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	Fusion Gene Summary
	Fusion Gene Sample Information
	Fusion ORF Analysis
	Fusion Amino Acid Sequences
	Fusion Protein Functional Features
	Fusion Protein-Protein Interaction
	Related drugs with this fusion protein
	Related disease with this fusion protein

Fusion Protein:ATG13-MTCH2

Fusion Protein Summary

Fusion gene summary

Fusion partner gene information	Fusion gene name: ATG13-MTCH2
	FusionPDB ID: 7523
	FusionGDB2.0 ID: 7523
		Hgene	Tgene
	Gene symbol	ATG13	MTCH2
	Gene ID	9776	23788
	Gene name	autophagy related 13	mitochondrial carrier 2
	Synonyms	KIAA0652\|PARATARG8	HSPC032\|MIMP\|SLC25A50
	Cytomap	11p11.2	11p11.2
	Type of gene	protein-coding	protein-coding
	Description	autophagy-related protein 13ATG13 autophagy related 13 homolog	mitochondrial carrier homolog 22310034D24Rikmet-induced mitochondrial proteinsolute carrier family 25, member 50
	Modification date	20200327	20200313
	UniProtAcc	O75143	Q9Y6C9
Ensembl transtripts involved in fusion gene	ENST ids	ENST00000312040, ENST00000359513, ENST00000434074, ENST00000451945, ENST00000524625, ENST00000526508, ENST00000528494, ENST00000529655, ENST00000530500, ENST00000526485,	ENST00000542981, ENST00000534074, ENST00000302503,
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)	* DoF score	11 X 10 X 5=550	6 X 8 X 5=240
	# samples	14	9
	** MAII score	log2(14/550*10)=-1.97400479146706 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0	log2(9/240*10)=-1.41503749927884 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0
Context (manual curation of fusion genes in FusionPDB)	PubMed: ATG13 [Title/Abstract] AND MTCH2 [Title/Abstract] AND fusion [Title/Abstract]
Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)	ATG13(46667539)-MTCH2(47656286), # samples:1
Anticipated loss of major functional domain due to fusion event.	ATG13-MTCH2 seems lost the major protein functional domain in Hgene partner, which is a CGC by not retaining the major functional domain in the partially deleted in-frame ORF. ATG13-MTCH2 seems lost the major protein functional domain in Hgene partner, which is a CGC by not retaining the major functional domain in the partially deleted in-frame ORF. ATG13-MTCH2 seems lost the major protein functional domain in Hgene partner, which is a essential gene by not retaining the major functional domain in the partially deleted in-frame ORF. ATG13-MTCH2 seems lost the major protein functional domain in Hgene partner, which is a essential gene by not retaining the major functional domain in the partially deleted in-frame 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

Fusion gene breakpoints across ATG13 (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 MTCH2 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

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Fusion Gene Sample Information

Fusion gene information from FusionGDB2.0.

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	STAD	TCGA-CD-8531	ATG13	chr11	46667539	+	MTCH2	chr11	47656286	-

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Fusion ORF Analysis

Fusion information from ORFfinder translation from full-length transcript sequence from FusionPDB.

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)
ENST00000434074	ATG13	chr11	46667539	+	ENST00000302503	MTCH2	chr11	47656286	-	3082	959	689	1564	291
ENST00000312040	ATG13	chr11	46667539	+	ENST00000302503	MTCH2	chr11	47656286	-	3077	954	684	1559	291
ENST00000451945	ATG13	chr11	46667539	+	ENST00000302503	MTCH2	chr11	47656286	-	3082	959	689	1564	291
ENST00000529655	ATG13	chr11	46667539	+	ENST00000302503	MTCH2	chr11	47656286	-	2807	684	414	1289	291
ENST00000530500	ATG13	chr11	46667539	+	ENST00000302503	MTCH2	chr11	47656286	-	2652	529	463	1134	223
ENST00000526508	ATG13	chr11	46667539	+	ENST00000302503	MTCH2	chr11	47656286	-	2850	727	457	1332	291
ENST00000524625	ATG13	chr11	46667539	+	ENST00000302503	MTCH2	chr11	47656286	-	2776	653	383	1258	291
ENST00000359513	ATG13	chr11	46667539	+	ENST00000302503	MTCH2	chr11	47656286	-	2701	578	308	1183	291
ENST00000528494	ATG13	chr11	46667539	+	ENST00000302503	MTCH2	chr11	47656286	-	2697	574	304	1179	291

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
ENST00000434074	ENST00000302503	ATG13	chr11	46667539	+	MTCH2	chr11	47656286	-	0.000814901	0.99918514
ENST00000312040	ENST00000302503	ATG13	chr11	46667539	+	MTCH2	chr11	47656286	-	0.000820135	0.9991799
ENST00000451945	ENST00000302503	ATG13	chr11	46667539	+	MTCH2	chr11	47656286	-	0.000814901	0.99918514
ENST00000529655	ENST00000302503	ATG13	chr11	46667539	+	MTCH2	chr11	47656286	-	0.000627065	0.9993729
ENST00000530500	ENST00000302503	ATG13	chr11	46667539	+	MTCH2	chr11	47656286	-	0.005225001	0.99477494
ENST00000526508	ENST00000302503	ATG13	chr11	46667539	+	MTCH2	chr11	47656286	-	0.000605728	0.9993943
ENST00000524625	ENST00000302503	ATG13	chr11	46667539	+	MTCH2	chr11	47656286	-	0.000667675	0.99933225
ENST00000359513	ENST00000302503	ATG13	chr11	46667539	+	MTCH2	chr11	47656286	-	0.00069677	0.9993032
ENST00000528494	ENST00000302503	ATG13	chr11	46667539	+	MTCH2	chr11	47656286	-	0.000684174	0.99931586

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Fusion Amino Acid Sequences

For individual full-length fusion transcript sequence from FusionPDB, we ran ORFfinder and chose the longest ORF among the all predicted ones.

>FusionGDB ID_FusionGDB isoform ID_FGname_Hgene_Hchr_Hbp_Henst_Tgene_Tchr_Tbp_Tenst_length(fusion AA) seq_BP

>7523_7523_1_ATG13-MTCH2_ATG13_chr11_46667539_ENST00000312040_MTCH2_chr11_47656286_ENST00000302503_length(amino acids)=291AA_BP=90
METDLNSQDRKDLDKFIKFFALKTVQVIVQARLGEKICTRSSSSPTGSDWFNLAIKDIPEVTHEAKKALAGQLPAVGRSMCVEISLKTSE
ELGPGNVQKEVSSSFDHVIKETTREMIARSAATLITHPFHVITLRSMVQFIGRESKYCGLCDSIITIYREEGILGFFAGLVPRLLGDILS
LWLCNSLAYLVNTYALDSGVSTMNEMKSYSQAVTGFFASMLTYPFVLVSNLMAVNNCGLAGGCPPYSPIYTSWIDCWCMLQKEGNMSRGN

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

>7523_7523_2_ATG13-MTCH2_ATG13_chr11_46667539_ENST00000359513_MTCH2_chr11_47656286_ENST00000302503_length(amino acids)=291AA_BP=90
METDLNSQDRKDLDKFIKFFALKTVQVIVQARLGEKICTRSSSSPTGSDWFNLAIKDIPEVTHEAKKALAGQLPAVGRSMCVEISLKTSE
ELGPGNVQKEVSSSFDHVIKETTREMIARSAATLITHPFHVITLRSMVQFIGRESKYCGLCDSIITIYREEGILGFFAGLVPRLLGDILS
LWLCNSLAYLVNTYALDSGVSTMNEMKSYSQAVTGFFASMLTYPFVLVSNLMAVNNCGLAGGCPPYSPIYTSWIDCWCMLQKEGNMSRGN

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

>7523_7523_3_ATG13-MTCH2_ATG13_chr11_46667539_ENST00000434074_MTCH2_chr11_47656286_ENST00000302503_length(amino acids)=291AA_BP=90
METDLNSQDRKDLDKFIKFFALKTVQVIVQARLGEKICTRSSSSPTGSDWFNLAIKDIPEVTHEAKKALAGQLPAVGRSMCVEISLKTSE
ELGPGNVQKEVSSSFDHVIKETTREMIARSAATLITHPFHVITLRSMVQFIGRESKYCGLCDSIITIYREEGILGFFAGLVPRLLGDILS
LWLCNSLAYLVNTYALDSGVSTMNEMKSYSQAVTGFFASMLTYPFVLVSNLMAVNNCGLAGGCPPYSPIYTSWIDCWCMLQKEGNMSRGN

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

>7523_7523_4_ATG13-MTCH2_ATG13_chr11_46667539_ENST00000451945_MTCH2_chr11_47656286_ENST00000302503_length(amino acids)=291AA_BP=90
METDLNSQDRKDLDKFIKFFALKTVQVIVQARLGEKICTRSSSSPTGSDWFNLAIKDIPEVTHEAKKALAGQLPAVGRSMCVEISLKTSE
ELGPGNVQKEVSSSFDHVIKETTREMIARSAATLITHPFHVITLRSMVQFIGRESKYCGLCDSIITIYREEGILGFFAGLVPRLLGDILS
LWLCNSLAYLVNTYALDSGVSTMNEMKSYSQAVTGFFASMLTYPFVLVSNLMAVNNCGLAGGCPPYSPIYTSWIDCWCMLQKEGNMSRGN

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

>7523_7523_5_ATG13-MTCH2_ATG13_chr11_46667539_ENST00000524625_MTCH2_chr11_47656286_ENST00000302503_length(amino acids)=291AA_BP=90
METDLNSQDRKDLDKFIKFFALKTVQVIVQARLGEKICTRSSSSPTGSDWFNLAIKDIPEVTHEAKKALAGQLPAVGRSMCVEISLKTSE
ELGPGNVQKEVSSSFDHVIKETTREMIARSAATLITHPFHVITLRSMVQFIGRESKYCGLCDSIITIYREEGILGFFAGLVPRLLGDILS
LWLCNSLAYLVNTYALDSGVSTMNEMKSYSQAVTGFFASMLTYPFVLVSNLMAVNNCGLAGGCPPYSPIYTSWIDCWCMLQKEGNMSRGN

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

>7523_7523_6_ATG13-MTCH2_ATG13_chr11_46667539_ENST00000526508_MTCH2_chr11_47656286_ENST00000302503_length(amino acids)=291AA_BP=90
METDLNSQDRKDLDKFIKFFALKTVQVIVQARLGEKICTRSSSSPTGSDWFNLAIKDIPEVTHEAKKALAGQLPAVGRSMCVEISLKTSE
ELGPGNVQKEVSSSFDHVIKETTREMIARSAATLITHPFHVITLRSMVQFIGRESKYCGLCDSIITIYREEGILGFFAGLVPRLLGDILS
LWLCNSLAYLVNTYALDSGVSTMNEMKSYSQAVTGFFASMLTYPFVLVSNLMAVNNCGLAGGCPPYSPIYTSWIDCWCMLQKEGNMSRGN

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

>7523_7523_7_ATG13-MTCH2_ATG13_chr11_46667539_ENST00000528494_MTCH2_chr11_47656286_ENST00000302503_length(amino acids)=291AA_BP=90
METDLNSQDRKDLDKFIKFFALKTVQVIVQARLGEKICTRSSSSPTGSDWFNLAIKDIPEVTHEAKKALAGQLPAVGRSMCVEISLKTSE
ELGPGNVQKEVSSSFDHVIKETTREMIARSAATLITHPFHVITLRSMVQFIGRESKYCGLCDSIITIYREEGILGFFAGLVPRLLGDILS
LWLCNSLAYLVNTYALDSGVSTMNEMKSYSQAVTGFFASMLTYPFVLVSNLMAVNNCGLAGGCPPYSPIYTSWIDCWCMLQKEGNMSRGN

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

>7523_7523_8_ATG13-MTCH2_ATG13_chr11_46667539_ENST00000529655_MTCH2_chr11_47656286_ENST00000302503_length(amino acids)=291AA_BP=90
METDLNSQDRKDLDKFIKFFALKTVQVIVQARLGEKICTRSSSSPTGSDWFNLAIKDIPEVTHEAKKALAGQLPAVGRSMCVEISLKTSE
ELGPGNVQKEVSSSFDHVIKETTREMIARSAATLITHPFHVITLRSMVQFIGRESKYCGLCDSIITIYREEGILGFFAGLVPRLLGDILS
LWLCNSLAYLVNTYALDSGVSTMNEMKSYSQAVTGFFASMLTYPFVLVSNLMAVNNCGLAGGCPPYSPIYTSWIDCWCMLQKEGNMSRGN

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

>7523_7523_9_ATG13-MTCH2_ATG13_chr11_46667539_ENST00000530500_MTCH2_chr11_47656286_ENST00000302503_length(amino acids)=223AA_BP=22
MAGQLPAVGRSMCVEISLKTSEELGPGNVQKEVSSSFDHVIKETTREMIARSAATLITHPFHVITLRSMVQFIGRESKYCGLCDSIITIY
REEGILGFFAGLVPRLLGDILSLWLCNSLAYLVNTYALDSGVSTMNEMKSYSQAVTGFFASMLTYPFVLVSNLMAVNNCGLAGGCPPYSP

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

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Fusion Protein Functional Features

Four levels of functional features of fusion genes
Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/chr11:46667539/chr11:47656286)
- 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
ATG13 O75143	MTCH2 Q9Y6C9
FUNCTION: Autophagy factor required for autophagosome formation and mitophagy. Target of the TOR kinase signaling pathway that regulates autophagy through the control of the phosphorylation status of ATG13 and ULK1, and the regulation of the ATG13-ULK1-RB1CC1 complex. Through its regulation of ULK1 activity, plays a role in the regulation of the kinase activity of mTORC1 and cell proliferation. {ECO:0000269\|PubMed:18936157, ECO:0000269\|PubMed:19211835, ECO:0000269\|PubMed:19225151, ECO:0000269\|PubMed:19287211, ECO:0000269\|PubMed:21795849, ECO:0000269\|PubMed:21855797}.	FUNCTION: The substrate transported is not yet known. Induces mitochondrial depolarization.

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.

- 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

ATG13

chr11:46667539

chr11:47656286

ENST00000312040

41_44

90.0

518.0

Compositional bias

Note=Poly-Ser

Hgene

ATG13

chr11:46667539

chr11:47656286

ENST00000359513

41_44

90.0

518.0

Compositional bias

Note=Poly-Ser

Hgene

ATG13

chr11:46667539

chr11:47656286

ENST00000434074

41_44

90.0

518.0

Compositional bias

Note=Poly-Ser

Hgene

ATG13

chr11:46667539

chr11:47656286

ENST00000451945

41_44

90.0

481.0

Compositional bias

Note=Poly-Ser

Hgene

ATG13

chr11:46667539

chr11:47656286

ENST00000524625

41_44

90.0

481.0

Compositional bias

Note=Poly-Ser

Hgene

ATG13

chr11:46667539

chr11:47656286

ENST00000526508

41_44

90.0

518.0

Compositional bias

Note=Poly-Ser

Hgene

ATG13

chr11:46667539

chr11:47656286

ENST00000528494

41_44

90.0

551.0

Compositional bias

Note=Poly-Ser

Hgene

ATG13

chr11:46667539

chr11:47656286

ENST00000529655

41_44

90.0

481.0

Compositional bias

Note=Poly-Ser

Tgene

MTCH2

chr11:46667539

chr11:47656286

ENST00000302503

118_206

102.0

304.0

Repeat

Note=Solcar 2

Tgene

MTCH2

chr11:46667539

chr11:47656286

ENST00000302503

175_195

102.0

304.0

Transmembrane

Helical

Tgene

MTCH2

chr11:46667539

chr11:47656286

ENST00000302503

224_244

102.0

304.0

Transmembrane

Helical

- 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

ATG13

chr11:46667539

chr11:47656286

ENST00000530500

41_44

11.0

402.0

Compositional bias

Note=Poly-Ser

Hgene

ATG13

chr11:46667539

chr11:47656286

ENST00000312040

444_447

90.0

518.0

Motif

LIR

Hgene

ATG13

chr11:46667539

chr11:47656286

ENST00000359513

444_447

90.0

518.0

Motif

LIR

Hgene

ATG13

chr11:46667539

chr11:47656286

ENST00000434074

444_447

90.0

518.0

Motif

LIR

Hgene

ATG13

chr11:46667539

chr11:47656286

ENST00000451945

444_447

90.0

481.0

Motif

LIR

Hgene

ATG13

chr11:46667539

chr11:47656286

ENST00000524625

444_447

90.0

481.0

Motif

LIR

Hgene

ATG13

chr11:46667539

chr11:47656286

ENST00000526508

444_447

90.0

518.0

Motif

LIR

Hgene

ATG13

chr11:46667539

chr11:47656286

ENST00000528494

444_447

90.0

551.0

Motif

LIR

Hgene

ATG13

chr11:46667539

chr11:47656286

ENST00000529655

444_447

90.0

481.0

Motif

LIR

Hgene

ATG13

chr11:46667539

chr11:47656286

ENST00000530500

444_447

11.0

402.0

Motif

LIR

Tgene

MTCH2

chr11:46667539

chr11:47656286

ENST00000302503

2_98

102.0

304.0

Repeat

Note=Solcar 1

Tgene

MTCH2

chr11:46667539

chr11:47656286

ENST00000302503

8_28

102.0

304.0

Transmembrane

Helical

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Fusion Protein-Protein Interaction

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 from validated records (BIOGRID-3.4.160)

Gene

PPI interactors

Protein-protein interactors based on sequence similarity (STRING)

Gene	STRING network
ATG13
MTCH2

- Retained interactions in fusion protein (protein functional feature from UniProt).

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Still interaction with

- Lost interactions due to fusion (protein functional feature from UniProt).

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Interaction lost with

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Related Drugs to ATG13-MTCH2

Drugs used for this fusion-positive patient.
(Manual curation of PubMed, 04-30-2022 + MyCancerGenome)

Hgene

Tgene

Drug

Source

PMID

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Related Diseases to ATG13-MTCH2

Diseases that have this fusion gene.
(Manual curation of PubMed, 04-30-2022 + MyCancerGenome)

Hgene

Tgene

Disease

Source

PMID

Diseases associated with fusion partners.
(DisGeNet 4.0)

Partner

Gene

Disease ID

Disease name

# pubmeds

Source