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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:AGO3-ISG20 (FusionGDB2 ID:2917)

Fusion Gene Summary for AGO3-ISG20

check button Fusion gene summary
Fusion gene informationFusion gene name: AGO3-ISG20
Fusion gene ID: 2917
HgeneTgene
Gene symbol

AGO3

ISG20

Gene ID

192669

3669

Gene nameargonaute RISC catalytic component 3interferon stimulated exonuclease gene 20
SynonymsEIF2C3CD25|HEM45
Cytomap

1p34.3

15q26.1

Type of geneprotein-codingprotein-coding
Descriptionprotein argonaute-3argonaute 3, RISC catalytic componenteukaryotic translation initiation factor 2C, 3hAgo3interferon-stimulated gene 20 kDa proteinestrogen-regulated transcript 45 proteininterferon stimulated exonuclease gene 20kDapromyelocytic leukemia nuclear body-associated protein ISG20
Modification date2020031320200313
UniProtAcc

Q9H9G7

Q9H9L3

Ensembl transtripts involved in fusion geneENST00000246314, ENST00000373191, 
ENST00000324350, ENST00000397828, 
ENST00000471099, 		ENST00000306072, 
ENST00000379224, ENST00000560741, 
ENST00000560746, 
Fusion gene scores* DoF score4 X 4 X 3=483 X 3 X 2=18
# samples 43
** MAII scorelog2(4/48*10)=-0.263034405833794
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(3/18*10)=0.736965594166206
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
Context

PubMed: AGO3 [Title/Abstract] AND ISG20 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointAGO3(36475195)-ISG20(89182574), # 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
HgeneAGO3

GO:0006402

mRNA catabolic process

18771919

HgeneAGO3

GO:0010501

RNA secondary structure unwinding

19966796

HgeneAGO3

GO:0031054

pre-miRNA processing

19966796

HgeneAGO3

GO:0035278

miRNA mediated inhibition of translation

18771919

HgeneAGO3

GO:0035279

mRNA cleavage involved in gene silencing by miRNA

15260970

HgeneAGO3

GO:0035280

miRNA loading onto RISC involved in gene silencing by miRNA

19966796

HgeneAGO3

GO:0090625

mRNA cleavage involved in gene silencing by siRNA

15260970

TgeneISG20

GO:0000738

DNA catabolic process, exonucleolytic

11401564

TgeneISG20

GO:0006401

RNA catabolic process

11401564

TgeneISG20

GO:0009615

response to virus

12594219


check buttonFusion gene breakpoints across AGO3 (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 ISG20 (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
ChimerDB4SARCTCGA-DX-A8BG-01AAGO3chr1

36475195

+ISG20chr15

89182574

+


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Fusion Gene ORF analysis for AGO3-ISG20

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-5UTRENST00000246314ENST00000306072AGO3chr1

36475195

+ISG20chr15

89182574

+
5CDS-5UTRENST00000246314ENST00000379224AGO3chr1

36475195

+ISG20chr15

89182574

+
5CDS-5UTRENST00000246314ENST00000560741AGO3chr1

36475195

+ISG20chr15

89182574

+
5CDS-5UTRENST00000373191ENST00000306072AGO3chr1

36475195

+ISG20chr15

89182574

+
5CDS-5UTRENST00000373191ENST00000379224AGO3chr1

36475195

+ISG20chr15

89182574

+
5CDS-5UTRENST00000373191ENST00000560741AGO3chr1

36475195

+ISG20chr15

89182574

+
5CDS-intronENST00000246314ENST00000560746AGO3chr1

36475195

+ISG20chr15

89182574

+
5CDS-intronENST00000373191ENST00000560746AGO3chr1

36475195

+ISG20chr15

89182574

+
intron-5UTRENST00000324350ENST00000306072AGO3chr1

36475195

+ISG20chr15

89182574

+
intron-5UTRENST00000324350ENST00000379224AGO3chr1

36475195

+ISG20chr15

89182574

+
intron-5UTRENST00000324350ENST00000560741AGO3chr1

36475195

+ISG20chr15

89182574

+
intron-5UTRENST00000397828ENST00000306072AGO3chr1

36475195

+ISG20chr15

89182574

+
intron-5UTRENST00000397828ENST00000379224AGO3chr1

36475195

+ISG20chr15

89182574

+
intron-5UTRENST00000397828ENST00000560741AGO3chr1

36475195

+ISG20chr15

89182574

+
intron-5UTRENST00000471099ENST00000306072AGO3chr1

36475195

+ISG20chr15

89182574

+
intron-5UTRENST00000471099ENST00000379224AGO3chr1

36475195

+ISG20chr15

89182574

+
intron-5UTRENST00000471099ENST00000560741AGO3chr1

36475195

+ISG20chr15

89182574

+
intron-intronENST00000324350ENST00000560746AGO3chr1

36475195

+ISG20chr15

89182574

+
intron-intronENST00000397828ENST00000560746AGO3chr1

36475195

+ISG20chr15

89182574

+
intron-intronENST00000471099ENST00000560746AGO3chr1

36475195

+ISG20chr15

89182574

+

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 AGO3-ISG20


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)
AGO3chr136475195+ISG20chr1589182573+1.93E-070.99999976
AGO3chr136475195+ISG20chr1589182573+1.93E-070.99999976

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 AGO3-ISG20


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/:36475195/:89182574)
- 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
AGO3

Q9H9G7

ISG20

Q9H9L3

FUNCTION: Required for RNA-mediated gene silencing (RNAi). Binds to short RNAs such as microRNAs (miRNAs) and represses the translation of mRNAs which are complementary to them. Proposed to be involved in stabilization of small RNA derivates (siRNA) derived from processed RNA polymerase III-transcribed Alu repeats containing a DR2 retinoic acid response element (RARE) in stem cells and in the subsequent siRNA-dependent degradation of a subset of RNA polymerase II-transcribed coding mRNAs by recruiting a mRNA decapping complex involving EDC4. Possesses RNA slicer activity but only on select RNAs bearing 5'- and 3'-flanking sequences to the region of guide-target complementarity (PubMed:29040713). {ECO:0000255|HAMAP-Rule:MF_03032, ECO:0000269|PubMed:18771919, ECO:0000269|PubMed:23064648, ECO:0000269|PubMed:29040713}.FUNCTION: 3'-> 5'-exoribonuclease involved in ribosome biogenesis in the processing of the 12S pre-rRNA. Displays a strong specificity for a 3'-end containing a free hydroxyl group. {ECO:0000269|PubMed:18065403}.

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 AGO3-ISG20


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 AGO3-ISG20


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 AGO3-ISG20


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 AGO3-ISG20


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