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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:TSEN2-ATG7 (FusionGDB2 ID:93874)

Fusion Gene Summary for TSEN2-ATG7

check button Fusion gene summary
Fusion gene informationFusion gene name: TSEN2-ATG7
Fusion gene ID: 93874
HgeneTgene
Gene symbol

TSEN2

ATG7

Gene ID

80746

10533

Gene nametRNA splicing endonuclease subunit 2autophagy related 7
SynonymsPCH2B|SEN2|SEN2LAPG7-LIKE|APG7L|GSA7
Cytomap

3p25.2

3p25.3

Type of geneprotein-codingprotein-coding
DescriptiontRNA-splicing endonuclease subunit Sen2TSEN2 tRNA splicing endonuclease subunithsSen2tRNA-intron endonuclease Sen2ubiquitin-like modifier-activating enzyme ATG7APG7 autophagy 7-likeATG12-activating enzyme E1 ATG7hAGP7ubiquitin-activating enzyme E1-like protein
Modification date2020031320200329
UniProtAcc.

O95352

Ensembl transtripts involved in fusion geneENST00000314571, ENST00000383797, 
ENST00000454502, ENST00000402228, 
ENST00000444864, ENST00000284995, 
ENST00000415684, ENST00000475595, 
ENST00000446450, ENST00000354956, 
ENST00000354449, ENST00000469654, 
Fusion gene scores* DoF score7 X 12 X 4=33612 X 13 X 12=1872
# samples 1321
** MAII scorelog2(13/336*10)=-1.36994960975031
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(21/1872*10)=-3.15611920191728
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: TSEN2 [Title/Abstract] AND ATG7 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointTSEN2(12526016)-ATG7(11399892), # 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
HgeneTSEN2

GO:0006388

tRNA splicing, via endonucleolytic cleavage and ligation

17495927

TgeneATG7

GO:0006497

protein lipidation

12890687

TgeneATG7

GO:0009267

cellular response to starvation

20543840

TgeneATG7

GO:0031401

positive regulation of protein modification process

12890687

TgeneATG7

GO:0071455

cellular response to hyperoxia

20543840


check buttonFusion gene breakpoints across TSEN2 (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 ATG7 (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-A7EU-01ATSEN2chr3

12526016

-ATG7chr3

11399892

+


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Fusion Gene ORF analysis for TSEN2-ATG7

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
5UTR-3CDSENST00000314571ENST00000446450TSEN2chr3

12526016

-ATG7chr3

11399892

+
5UTR-3CDSENST00000314571ENST00000354956TSEN2chr3

12526016

-ATG7chr3

11399892

+
5UTR-3CDSENST00000314571ENST00000354449TSEN2chr3

12526016

-ATG7chr3

11399892

+
5UTR-intronENST00000314571ENST00000469654TSEN2chr3

12526016

-ATG7chr3

11399892

+
5UTR-3CDSENST00000383797ENST00000446450TSEN2chr3

12526016

-ATG7chr3

11399892

+
5UTR-3CDSENST00000383797ENST00000354956TSEN2chr3

12526016

-ATG7chr3

11399892

+
5UTR-3CDSENST00000383797ENST00000354449TSEN2chr3

12526016

-ATG7chr3

11399892

+
5UTR-intronENST00000383797ENST00000469654TSEN2chr3

12526016

-ATG7chr3

11399892

+
5UTR-3CDSENST00000454502ENST00000446450TSEN2chr3

12526016

-ATG7chr3

11399892

+
5UTR-3CDSENST00000454502ENST00000354956TSEN2chr3

12526016

-ATG7chr3

11399892

+
5UTR-3CDSENST00000454502ENST00000354449TSEN2chr3

12526016

-ATG7chr3

11399892

+
5UTR-intronENST00000454502ENST00000469654TSEN2chr3

12526016

-ATG7chr3

11399892

+
5UTR-3CDSENST00000402228ENST00000446450TSEN2chr3

12526016

-ATG7chr3

11399892

+
5UTR-3CDSENST00000402228ENST00000354956TSEN2chr3

12526016

-ATG7chr3

11399892

+
5UTR-3CDSENST00000402228ENST00000354449TSEN2chr3

12526016

-ATG7chr3

11399892

+
5UTR-intronENST00000402228ENST00000469654TSEN2chr3

12526016

-ATG7chr3

11399892

+
5UTR-3CDSENST00000444864ENST00000446450TSEN2chr3

12526016

-ATG7chr3

11399892

+
5UTR-3CDSENST00000444864ENST00000354956TSEN2chr3

12526016

-ATG7chr3

11399892

+
5UTR-3CDSENST00000444864ENST00000354449TSEN2chr3

12526016

-ATG7chr3

11399892

+
5UTR-intronENST00000444864ENST00000469654TSEN2chr3

12526016

-ATG7chr3

11399892

+
5UTR-3CDSENST00000284995ENST00000446450TSEN2chr3

12526016

-ATG7chr3

11399892

+
5UTR-3CDSENST00000284995ENST00000354956TSEN2chr3

12526016

-ATG7chr3

11399892

+
5UTR-3CDSENST00000284995ENST00000354449TSEN2chr3

12526016

-ATG7chr3

11399892

+
5UTR-intronENST00000284995ENST00000469654TSEN2chr3

12526016

-ATG7chr3

11399892

+
intron-3CDSENST00000415684ENST00000446450TSEN2chr3

12526016

-ATG7chr3

11399892

+
intron-3CDSENST00000415684ENST00000354956TSEN2chr3

12526016

-ATG7chr3

11399892

+
intron-3CDSENST00000415684ENST00000354449TSEN2chr3

12526016

-ATG7chr3

11399892

+
intron-intronENST00000415684ENST00000469654TSEN2chr3

12526016

-ATG7chr3

11399892

+
intron-3CDSENST00000475595ENST00000446450TSEN2chr3

12526016

-ATG7chr3

11399892

+
intron-3CDSENST00000475595ENST00000354956TSEN2chr3

12526016

-ATG7chr3

11399892

+
intron-3CDSENST00000475595ENST00000354449TSEN2chr3

12526016

-ATG7chr3

11399892

+
intron-intronENST00000475595ENST00000469654TSEN2chr3

12526016

-ATG7chr3

11399892

+

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 TSEN2-ATG7


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)

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.

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Fusion Protein Features for TSEN2-ATG7


check button Go to

FGviewer for the breakpoints of :-:

.
- FGviewer provides the online visualization of the retention search of the protein functional features across DNA, RNA, protein, and pathological levels.
FGviewer

check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
.ATG7

O95352

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.FUNCTION: E1-like activating enzyme involved in the 2 ubiquitin-like systems required for cytoplasm to vacuole transport (Cvt) and autophagy. Activates ATG12 for its conjugation with ATG5 as well as the ATG8 family proteins for their conjugation with phosphatidylethanolamine. Both systems are needed for the ATG8 association to Cvt vesicles and autophagosomes membranes. Required for autophagic death induced by caspase-8 inhibition. Required for mitophagy which contributes to regulate mitochondrial quantity and quality by eliminating the mitochondria to a basal level to fulfill cellular energy requirements and preventing excess ROS production. Modulates p53/TP53 activity to regulate cell cycle and survival during metabolic stress. Plays also a key role in the maintenance of axonal homeostasis, the prevention of axonal degeneration, the maintenance of hematopoietic stem cells, the formation of Paneth cell granules, as well as in adipose differentiation. Plays a role in regulating the liver clock and glucose metabolism by mediating the autophagic degradation of CRY1 (clock repressor) in a time-dependent manner (By similarity). {ECO:0000250|UniProtKB:Q9D906, ECO:0000269|PubMed:11096062, ECO:0000269|PubMed:16303767, ECO:0000269|PubMed:22170151}.

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 TSEN2-ATG7


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 TSEN2-ATG7


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 TSEN2-ATG7


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 TSEN2-ATG7


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneTSEN2C2676466Pontocerebellar Hypoplasia Type 2B2CTD_human;GENOMICS_ENGLAND;UNIPROT
HgeneTSEN2C0011168Deglutition Disorders1CTD_human
HgeneTSEN2C0018975Hemeralopia1CTD_human
HgeneTSEN2C0020796Profound Mental Retardation1CTD_human
HgeneTSEN2C0025363Mental Retardation, Psychosocial1CTD_human
HgeneTSEN2C0025958Microcephaly1CTD_human
HgeneTSEN2C0026650Movement Disorders1CTD_human
HgeneTSEN2C0042790Vision Disorders1CTD_human
HgeneTSEN2C0043094Weight Gain1CTD_human
HgeneTSEN2C0233769Micropsia1CTD_human
HgeneTSEN2C0233771Macropsia1CTD_human
HgeneTSEN2C0266468Congenital pontocerebellar hypoplasia1GENOMICS_ENGLAND
HgeneTSEN2C0266487Etat Marbre1CTD_human
HgeneTSEN2C0267071Oropharyngeal Dysphagia1CTD_human
HgeneTSEN2C0267072Esophageal Dysphagia1CTD_human
HgeneTSEN2C0271185Metamorphopsia1CTD_human
HgeneTSEN2C0917816Mental deficiency1CTD_human
HgeneTSEN2C1956147Microlissencephaly1CTD_human
HgeneTSEN2C2932714Pontocerebellar Hypoplasia Type 21ORPHANET
HgeneTSEN2C3489704Vision Disability1CTD_human
HgeneTSEN2C3665347Visual Impairment1CTD_human
HgeneTSEN2C3714756Intellectual Disability1CTD_human
HgeneTSEN2C3853041Severe Congenital Microcephaly1CTD_human
TgeneATG7C0002871Anemia1CTD_human
TgeneATG7C0023380Lethargy1CTD_human
TgeneATG7C0024312Lymphopenia1CTD_human
TgeneATG7C0027540Necrosis1CTD_human
TgeneATG7C0919267ovarian neoplasm1CTD_human
TgeneATG7C1140680Malignant neoplasm of ovary1CTD_human
TgeneATG7C1262477Weight decreased1CTD_human
TgeneATG7C2239176Liver carcinoma1CTD_human