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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:ATG7-ARMC3 (FusionGDB2 ID:HG10533TG219681)

Fusion Gene Summary for ATG7-ARMC3

check button Fusion gene summary
Fusion gene informationFusion gene name: ATG7-ARMC3
Fusion gene ID: hg10533tg219681
HgeneTgene
Gene symbol

ATG7

ARMC3

Gene ID

10533

219681

Gene nameautophagy related 7armadillo repeat containing 3
SynonymsAPG7-LIKE|APG7L|GSA7CT81|KU-CT-1
Cytomap('ATG7')('ARMC3')

3p25.3

10p12.2

Type of geneprotein-codingprotein-coding
Descriptionubiquitin-like modifier-activating enzyme ATG7APG7 autophagy 7-likeATG12-activating enzyme E1 ATG7hAGP7ubiquitin-activating enzyme E1-like proteinarmadillo repeat-containing protein 3beta-catenin-like proteincancer/testis antigen 81
Modification date2020032920200313
UniProtAcc.

Q5W041

Ensembl transtripts involved in fusion geneENST00000354449, ENST00000354956, 
ENST00000446450, ENST00000469654, 
Fusion gene scores* DoF score15 X 16 X 9=21606 X 10 X 5=300
# samples 209
** MAII scorelog2(20/2160*10)=-3.43295940727611
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(9/300*10)=-1.73696559416621
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: ATG7 [Title/Abstract] AND ARMC3 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointATG7(11406208)-ARMC3(23319525), # samples:3
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
HgeneATG7

GO:0006497

protein lipidation

12890687

HgeneATG7

GO:0009267

cellular response to starvation

20543840

HgeneATG7

GO:0031401

positive regulation of protein modification process

12890687

HgeneATG7

GO:0071455

cellular response to hyperoxia

20543840



check button Fusion gene information
* 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
ChimerDB4LUSCTCGA-43-8116-01AATG7chr3

11406208

-ARMC3chr10

23319525

+
ChimerDB4LUSCTCGA-43-8116-01AATG7chr3

11406208

+ARMC3chr10

23319525

+
ChimerDB4LUSCTCGA-43-8116ATG7chr3

11406208

+ARMC3chr10

23319524

+
ChimerDB4LUSCTCGA-43-8116ATG7chr3

11406208

+ARMC3chr10

23319525

+


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Fusion Gene ORF analysis for ATG7-ARMC3

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-intronENST00000354449ENST00000376528ATG7chr3

11406208

+ARMC3chr10

23319525

+
5CDS-intronENST00000354449ENST00000376528ATG7chr3

11406208

+ARMC3chr10

23319524

+
5CDS-intronENST00000354449ENST00000409049ATG7chr3

11406208

+ARMC3chr10

23319525

+
5CDS-intronENST00000354449ENST00000409049ATG7chr3

11406208

+ARMC3chr10

23319524

+
5CDS-intronENST00000354449ENST00000464017ATG7chr3

11406208

+ARMC3chr10

23319525

+
5CDS-intronENST00000354449ENST00000464017ATG7chr3

11406208

+ARMC3chr10

23319524

+
5CDS-intronENST00000354956ENST00000376528ATG7chr3

11406208

+ARMC3chr10

23319525

+
5CDS-intronENST00000354956ENST00000376528ATG7chr3

11406208

+ARMC3chr10

23319524

+
5CDS-intronENST00000354956ENST00000409049ATG7chr3

11406208

+ARMC3chr10

23319525

+
5CDS-intronENST00000354956ENST00000409049ATG7chr3

11406208

+ARMC3chr10

23319524

+
5CDS-intronENST00000354956ENST00000464017ATG7chr3

11406208

+ARMC3chr10

23319525

+
5CDS-intronENST00000354956ENST00000464017ATG7chr3

11406208

+ARMC3chr10

23319524

+
5CDS-intronENST00000446450ENST00000376528ATG7chr3

11406208

+ARMC3chr10

23319525

+
5CDS-intronENST00000446450ENST00000376528ATG7chr3

11406208

+ARMC3chr10

23319524

+
5CDS-intronENST00000446450ENST00000409049ATG7chr3

11406208

+ARMC3chr10

23319525

+
5CDS-intronENST00000446450ENST00000409049ATG7chr3

11406208

+ARMC3chr10

23319524

+
5CDS-intronENST00000446450ENST00000464017ATG7chr3

11406208

+ARMC3chr10

23319525

+
5CDS-intronENST00000446450ENST00000464017ATG7chr3

11406208

+ARMC3chr10

23319524

+
Frame-shiftENST00000354449ENST00000298032ATG7chr3

11406208

+ARMC3chr10

23319525

+
Frame-shiftENST00000354449ENST00000298032ATG7chr3

11406208

+ARMC3chr10

23319524

+
Frame-shiftENST00000354449ENST00000409983ATG7chr3

11406208

+ARMC3chr10

23319525

+
Frame-shiftENST00000354449ENST00000409983ATG7chr3

11406208

+ARMC3chr10

23319524

+
Frame-shiftENST00000354956ENST00000298032ATG7chr3

11406208

+ARMC3chr10

23319525

+
Frame-shiftENST00000354956ENST00000298032ATG7chr3

11406208

+ARMC3chr10

23319524

+
Frame-shiftENST00000354956ENST00000409983ATG7chr3

11406208

+ARMC3chr10

23319525

+
Frame-shiftENST00000354956ENST00000409983ATG7chr3

11406208

+ARMC3chr10

23319524

+
Frame-shiftENST00000446450ENST00000298032ATG7chr3

11406208

+ARMC3chr10

23319525

+
Frame-shiftENST00000446450ENST00000298032ATG7chr3

11406208

+ARMC3chr10

23319524

+
Frame-shiftENST00000446450ENST00000409983ATG7chr3

11406208

+ARMC3chr10

23319525

+
Frame-shiftENST00000446450ENST00000409983ATG7chr3

11406208

+ARMC3chr10

23319524

+
intron-3CDSENST00000469654ENST00000298032ATG7chr3

11406208

+ARMC3chr10

23319525

+
intron-3CDSENST00000469654ENST00000298032ATG7chr3

11406208

+ARMC3chr10

23319524

+
intron-3CDSENST00000469654ENST00000409983ATG7chr3

11406208

+ARMC3chr10

23319525

+
intron-3CDSENST00000469654ENST00000409983ATG7chr3

11406208

+ARMC3chr10

23319524

+
intron-intronENST00000469654ENST00000376528ATG7chr3

11406208

+ARMC3chr10

23319525

+
intron-intronENST00000469654ENST00000376528ATG7chr3

11406208

+ARMC3chr10

23319524

+
intron-intronENST00000469654ENST00000409049ATG7chr3

11406208

+ARMC3chr10

23319525

+
intron-intronENST00000469654ENST00000409049ATG7chr3

11406208

+ARMC3chr10

23319524

+
intron-intronENST00000469654ENST00000464017ATG7chr3

11406208

+ARMC3chr10

23319525

+
intron-intronENST00000469654ENST00000464017ATG7chr3

11406208

+ARMC3chr10

23319524

+

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 ATG7-ARMC3


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)
ATG7chr311406208+ARMC3chr1023319524+0.0527953950.94720465
ATG7chr311406208+ARMC3chr1023319524+0.0527953950.94720465
ATG7chr311406208+ARMC3chr1023319524+0.0527953950.94720465
ATG7chr311406208+ARMC3chr1023319524+0.0527953950.94720465


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 ATG7-ARMC3


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/:11406208/:23319525)
- 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
.ARMC3

Q5W041

FUNCTION: Transcriptional activator which is required for calcium-dependent dendritic growth and branching in cortical neurons. Recruits CREB-binding protein (CREBBP) to nuclear bodies. Component of the CREST-BRG1 complex, a multiprotein complex that regulates promoter activation by orchestrating a calcium-dependent release of a repressor complex and a recruitment of an activator complex. In resting neurons, transcription of the c-FOS promoter is inhibited by BRG1-dependent recruitment of a phospho-RB1-HDAC1 repressor complex. Upon calcium influx, RB1 is dephosphorylated by calcineurin, which leads to release of the repressor complex. At the same time, there is increased recruitment of CREBBP to the promoter by a CREST-dependent mechanism, which leads to transcriptional activation. The CREST-BRG1 complex also binds to the NR2B promoter, and activity-dependent induction of NR2B expression involves a release of HDAC1 and recruitment of CREBBP (By similarity). {ECO:0000250}.

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 ATG7-ARMC3


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 ATG7-ARMC3


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 ATG7-ARMC3


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 ATG7-ARMC3


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneATG7C0002871Anemia1CTD_human
HgeneATG7C0023380Lethargy1CTD_human
HgeneATG7C0024312Lymphopenia1CTD_human
HgeneATG7C0027540Necrosis1CTD_human
HgeneATG7C0919267ovarian neoplasm1CTD_human
HgeneATG7C1140680Malignant neoplasm of ovary1CTD_human
HgeneATG7C1262477Weight decreased1CTD_human
HgeneATG7C2239176Liver carcinoma1CTD_human