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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:PPARG-SYN2 (FusionGDB2 ID:67355)

Fusion Gene Summary for PPARG-SYN2

check button Fusion gene summary
Fusion gene informationFusion gene name: PPARG-SYN2
Fusion gene ID: 67355
HgeneTgene
Gene symbol

PPARG

SYN2

Gene ID

5468

6854

Gene nameperoxisome proliferator activated receptor gammasynapsin II
SynonymsCIMT1|GLM1|NR1C3|PPARG1|PPARG2|PPARgammaSYNII
Cytomap

3p25.2

3p25.2

Type of geneprotein-codingprotein-coding
Descriptionperoxisome proliferator-activated receptor gammaPPAR-gammanuclear receptor subfamily 1 group C member 3peroxisome proliferator-activated nuclear receptor gamma variant 1synapsin-2
Modification date2020032920200313
UniProtAcc..
Ensembl transtripts involved in fusion geneENST00000309576, ENST00000397000, 
ENST00000397010, ENST00000397012, 
ENST00000397015, ENST00000397026, 
ENST00000539812, ENST00000287820, 
ENST00000432424, 
Fusion gene scores* DoF score7 X 9 X 5=3155 X 11 X 3=165
# samples 1310
** MAII scorelog2(13/315*10)=-1.27684020535882
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(10/165*10)=-0.722466024471091
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: PPARG [Title/Abstract] AND SYN2 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointPPARG(12330633)-SYN2(12228869), # samples:2
PPARG(12330633)-SYN2(12187179), # samples:2
SYN2(12224872)-PPARG(12353879), # samples:3
SYN2(12224872)-PPARG(12421203), # samples:3
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
HgenePPARG

GO:0000122

negative regulation of transcription by RNA polymerase II

12700342

HgenePPARG

GO:0006919

activation of cysteine-type endopeptidase activity involved in apoptotic process

18293083

HgenePPARG

GO:0007165

signal transduction

9568716

HgenePPARG

GO:0010742

macrophage derived foam cell differentiation

26504087

HgenePPARG

GO:0010745

negative regulation of macrophage derived foam cell differentiation

19114110

HgenePPARG

GO:0010871

negative regulation of receptor biosynthetic process

12700342

HgenePPARG

GO:0010887

negative regulation of cholesterol storage

19114110

HgenePPARG

GO:0010891

negative regulation of sequestering of triglyceride

12700342

HgenePPARG

GO:0016525

negative regulation of angiogenesis

28566713

HgenePPARG

GO:0030224

monocyte differentiation

9568716

HgenePPARG

GO:0032526

response to retinoic acid

16239304

HgenePPARG

GO:0042953

lipoprotein transport

9568716

HgenePPARG

GO:0043537

negative regulation of blood vessel endothelial cell migration

28566713

HgenePPARG

GO:0045713

low-density lipoprotein particle receptor biosynthetic process

9568716

HgenePPARG

GO:0045944

positive regulation of transcription by RNA polymerase II

9568715|12700342|16239304|17611579

HgenePPARG

GO:0048469

cell maturation

9568716

HgenePPARG

GO:0048662

negative regulation of smooth muscle cell proliferation

20622039

HgenePPARG

GO:0051091

positive regulation of DNA-binding transcription factor activity

18293083

HgenePPARG

GO:0061614

pri-miRNA transcription by RNA polymerase II

28566713

HgenePPARG

GO:0071404

cellular response to low-density lipoprotein particle stimulus

9568716

HgenePPARG

GO:1904706

negative regulation of vascular smooth muscle cell proliferation

28522568


check buttonFusion gene breakpoints across PPARG (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 SYN2 (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
ChimerDB4BLCATCGA-DK-AA75-01APPARGchr3

12330633

-SYN2chr3

12187179

+
ChimerDB4BLCATCGA-DK-AA75PPARGchr3

12329519

+SYN2chr3

12187179

+
ChimerDB4BLCATCGA-DK-AA75PPARGchr3

12330633

+SYN2chr3

12187179

+
ChimerDB4BLCATCGA-E7-A5KE-01APPARGchr3

12329519

+SYN2chr3

12228869

+
ChimerDB4BLCATCGA-E7-A5KE-01APPARGchr3

12330632

+SYN2chr3

12228868

+
ChimerDB4BLCATCGA-E7-A5KE-01APPARGchr3

12330633

-SYN2chr3

12228869

+
ChimerDB4BLCATCGA-E7-A5KE-01APPARGchr3

12330633

+SYN2chr3

12228869

+
ChimerDB4BLCATCGA-E7-A5KE-01APPARGchr3

12333743

+SYN2chr3

12228256

+
ChimerDB4BLCATCGA-E7-A5KEPPARGchr3

12329519

+SYN2chr3

12228868

+
ChimerDB4BLCATCGA-FD-A3SJ-01APPARGchr3

12353952

-SYN2chr3

12192737

+
ChimerDB4BLCATCGA-FD-A3SJPPARGchr3

12353952

+SYN2chr3

12192736

+


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Fusion Gene ORF analysis for PPARG-SYN2

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-3UTRENST00000309576ENST00000432424PPARGchr3

12329519

+SYN2chr3

12187179

+
5UTR-3UTRENST00000309576ENST00000432424PPARGchr3

12353952

-SYN2chr3

12192737

+
5UTR-3UTRENST00000309576ENST00000432424PPARGchr3

12353952

+SYN2chr3

12192736

+
5UTR-3UTRENST00000397000ENST00000432424PPARGchr3

12353952

-SYN2chr3

12192737

+
5UTR-3UTRENST00000397000ENST00000432424PPARGchr3

12353952

+SYN2chr3

12192736

+
5UTR-3UTRENST00000397010ENST00000432424PPARGchr3

12353952

-SYN2chr3

12192737

+
5UTR-3UTRENST00000397010ENST00000432424PPARGchr3

12353952

+SYN2chr3

12192736

+
5UTR-3UTRENST00000397012ENST00000432424PPARGchr3

12330633

+SYN2chr3

12187179

+
5UTR-3UTRENST00000397012ENST00000432424PPARGchr3

12353952

-SYN2chr3

12192737

+
5UTR-3UTRENST00000397012ENST00000432424PPARGchr3

12353952

+SYN2chr3

12192736

+
5UTR-3UTRENST00000397015ENST00000432424PPARGchr3

12329519

+SYN2chr3

12187179

+
5UTR-3UTRENST00000397026ENST00000432424PPARGchr3

12330633

+SYN2chr3

12187179

+
5UTR-3UTRENST00000397026ENST00000432424PPARGchr3

12353952

-SYN2chr3

12192737

+
5UTR-3UTRENST00000397026ENST00000432424PPARGchr3

12353952

+SYN2chr3

12192736

+
5UTR-3UTRENST00000539812ENST00000432424PPARGchr3

12353952

-SYN2chr3

12192737

+
5UTR-3UTRENST00000539812ENST00000432424PPARGchr3

12353952

+SYN2chr3

12192736

+
5UTR-intronENST00000309576ENST00000432424PPARGchr3

12329519

+SYN2chr3

12228869

+
5UTR-intronENST00000309576ENST00000432424PPARGchr3

12329519

+SYN2chr3

12228868

+
5UTR-intronENST00000397012ENST00000432424PPARGchr3

12330632

+SYN2chr3

12228868

+
5UTR-intronENST00000397012ENST00000432424PPARGchr3

12330633

+SYN2chr3

12228869

+
5UTR-intronENST00000397015ENST00000432424PPARGchr3

12329519

+SYN2chr3

12228869

+
5UTR-intronENST00000397015ENST00000432424PPARGchr3

12329519

+SYN2chr3

12228868

+
5UTR-intronENST00000397026ENST00000432424PPARGchr3

12330632

+SYN2chr3

12228868

+
5UTR-intronENST00000397026ENST00000432424PPARGchr3

12330633

+SYN2chr3

12228869

+
intron-3UTRENST00000287820ENST00000432424PPARGchr3

12329519

+SYN2chr3

12187179

+
intron-3UTRENST00000287820ENST00000432424PPARGchr3

12330633

+SYN2chr3

12187179

+
intron-3UTRENST00000287820ENST00000432424PPARGchr3

12353952

-SYN2chr3

12192737

+
intron-3UTRENST00000287820ENST00000432424PPARGchr3

12353952

+SYN2chr3

12192736

+
intron-3UTRENST00000309576ENST00000432424PPARGchr3

12330633

+SYN2chr3

12187179

+
intron-3UTRENST00000397000ENST00000432424PPARGchr3

12329519

+SYN2chr3

12187179

+
intron-3UTRENST00000397000ENST00000432424PPARGchr3

12330633

+SYN2chr3

12187179

+
intron-3UTRENST00000397010ENST00000432424PPARGchr3

12329519

+SYN2chr3

12187179

+
intron-3UTRENST00000397010ENST00000432424PPARGchr3

12330633

+SYN2chr3

12187179

+
intron-3UTRENST00000397012ENST00000432424PPARGchr3

12329519

+SYN2chr3

12187179

+
intron-3UTRENST00000397015ENST00000432424PPARGchr3

12330633

+SYN2chr3

12187179

+
intron-3UTRENST00000397015ENST00000432424PPARGchr3

12353952

-SYN2chr3

12192737

+
intron-3UTRENST00000397015ENST00000432424PPARGchr3

12353952

+SYN2chr3

12192736

+
intron-3UTRENST00000397026ENST00000432424PPARGchr3

12329519

+SYN2chr3

12187179

+
intron-3UTRENST00000539812ENST00000432424PPARGchr3

12329519

+SYN2chr3

12187179

+
intron-3UTRENST00000539812ENST00000432424PPARGchr3

12330633

+SYN2chr3

12187179

+
intron-intronENST00000287820ENST00000432424PPARGchr3

12329519

+SYN2chr3

12228869

+
intron-intronENST00000287820ENST00000432424PPARGchr3

12330632

+SYN2chr3

12228868

+
intron-intronENST00000287820ENST00000432424PPARGchr3

12330633

+SYN2chr3

12228869

+
intron-intronENST00000287820ENST00000432424PPARGchr3

12333743

+SYN2chr3

12228256

+
intron-intronENST00000287820ENST00000432424PPARGchr3

12329519

+SYN2chr3

12228868

+
intron-intronENST00000309576ENST00000432424PPARGchr3

12330632

+SYN2chr3

12228868

+
intron-intronENST00000309576ENST00000432424PPARGchr3

12330633

+SYN2chr3

12228869

+
intron-intronENST00000309576ENST00000432424PPARGchr3

12333743

+SYN2chr3

12228256

+
intron-intronENST00000397000ENST00000432424PPARGchr3

12329519

+SYN2chr3

12228869

+
intron-intronENST00000397000ENST00000432424PPARGchr3

12330632

+SYN2chr3

12228868

+
intron-intronENST00000397000ENST00000432424PPARGchr3

12330633

+SYN2chr3

12228869

+
intron-intronENST00000397000ENST00000432424PPARGchr3

12333743

+SYN2chr3

12228256

+
intron-intronENST00000397000ENST00000432424PPARGchr3

12329519

+SYN2chr3

12228868

+
intron-intronENST00000397010ENST00000432424PPARGchr3

12329519

+SYN2chr3

12228869

+
intron-intronENST00000397010ENST00000432424PPARGchr3

12330632

+SYN2chr3

12228868

+
intron-intronENST00000397010ENST00000432424PPARGchr3

12330633

+SYN2chr3

12228869

+
intron-intronENST00000397010ENST00000432424PPARGchr3

12333743

+SYN2chr3

12228256

+
intron-intronENST00000397010ENST00000432424PPARGchr3

12329519

+SYN2chr3

12228868

+
intron-intronENST00000397012ENST00000432424PPARGchr3

12329519

+SYN2chr3

12228869

+
intron-intronENST00000397012ENST00000432424PPARGchr3

12333743

+SYN2chr3

12228256

+
intron-intronENST00000397012ENST00000432424PPARGchr3

12329519

+SYN2chr3

12228868

+
intron-intronENST00000397015ENST00000432424PPARGchr3

12330632

+SYN2chr3

12228868

+
intron-intronENST00000397015ENST00000432424PPARGchr3

12330633

+SYN2chr3

12228869

+
intron-intronENST00000397015ENST00000432424PPARGchr3

12333743

+SYN2chr3

12228256

+
intron-intronENST00000397026ENST00000432424PPARGchr3

12329519

+SYN2chr3

12228869

+
intron-intronENST00000397026ENST00000432424PPARGchr3

12333743

+SYN2chr3

12228256

+
intron-intronENST00000397026ENST00000432424PPARGchr3

12329519

+SYN2chr3

12228868

+
intron-intronENST00000539812ENST00000432424PPARGchr3

12329519

+SYN2chr3

12228869

+
intron-intronENST00000539812ENST00000432424PPARGchr3

12330632

+SYN2chr3

12228868

+
intron-intronENST00000539812ENST00000432424PPARGchr3

12330633

+SYN2chr3

12228869

+
intron-intronENST00000539812ENST00000432424PPARGchr3

12333743

+SYN2chr3

12228256

+
intron-intronENST00000539812ENST00000432424PPARGchr3

12329519

+SYN2chr3

12228868

+

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 PPARG-SYN2


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)
PPARGchr312330633+SYN2chr312187178+5.20E-050.999948
PPARGchr312353952+SYN2chr312192736+2.73E-070.99999976
PPARGchr312329519+SYN2chr312187178+1.14E-070.9999999
PPARGchr312330633+SYN2chr312187178+5.20E-050.999948
PPARGchr312353952+SYN2chr312192736+2.73E-070.99999976
PPARGchr312329519+SYN2chr312187178+1.14E-070.9999999

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 PPARG-SYN2


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/:12330633/:12228869)
- 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
..
FUNCTION: Transcriptional activator which is required for calcium-dependent dendritic growth and branching in cortical neurons. Recruits CREB-binding protein (CREBBP) to nuclear bodies. Component of the CREST-BRG1 complex, a multiprotein complex that regulates promoter activation by orchestrating a calcium-dependent release of a repressor complex and a recruitment of an activator complex. In resting neurons, transcription of the c-FOS promoter is inhibited by BRG1-dependent recruitment of a phospho-RB1-HDAC1 repressor complex. Upon calcium influx, RB1 is dephosphorylated by calcineurin, which leads to release of the repressor complex. At the same time, there is increased recruitment of CREBBP to the promoter by a CREST-dependent mechanism, which leads to transcriptional activation. The CREST-BRG1 complex also binds to the NR2B promoter, and activity-dependent induction of NR2B expression involves a release of HDAC1 and recruitment of CREBBP (By similarity). {ECO:0000250}.FUNCTION: Transcriptional activator which is required for calcium-dependent dendritic growth and branching in cortical neurons. Recruits CREB-binding protein (CREBBP) to nuclear bodies. Component of the CREST-BRG1 complex, a multiprotein complex that regulates promoter activation by orchestrating a calcium-dependent release of a repressor complex and a recruitment of an activator complex. In resting neurons, transcription of the c-FOS promoter is inhibited by BRG1-dependent recruitment of a phospho-RB1-HDAC1 repressor complex. Upon calcium influx, RB1 is dephosphorylated by calcineurin, which leads to release of the repressor complex. At the same time, there is increased recruitment of CREBBP to the promoter by a CREST-dependent mechanism, which leads to transcriptional activation. The CREST-BRG1 complex also binds to the NR2B promoter, and activity-dependent induction of NR2B expression involves a release of HDAC1 and recruitment of CREBBP (By similarity). {ECO:0000250}.

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 PPARG-SYN2


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 PPARG-SYN2


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 PPARG-SYN2


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 PPARG-SYN2


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