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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:AGMO-MEOX2 (FusionGDB2 ID:3006)

Fusion Gene Summary for AGMO-MEOX2

Fusion gene summary

Fusion gene information	Fusion gene name: AGMO-MEOX2
	Fusion gene ID: 3006
		Hgene	Tgene
	Gene symbol	AGMO	MEOX2
	Gene ID	392636	4223
	Gene name	alkylglycerol monooxygenase	mesenchyme homeobox 2
	Synonyms	TMEM195	GAX\|MOX2
	Cytomap	7p21.2	7p21.2
	Type of gene	protein-coding	protein-coding
	Description	alkylglycerol monooxygenaseglyceryl-ether monooxygenasetransmembrane protein 195	homeobox protein MOX-2growth arrest-specific homeobox
	Modification date	20200313	20200313
	UniProtAcc	Q6ZNB7	.
	Ensembl transtripts involved in fusion gene	ENST00000342526, ENST00000498264,	ENST00000262041,
Fusion gene scores	* DoF score	5 X 6 X 5=150	5 X 4 X 5=100
	# samples	6	6
	** MAII score	log2(6/150*10)=-1.32192809488736 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0	log2(6/100*10)=-0.736965594166206 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0
Context	PubMed: AGMO [Title/Abstract] AND MEOX2 [Title/Abstract] AND fusion [Title/Abstract]
Most frequent breakpoint	AGMO(15584397)-MEOX2(15666543), # samples:3
Anticipated loss of major functional domain due to fusion event.	AGMO-MEOX2 seems lost the major protein functional domain in Tgene partner, which is a transcription factor 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)

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
Hgene	AGMO	GO:0006643	membrane lipid metabolic process	20643956
Hgene	AGMO	GO:0046485	ether lipid metabolic process	20643956
Tgene	MEOX2	GO:0045944	positive regulation of transcription by RNA polymerase II	17074759

Fusion gene breakpoints across AGMO (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 MEOX2 (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	CESC	TCGA-VS-A9UZ	AGMO	chr7	15584397	-	MEOX2	chr7	15666543	-
ChimerDB4	LIHC	TCGA-2Y-A9H4-01A	AGMO	chr7	15433738	-	MEOX2	chr7	15666543	-
ChimerDB4	SKCM	TCGA-D3-A8GE-06A	AGMO	chr7	15584397	-	MEOX2	chr7	15666543	-
ChimerDB4	LIHC	TCGA-2Y-A9H4-01A	AGMO	chr7	15433738	-	MEOX2	chr7	15666543	-
ChimerDB4	CESC	TCGA-VS-A9UZ-01A	AGMO	chr7	15584397	-	MEOX2	chr7	15666543	-

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Fusion Gene ORF analysis for AGMO-MEOX2

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
In-frame	ENST00000342526	ENST00000262041	AGMO	chr7	15584397	-	MEOX2	chr7	15666543	-
intron-3CDS	ENST00000498264	ENST00000262041	AGMO	chr7	15584397	-	MEOX2	chr7	15666543	-
In-frame	ENST00000342526	ENST00000262041	AGMO	chr7	15433738	-	MEOX2	chr7	15666543	-
Frame-shift	ENST00000498264	ENST00000262041	AGMO	chr7	15433738	-	MEOX2	chr7	15666543	-

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)

ENST00000342526

AGMO

chr7

15433738

ENST00000262041

MEOX2

chr7

15666543

2419

846

1243

386

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
ENST00000342526	ENST00000262041	AGMO	chr7	15433738	-	MEOX2	chr7	15666543	-	0.000780995	0.99921894

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Fusion Genomic Features for AGMO-MEOX2

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)

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 AGMO-MEOX2

Go to
FGviewer for the breakpoints of chr7:15584397-chr7:15666543
.
- FGviewer provides the online visualization of the retention search of the protein functional features across DNA, RNA, protein, and pathological levels.

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

Hgene	Tgene
AGMO Q6ZNB7	.
FUNCTION: Glyceryl-ether monooxygenase that cleaves the O-alkyl bond of ether lipids. Ether lipids are essential components of brain membranes. {ECO:0000269\|PubMed:20643956}.	FUNCTION: Might normally function as a transcriptional repressor. EWS-fusion-proteins (EFPS) may play a role in the tumorigenic process. They may disturb gene expression by mimicking, or interfering with the normal function of CTD-POLII within the transcription initiation complex. They may also contribute to an aberrant activation of the fusion protein target genes.

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

Hgene

AGMO

chr7:15433738

chr7:15666543

ENST00000342526

132_136

225.33333333333334

446.0

Motif

Note=Histidine box-1

Hgene

AGMO

chr7:15433738

chr7:15666543

ENST00000342526

145_149

225.33333333333334

446.0

Motif

Note=Histidine box-2

Hgene

AGMO

chr7:15433738

chr7:15666543

ENST00000342526

221_225

225.33333333333334

446.0

Motif

Note=Histidine box-3

Hgene

AGMO

chr7:15584397

chr7:15666543

ENST00000342526

132_136

136.33333333333334

446.0

Motif

Note=Histidine box-1

Hgene

AGMO

chr7:15433738

chr7:15666543

ENST00000342526

111_131

225.33333333333334

446.0

Transmembrane

Helical

Hgene

AGMO

chr7:15433738

chr7:15666543

ENST00000342526

43_63

225.33333333333334

446.0

Transmembrane

Helical

Hgene

AGMO

chr7:15584397

chr7:15666543

ENST00000342526

111_131

136.33333333333334

446.0

Transmembrane

Helical

Hgene

AGMO

chr7:15584397

chr7:15666543

ENST00000342526

43_63

136.33333333333334

446.0

Transmembrane

Helical

Tgene

MEOX2

chr7:15433738

chr7:15666543

ENST00000262041

187_246

172.33333333333334

305.0

DNA binding

Homeobox

Tgene

MEOX2

chr7:15584397

chr7:15666543

ENST00000262041

187_246

172.33333333333334

305.0

DNA binding

Homeobox

- 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

Hgene

AGMO

chr7:15433738

chr7:15666543

ENST00000342526

120_249

225.33333333333334

446.0

Domain

Fatty acid hydroxylase

Hgene

AGMO

chr7:15584397

chr7:15666543

ENST00000342526

120_249

136.33333333333334

446.0

Domain

Fatty acid hydroxylase

Hgene

AGMO

chr7:15584397

chr7:15666543

ENST00000342526

145_149

136.33333333333334

446.0

Motif

Note=Histidine box-2

Hgene

AGMO

chr7:15584397

chr7:15666543

ENST00000342526

221_225

136.33333333333334

446.0

Motif

Note=Histidine box-3

Hgene

AGMO

chr7:15433738

chr7:15666543

ENST00000342526

334_354

225.33333333333334

446.0

Transmembrane

Helical

Hgene

AGMO

chr7:15433738

chr7:15666543

ENST00000342526

363_383

225.33333333333334

446.0

Transmembrane

Helical

Hgene

AGMO

chr7:15433738

chr7:15666543

ENST00000342526

413_433

225.33333333333334

446.0

Transmembrane

Helical

Hgene

AGMO

chr7:15584397

chr7:15666543

ENST00000342526

334_354

136.33333333333334

446.0

Transmembrane

Helical

Hgene

AGMO

chr7:15584397

chr7:15666543

ENST00000342526

363_383

136.33333333333334

446.0

Transmembrane

Helical

Hgene

AGMO

chr7:15584397

chr7:15666543

ENST00000342526

413_433

136.33333333333334

446.0

Transmembrane

Helical

Tgene

MEOX2

chr7:15433738

chr7:15666543

ENST00000262041

42_47

172.33333333333334

305.0

Compositional bias

Note=Poly-Ser

Tgene

MEOX2

chr7:15433738

chr7:15666543

ENST00000262041

68_80

172.33333333333334

305.0

Compositional bias

Note=Poly-His

Tgene

MEOX2

chr7:15433738

chr7:15666543

ENST00000262041

81_86

172.33333333333334

305.0

Compositional bias

Note=Poly-Gln

Tgene

MEOX2

chr7:15584397

chr7:15666543

ENST00000262041

42_47

172.33333333333334

305.0

Compositional bias

Note=Poly-Ser

Tgene

MEOX2

chr7:15584397

chr7:15666543

ENST00000262041

68_80

172.33333333333334

305.0

Compositional bias

Note=Poly-His

Tgene

MEOX2

chr7:15584397

chr7:15666543

ENST00000262041

81_86

172.33333333333334

305.0

Compositional bias

Note=Poly-Gln

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Fusion Gene Sequence for AGMO-MEOX2

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.

>In-frame_ENST00000342526_ENST00000262041_TCGA-2Y-A9H4-01A_AGMO_chr7_15433738_-_MEOX2_chr7_15666543_length(transcript)=2419nt_BP=846nt
CTCTCTACACAGAATCGGCTGTTGAGTGTGCTCTCAGTGGAGCTTTGGTTTTAGCTGTTCTCTGACAAAGAGCTTGTTCTGAGCTGCACA
TCTCGTCCTCTTTGTTCAGCCTCAGGCTTCAAGCATTGAATCCTAAATATTCTCCAGCTGGGAATCAGACAAGGGCAGAAATGAAGAACC
CAGAAGCCCAGCAGGATGTTTCAGTTTCCCAGGGATTTCGCATGTTGTTTTACACGATGAAACCCAGTGAAACTTCATTCCAAACATTAG
AAGAGGTGCCTGATTATGTAAAAAAGGCAACTCCATTTTTCATTTCTTTGATGCTGCTTGAACTTGTTGTCAGCTGGATTCTCAAAGGAA
AGCCACCAGGTCGCCTGGATGATGCTTTAACGTCAATCTCAGCTGGTGTTCTGTCTCGACTTCCAAGTCTATTTTTCAGGAGCATTGAAC
TGACCAGTTATATTTATATCTGGGAGAACTACAGGCTGTTCAATTTGCCTTGGGATTCTCCATGGACTTGGTATTCAGCCTTCTTAGGAG
TTGACTTTGGCTACTACTGGTTCCATCGTATGGCTCATGAAGTTAATATTATGTGGGCCGGACACCAAACACATCATAGTTCTGAAGACT
ATAACTTATCCACAGCACTGAGACAGTCTGTCCTCCAGATATATACTTCCTGGATTTTCTACTCTCCCCTGGCCCTCTTCATACCCCCTT
CAGTATATGCTGTTCATCTTCAATTCAATCTTCTTTACCAATTTTGGATCCATACAGAGGTCATCAATAACCTTGGTCCTTTGGAACTGA
TTCTTAATACTCCTAGCCATCATAGGGTTCATCATGACTCCCAGGAAGGAAATTACAAGTCAGAAGTCAACAGCAAACCCAGGAAAGAAA
GGACAGCATTTACCAAAGAGCAAATCAGAGAACTTGAAGCAGAATTTGCCCATCATAATTATCTCACCAGACTGAGGCGATACGAGATAG
CAGTGAATCTGGATCTCACTGAAAGACAGGTGAAAGTCTGGTTCCAAAACAGGCGGATGAAGTGGAAGAGGGTAAAGGGTGGACAGCAAG
GAGCTGCGGCTCGGGAAAAGGAACTGGTGAATGTGAAAAAGGGAACACTTCTCCCATCAGAGCTGTCGGGAATTGGTGCAGCCACCCTCC
AGCAAACAGGGGACTCTATAGCAAATGAAGACAGTCACGACAGTGACCACAGCTCAGAGCATGCGCACTTATGATATAAACAGAGGACCA
GCTCCATTCTCAGGAAAGAAATGTTGTGATGGCAAGCCTTACCCAAATATCGTTTACACAGAGAGATGACTATGGCAGTGATGTTTAATA
TTATTAAATCCAGGCATTTCGAATCTGTTTTTCATGATTTATAGAGGGTTTACACAAAGTGCCACTTATTAAAGAGCTTCCACAGTGAAG
ATGGAGAAGGTGAACTTGCTTTGAATATTCCAGATGTGTTTGGTCGTGCGTATGGCAGTGAGCAGGTATGTGTTTGCTTTTGCTTGCACT
GAAAATTAAATTGCTATCAAGAGCAAACTATGAACGGTTTTTTATTCAAGATGTCTCCAGAGTGAAGATGCCGAGGATGAACTTGCATTG
AACATTCCAGATGTGTGAGATCATGTGTATTACAGTGGGCAGGTATTTGCTTTTGCTTGCACTGAAAATTAAATTGCTATCAAGAATAAA
CCATGAAACATTTTATCCTGAACAGCCACAGTGCCTGAATTCACTCAAGTGGATAAAAAGTGTATTTTAACTCTGTATATATTACCCTTA
AGTCATTTTCCTGTCTTCACTAATTTAGCAATGCATTCATATTAGCTGATGAAAATAGGCACTCACAATGACAACCAGAGCCAGTTTCTT
GTCTTTTTTATACATTTTGTCATCCCAGAGACAATCAGTATGTGCTTACCTGTGTTCAAGTAGAGAAAAATACAGTAGAGTCTGATAGGA
CATATTCTTGTACCACAGACAAAACAAATCTTATGTTGCATTTACTATCAACTGCTGCTAATACGTTATTATAAAACTTACCTAGCTCCT
GAATTCTTCCTATCTTATAGCTTAAAACAATTAGGATCATAGGCAAATCAGTTACCTTGCAGAAAGAGCTTTGTATGACAGACATTGTCT
TATTTTATTTCTGTAAAATATTAGCTGTATGAATATGATTTAATTAACAAGAAAACATTTCTTCCTGATTGACAACAGTGTTAGACAAGG
TGCAAAGCGAAACTGGTTGCTCAAGTTGATAGAAAACAAAATTCTGAATATCTTCAAATTAAATTCGGTAAAAACACATTATTTTTTCAT

>In-frame_ENST00000342526_ENST00000262041_TCGA-2Y-A9H4-01A_AGMO_chr7_15433738_-_MEOX2_chr7_15666543_length(amino acids)=386AA_start in transcript=83_stop in transcript=1243
MHISSSLFSLRLQALNPKYSPAGNQTRAEMKNPEAQQDVSVSQGFRMLFYTMKPSETSFQTLEEVPDYVKKATPFFISLMLLELVVSWIL
KGKPPGRLDDALTSISAGVLSRLPSLFFRSIELTSYIYIWENYRLFNLPWDSPWTWYSAFLGVDFGYYWFHRMAHEVNIMWAGHQTHHSS
EDYNLSTALRQSVLQIYTSWIFYSPLALFIPPSVYAVHLQFNLLYQFWIHTEVINNLGPLELILNTPSHHRVHHDSQEGNYKSEVNSKPR
KERTAFTKEQIRELEAEFAHHNYLTRLRRYEIAVNLDLTERQVKVWFQNRRMKWKRVKGGQQGAAAREKELVNVKKGTLLPSELSGIGAA

--------------------------------------------------------------

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Fusion Gene PPI Analysis for AGMO-MEOX2

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 AGMO-MEOX2

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 AGMO-MEOX2

Diseases associated with fusion partners.
(DisGeNet 4.0)

Partner	Gene	Disease ID	Disease name	# pubmeds	Source
Hgene	AGMO	C0014544	Epilepsy	2	GENOMICS_ENGLAND
Hgene	AGMO	C0025958	Microcephaly	2	GENOMICS_ENGLAND
Hgene	AGMO	C3714756	Intellectual Disability	2	GENOMICS_ENGLAND
Tgene	MEOX2	C0023893	Liver Cirrhosis, Experimental	1	CTD_human
Tgene	MEOX2	C0151744	Myocardial Ischemia	1	CTD_human