATG4Bchr2

242606059

+
Frame-shiftENST00000350302ENST00000402096FBXO25chr8

363213

+ATG4Bchr2

242606059

+
Frame-shiftENST00000350302ENST00000404914FBXO25chr8

363213

+ATG4Bchr2

242606059

+
Frame-shiftENST00000350302ENST00000405546FBXO25chr8

363213

+ATG4Bchr2

242606059

+
intron-3CDSENST00000519376ENST00000402096FBXO25chr8

363213

+ATG4Bchr2

242606059

+
intron-3CDSENST00000519376ENST00000404914FBXO25chr8

363213

+ATG4Bchr2

242606059

+
intron-3CDSENST00000519376ENST00000405546FBXO25chr8

363213

+ATG4Bchr2

242606059

+
intron-intronENST00000519376ENST00000396411FBXO25chr8

363213

+ATG4Bchr2

242606059

+
intron-intronENST00000519376ENST00000474739FBXO25chr8

363213

+ATG4Bchr2

242606059

+
intron-intronENST00000519376ENST00000491867FBXO25chr8

363213

+ATG4Bchr2

242606059

+

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 FBXO25-ATG4B


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)
FBXO25chr8363213+ATG4Bchr2242606059+0.0035544740.9964456
FBXO25chr8363213+ATG4Bchr2242606059+0.0035544740.9964456

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.
genomic feature of top 1%

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Fusion Protein Features for FBXO25-ATG4B


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/:363213/:242606059)
- 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
FBXO25

Q8TCJ0

ATG4B

Q9Y4P1

FUNCTION: Substrate-recognition component of the SCF (SKP1-CUL1-F-box protein)-type E3 ubiquitin ligase complex. May play a role in accumulation of expanded polyglutamine (polyQ) protein huntingtin (HTT) (By similarity). {ECO:0000250}.FUNCTION: Cysteine protease required for the cytoplasm to vacuole transport (Cvt) and autophagy. Cleaves the C-terminal amino acid of ATG8 family proteins MAP1LC3, GABARAPL1, GABARAPL2 and GABARAP, to reveal a C-terminal glycine. Exposure of the glycine at the C-terminus is essential for ATG8 proteins conjugation to phosphatidylethanolamine (PE) and insertion to membranes, which is necessary for autophagy. Has also an activity of delipidating enzyme for the PE-conjugated forms. {ECO:0000269|PubMed:15169837, ECO:0000269|PubMed:15187094, ECO:0000269|PubMed:17347651, ECO:0000269|PubMed:19322194, ECO:0000269|PubMed:21177865, ECO:0000269|PubMed:22302004}.

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 FBXO25-ATG4B


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 FBXO25-ATG4B


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 FBXO25-ATG4B


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 FBXO25-ATG4B


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