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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:SYVN1-SYVN1 (FusionGDB2 ID:88598)

Fusion Gene Summary for SYVN1-SYVN1

check button Fusion gene summary
Fusion gene informationFusion gene name: SYVN1-SYVN1
Fusion gene ID: 88598
HgeneTgene
Gene symbol

SYVN1

SYVN1

Gene ID

84447

84447

Gene namesynoviolin 1synoviolin 1
SynonymsDER3|HRD1DER3|HRD1
Cytomap

11q13.1

11q13.1

Type of geneprotein-codingprotein-coding
DescriptionE3 ubiquitin-protein ligase synoviolinHMG-coA reductase degradation 1 homologRING-type E3 ubiquitin transferase synoviolinsynovial apoptosis inhibitor 1, synoviolinE3 ubiquitin-protein ligase synoviolinHMG-coA reductase degradation 1 homologRING-type E3 ubiquitin transferase synoviolinsynovial apoptosis inhibitor 1, synoviolin
Modification date2020031320200313
UniProtAcc..
Ensembl transtripts involved in fusion geneENST00000294256, ENST00000307289, 
ENST00000377190, ENST00000526060, 
ENST00000526121, 		ENST00000294256, 
ENST00000307289, ENST00000377190, 
ENST00000526060, ENST00000526121, 
Fusion gene scores* DoF score4 X 4 X 3=483 X 3 X 2=18
# samples 43
** MAII scorelog2(4/48*10)=-0.263034405833794
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(3/18*10)=0.736965594166206
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
Context

PubMed: SYVN1 [Title/Abstract] AND SYVN1 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointSYVN1(64895386)-SYVN1(64895287), # 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
HgeneSYVN1

GO:0006511

ubiquitin-dependent protein catabolic process

14593114|17059562

HgeneSYVN1

GO:0016567

protein ubiquitination

12459480|22590560

HgeneSYVN1

GO:0030433

ubiquitin-dependent ERAD pathway

12459480|14593114|17059562

HgeneSYVN1

GO:0036503

ERAD pathway

22590560

HgeneSYVN1

GO:0070936

protein K48-linked ubiquitination

14593114

HgeneSYVN1

GO:1902236

negative regulation of endoplasmic reticulum stress-induced intrinsic apoptotic signaling pathway

12459480|17059562

TgeneSYVN1

GO:0006511

ubiquitin-dependent protein catabolic process

14593114|17059562

TgeneSYVN1

GO:0016567

protein ubiquitination

12459480|22590560

TgeneSYVN1

GO:0030433

ubiquitin-dependent ERAD pathway

12459480|14593114|17059562

TgeneSYVN1

GO:0036503

ERAD pathway

22590560

TgeneSYVN1

GO:0070936

protein K48-linked ubiquitination

14593114

TgeneSYVN1

GO:1902236

negative regulation of endoplasmic reticulum stress-induced intrinsic apoptotic signaling pathway

12459480|17059562


check buttonFusion gene breakpoints across SYVN1 (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 SYVN1 (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
ChiTaRS5.0N/ABI820138SYVN1chr11

64895386

+SYVN1chr11

64895287

-


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Fusion Gene ORF analysis for SYVN1-SYVN1

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
intron-3UTRENST00000294256ENST00000294256SYVN1chr11

64895386

+SYVN1chr11

64895287

-
intron-3UTRENST00000294256ENST00000307289SYVN1chr11

64895386

+SYVN1chr11

64895287

-
intron-3UTRENST00000294256ENST00000377190SYVN1chr11

64895386

+SYVN1chr11

64895287

-
intron-3UTRENST00000294256ENST00000526060SYVN1chr11

64895386

+SYVN1chr11

64895287

-
intron-3UTRENST00000307289ENST00000294256SYVN1chr11

64895386

+SYVN1chr11

64895287

-
intron-3UTRENST00000307289ENST00000307289SYVN1chr11

64895386

+SYVN1chr11

64895287

-
intron-3UTRENST00000307289ENST00000377190SYVN1chr11

64895386

+SYVN1chr11

64895287

-
intron-3UTRENST00000307289ENST00000526060SYVN1chr11

64895386

+SYVN1chr11

64895287

-
intron-3UTRENST00000377190ENST00000294256SYVN1chr11

64895386

+SYVN1chr11

64895287

-
intron-3UTRENST00000377190ENST00000307289SYVN1chr11

64895386

+SYVN1chr11

64895287

-
intron-3UTRENST00000377190ENST00000377190SYVN1chr11

64895386

+SYVN1chr11

64895287

-
intron-3UTRENST00000377190ENST00000526060SYVN1chr11

64895386

+SYVN1chr11

64895287

-
intron-3UTRENST00000526060ENST00000294256SYVN1chr11

64895386

+SYVN1chr11

64895287

-
intron-3UTRENST00000526060ENST00000307289SYVN1chr11

64895386

+SYVN1chr11

64895287

-
intron-3UTRENST00000526060ENST00000377190SYVN1chr11

64895386

+SYVN1chr11

64895287

-
intron-3UTRENST00000526060ENST00000526060SYVN1chr11

64895386

+SYVN1chr11

64895287

-
intron-3UTRENST00000526121ENST00000294256SYVN1chr11

64895386

+SYVN1chr11

64895287

-
intron-3UTRENST00000526121ENST00000307289SYVN1chr11

64895386

+SYVN1chr11

64895287

-
intron-3UTRENST00000526121ENST00000377190SYVN1chr11

64895386

+SYVN1chr11

64895287

-
intron-3UTRENST00000526121ENST00000526060SYVN1chr11

64895386

+SYVN1chr11

64895287

-
intron-intronENST00000294256ENST00000526121SYVN1chr11

64895386

+SYVN1chr11

64895287

-
intron-intronENST00000307289ENST00000526121SYVN1chr11

64895386

+SYVN1chr11

64895287

-
intron-intronENST00000377190ENST00000526121SYVN1chr11

64895386

+SYVN1chr11

64895287

-
intron-intronENST00000526060ENST00000526121SYVN1chr11

64895386

+SYVN1chr11

64895287

-
intron-intronENST00000526121ENST00000526121SYVN1chr11

64895386

+SYVN1chr11

64895287

-

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 SYVN1-SYVN1


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 SYVN1-SYVN1


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/:64895386/:64895287)
- 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 SYVN1-SYVN1


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 SYVN1-SYVN1


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 SYVN1-SYVN1


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 SYVN1-SYVN1


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