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	Fusion Gene Summary
	Fusion Gene ORF analysis
	Fusion Genomic Features
	Fusion Protein Features
	Fusion Gene Sequence
	Fusion Gene PPI analysis
	Related Drugs
	Related Diseases

Fusion gene:AGPAT3-AGO3 (FusionGDB2 ID:2928)

Fusion Gene Summary for AGPAT3-AGO3

Fusion gene summary

Fusion gene information	Fusion gene name: AGPAT3-AGO3
	Fusion gene ID: 2928
		Hgene	Tgene
	Gene symbol	AGPAT3	AGO3
	Gene ID	56894	192669
	Gene name	1-acylglycerol-3-phosphate O-acyltransferase 3	argonaute RISC catalytic component 3
	Synonyms	1-AGPAT 3\|LPAAT-GAMMA1\|LPAAT3	EIF2C3
	Cytomap	21q22.3	1p34.3
	Type of gene	protein-coding	protein-coding
	Description	1-acyl-sn-glycerol-3-phosphate acyltransferase gamma1-AGP acyltransferase 3lysophosphatidic acid acyltransferase gammalysophosphatidic acid acyltransferase-gamma1	protein argonaute-3argonaute 3, RISC catalytic componenteukaryotic translation initiation factor 2C, 3hAgo3
	Modification date	20200313	20200313
	UniProtAcc	Q9NRZ7	Q9H9G7
	Ensembl transtripts involved in fusion gene	ENST00000291572, ENST00000327505, ENST00000398058, ENST00000398061, ENST00000398063, ENST00000479117, ENST00000546158,	ENST00000246314, ENST00000324350, ENST00000373191, ENST00000397828, ENST00000471099,
Fusion gene scores	* DoF score	24 X 11 X 11=2904	10 X 6 X 9=540
	# samples	29	11
	** MAII score	log2(29/2904*10)=-3.32391664798082 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0	log2(11/540*10)=-2.29545588352617 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0
Context	PubMed: AGPAT3 [Title/Abstract] AND AGO3 [Title/Abstract] AND fusion [Title/Abstract]
Most frequent breakpoint	AGPAT3(45285226)-AGO3(36492715), # samples:2
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)

Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez

Partner	Gene	GO ID	GO term	PubMed ID
Tgene	AGO3	GO:0006402	mRNA catabolic process	18771919
Tgene	AGO3	GO:0010501	RNA secondary structure unwinding	19966796
Tgene	AGO3	GO:0031054	pre-miRNA processing	19966796
Tgene	AGO3	GO:0035278	miRNA mediated inhibition of translation	18771919
Tgene	AGO3	GO:0035279	mRNA cleavage involved in gene silencing by miRNA	15260970
Tgene	AGO3	GO:0035280	miRNA loading onto RISC involved in gene silencing by miRNA	19966796
Tgene	AGO3	GO:0090625	mRNA cleavage involved in gene silencing by siRNA	15260970

Fusion gene breakpoints across AGPAT3 (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

Fusion gene breakpoints across AGO3 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

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.

Source	Disease	Sample	Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand
ChimerDB4	OV	TCGA-20-0987-01A	AGPAT3	chr21	45285226	+	AGO3	chr1	36492715	+

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Fusion Gene ORF analysis for AGPAT3-AGO3

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.

ORF	Henst	Tenst	Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand
5UTR-intron	ENST00000291572	ENST00000246314	AGPAT3	chr21	45285226	+	AGO3	chr1	36492715	+
5UTR-intron	ENST00000291572	ENST00000324350	AGPAT3	chr21	45285226	+	AGO3	chr1	36492715	+
5UTR-intron	ENST00000291572	ENST00000373191	AGPAT3	chr21	45285226	+	AGO3	chr1	36492715	+
5UTR-intron	ENST00000291572	ENST00000397828	AGPAT3	chr21	45285226	+	AGO3	chr1	36492715	+
5UTR-intron	ENST00000291572	ENST00000471099	AGPAT3	chr21	45285226	+	AGO3	chr1	36492715	+
intron-intron	ENST00000327505	ENST00000246314	AGPAT3	chr21	45285226	+	AGO3	chr1	36492715	+
intron-intron	ENST00000327505	ENST00000324350	AGPAT3	chr21	45285226	+	AGO3	chr1	36492715	+
intron-intron	ENST00000327505	ENST00000373191	AGPAT3	chr21	45285226	+	AGO3	chr1	36492715	+
intron-intron	ENST00000327505	ENST00000397828	AGPAT3	chr21	45285226	+	AGO3	chr1	36492715	+
intron-intron	ENST00000327505	ENST00000471099	AGPAT3	chr21	45285226	+	AGO3	chr1	36492715	+
intron-intron	ENST00000398058	ENST00000246314	AGPAT3	chr21	45285226	+	AGO3	chr1	36492715	+
intron-intron	ENST00000398058	ENST00000324350	AGPAT3	chr21	45285226	+	AGO3	chr1	36492715	+
intron-intron	ENST00000398058	ENST00000373191	AGPAT3	chr21	45285226	+	AGO3	chr1	36492715	+
intron-intron	ENST00000398058	ENST00000397828	AGPAT3	chr21	45285226	+	AGO3	chr1	36492715	+
intron-intron	ENST00000398058	ENST00000471099	AGPAT3	chr21	45285226	+	AGO3	chr1	36492715	+
intron-intron	ENST00000398061	ENST00000246314	AGPAT3	chr21	45285226	+	AGO3	chr1	36492715	+
intron-intron	ENST00000398061	ENST00000324350	AGPAT3	chr21	45285226	+	AGO3	chr1	36492715	+
intron-intron	ENST00000398061	ENST00000373191	AGPAT3	chr21	45285226	+	AGO3	chr1	36492715	+
intron-intron	ENST00000398061	ENST00000397828	AGPAT3	chr21	45285226	+	AGO3	chr1	36492715	+
intron-intron	ENST00000398061	ENST00000471099	AGPAT3	chr21	45285226	+	AGO3	chr1	36492715	+
intron-intron	ENST00000398063	ENST00000246314	AGPAT3	chr21	45285226	+	AGO3	chr1	36492715	+
intron-intron	ENST00000398063	ENST00000324350	AGPAT3	chr21	45285226	+	AGO3	chr1	36492715	+
intron-intron	ENST00000398063	ENST00000373191	AGPAT3	chr21	45285226	+	AGO3	chr1	36492715	+
intron-intron	ENST00000398063	ENST00000397828	AGPAT3	chr21	45285226	+	AGO3	chr1	36492715	+
intron-intron	ENST00000398063	ENST00000471099	AGPAT3	chr21	45285226	+	AGO3	chr1	36492715	+
intron-intron	ENST00000479117	ENST00000246314	AGPAT3	chr21	45285226	+	AGO3	chr1	36492715	+
intron-intron	ENST00000479117	ENST00000324350	AGPAT3	chr21	45285226	+	AGO3	chr1	36492715	+
intron-intron	ENST00000479117	ENST00000373191	AGPAT3	chr21	45285226	+	AGO3	chr1	36492715	+
intron-intron	ENST00000479117	ENST00000397828	AGPAT3	chr21	45285226	+	AGO3	chr1	36492715	+
intron-intron	ENST00000479117	ENST00000471099	AGPAT3	chr21	45285226	+	AGO3	chr1	36492715	+
intron-intron	ENST00000546158	ENST00000246314	AGPAT3	chr21	45285226	+	AGO3	chr1	36492715	+
intron-intron	ENST00000546158	ENST00000324350	AGPAT3	chr21	45285226	+	AGO3	chr1	36492715	+
intron-intron	ENST00000546158	ENST00000373191	AGPAT3	chr21	45285226	+	AGO3	chr1	36492715	+
intron-intron	ENST00000546158	ENST00000397828	AGPAT3	chr21	45285226	+	AGO3	chr1	36492715	+
intron-intron	ENST00000546158	ENST00000471099	AGPAT3	chr21	45285226	+	AGO3	chr1	36492715	+

ORFfinder result based on the fusion transcript sequence of in-frame fusion genes.

Henst

Tenst

Hgene

Hchr

Hbp

Hstrand

Tgene

Tchr

Tbp

Tstrand

Seq length
(transcript)

BP loci
(transcript)

Predicted start
(transcript)

Predicted stop
(transcript)

Seq length
(amino acids)

DeepORF 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.

Henst

Tenst

Hgene

Hchr

Hbp

Hstrand

Tgene

Tchr

Tbp

Tstrand

No-coding score

Coding score

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Fusion Genomic Features for AGPAT3-AGO3

FusionAI 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.

Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand	1-p	p (fusion gene breakpoint)
AGPAT3	chr21	45285226	+	AGO3	chr1	36492714	+	1.52E-07	0.9999999
AGPAT3	chr21	45285226	+	AGO3	chr1	36492714	+	1.52E-07	0.9999999

Distribution 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.

Distribution 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 AGPAT3-AGO3

Four levels of functional features of fusion genes
Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/:45285226/:36492715)
- 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.

Main function of each fusion partner protein. (from UniProt)

Hgene	Tgene
AGPAT3 Q9NRZ7	AGO3 Q9H9G7
FUNCTION: Converts 1-acyl-sn-glycerol-3-phosphate (lysophosphatidic acid or LPA) into 1,2-diacyl-sn-glycerol-3-phosphate (phosphatidic acid or PA) by incorporating an acyl moiety at the sn-2 position of the glycerol backbone (PubMed:21173190). Acts on LPA containing saturated or unsaturated fatty acids C16:0-C20:4 at the sn-1 position using C18:1, C20:4 or C18:2-CoA as the acyl donor (PubMed:21173190). Also acts on lysophosphatidylcholine, lysophosphatidylinositol and lysophosphatidylserine using C18:1 or C20:4-CoA (PubMed:21173190). Has a preference for arachidonoyl-CoA as a donor (By similarity). Has also a modest lysophosphatidylinositol acyltransferase (LPIAT) activity, converts lysophosphatidylinositol (LPI) into phosphatidylinositol (By similarity). {ECO:0000250\|UniProtKB:Q9D517, ECO:0000269\|PubMed:21173190}.	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}.

Retention 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.

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Protein feature

Protein feature note

- In-frame and not-retained protein feature among the 13 regional features.

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Protein feature

Protein feature note

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Fusion Gene Sequence for AGPAT3-AGO3

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 AGPAT3-AGO3

Go to ChiPPI (Chimeric Protein-Protein interactions) to see the chimeric PPI interaction in
ChiPPI page.

Protein-protein interactors with each fusion partner protein in wild-type (BIOGRID-3.4.160)

Hgene

Hgene's interactors

Tgene

Tgene's interactors

- Retained PPIs in in-frame fusion.

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Still interaction with

- Lost PPIs in in-frame fusion.

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Interaction lost with

- Retained PPIs, but lost function due to frame-shift fusion.

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Interaction lost with

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Related Drugs for AGPAT3-AGO3

Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.8 2021-05-08)

Partner

Gene

UniProtAcc

DrugBank ID

Drug name

Drug activity

Drug type

Drug status

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Related Diseases for AGPAT3-AGO3

Diseases associated with fusion partners.
(DisGeNet 4.0)

Partner

Gene

Disease ID

Disease name

# pubmeds

Source