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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:SYBU-RBM23 (FusionGDB2 ID:88328)

Fusion Gene Summary for SYBU-RBM23

check button Fusion gene summary
Fusion gene informationFusion gene name: SYBU-RBM23
Fusion gene ID: 88328
HgeneTgene
Gene symbol

SYBU

RBM23

Gene ID

55638

55147

Gene namesyntabulinRNA binding motif protein 23
SynonymsGOLSYN|OCSYN|SNPHLCAPERbeta|PP239|RNPC4
Cytomap

8q23.2

14q11.2

Type of geneprotein-codingprotein-coding
DescriptionsyntabulinGOLSYN A proteinGOLSYN B proteinGOLSYN C proteinGolgi-localized proteingolgi-localized syntaphilin-related proteinimplicated in syntaxin trafficking in neuronsmicrotubule-associated proteinsyntabulin (syntaxin-interacting)syntaxin-1-binprobable RNA-binding protein 23RNA-binding region (RNP1, RRM) containing 4RNA-binding region-containing protein 4coactivator of activating protein-1 and estrogen recep- tors betasplicing factor SF2
Modification date2020031320200320
UniProtAcc..
Ensembl transtripts involved in fusion geneENST00000276646, ENST00000399066, 
ENST00000408889, ENST00000408908, 
ENST00000419099, ENST00000422135, 
ENST00000424158, ENST00000433638, 
ENST00000440310, ENST00000446070, 
ENST00000527707, ENST00000528331, 
ENST00000528647, ENST00000529175, 
ENST00000529690, ENST00000532779, 
ENST00000533065, ENST00000533171, 
ENST00000533895, 		ENST00000346528, 
ENST00000359890, ENST00000399922, 
ENST00000542016, ENST00000555209, 
ENST00000556984, 
Fusion gene scores* DoF score3 X 6 X 2=367 X 7 X 2=98
# samples 47
** MAII scorelog2(4/36*10)=0.15200309344505
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0		log2(7/98*10)=-0.485426827170242
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: SYBU [Title/Abstract] AND RBM23 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointSYBU(110653262)-RBM23(23371500), # 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

check buttonFusion gene breakpoints across SYBU (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 RBM23 (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/ABF762412SYBUchr8

110653262

-RBM23chr14

23371500

-


Top

Fusion Gene ORF analysis for SYBU-RBM23

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-3CDSENST00000276646ENST00000346528SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000276646ENST00000359890SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000276646ENST00000399922SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000276646ENST00000542016SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000276646ENST00000555209SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000399066ENST00000346528SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000399066ENST00000359890SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000399066ENST00000399922SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000399066ENST00000542016SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000399066ENST00000555209SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000408889ENST00000346528SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000408889ENST00000359890SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000408889ENST00000399922SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000408889ENST00000542016SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000408889ENST00000555209SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000408908ENST00000346528SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000408908ENST00000359890SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000408908ENST00000399922SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000408908ENST00000542016SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000408908ENST00000555209SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000419099ENST00000346528SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000419099ENST00000359890SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000419099ENST00000399922SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000419099ENST00000542016SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000419099ENST00000555209SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000422135ENST00000346528SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000422135ENST00000359890SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000422135ENST00000399922SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000422135ENST00000542016SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000422135ENST00000555209SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000424158ENST00000346528SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000424158ENST00000359890SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000424158ENST00000399922SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000424158ENST00000542016SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000424158ENST00000555209SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000433638ENST00000346528SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000433638ENST00000359890SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000433638ENST00000399922SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000433638ENST00000542016SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000433638ENST00000555209SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000440310ENST00000346528SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000440310ENST00000359890SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000440310ENST00000399922SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000440310ENST00000542016SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000440310ENST00000555209SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000446070ENST00000346528SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000446070ENST00000359890SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000446070ENST00000399922SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000446070ENST00000542016SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000446070ENST00000555209SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000527707ENST00000346528SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000527707ENST00000359890SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000527707ENST00000399922SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000527707ENST00000542016SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000527707ENST00000555209SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000528331ENST00000346528SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000528331ENST00000359890SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000528331ENST00000399922SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000528331ENST00000542016SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000528331ENST00000555209SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000528647ENST00000346528SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000528647ENST00000359890SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000528647ENST00000399922SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000528647ENST00000542016SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000528647ENST00000555209SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000529175ENST00000346528SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000529175ENST00000359890SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000529175ENST00000399922SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000529175ENST00000542016SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000529175ENST00000555209SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000529690ENST00000346528SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000529690ENST00000359890SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000529690ENST00000399922SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000529690ENST00000542016SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000529690ENST00000555209SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000532779ENST00000346528SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000532779ENST00000359890SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000532779ENST00000399922SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000532779ENST00000542016SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000532779ENST00000555209SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000533065ENST00000346528SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000533065ENST00000359890SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000533065ENST00000399922SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000533065ENST00000542016SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000533065ENST00000555209SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000533171ENST00000346528SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000533171ENST00000359890SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000533171ENST00000399922SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000533171ENST00000542016SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000533171ENST00000555209SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000533895ENST00000346528SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000533895ENST00000359890SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000533895ENST00000399922SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000533895ENST00000542016SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-3CDSENST00000533895ENST00000555209SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-intronENST00000276646ENST00000556984SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-intronENST00000399066ENST00000556984SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-intronENST00000408889ENST00000556984SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-intronENST00000408908ENST00000556984SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-intronENST00000419099ENST00000556984SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-intronENST00000422135ENST00000556984SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-intronENST00000424158ENST00000556984SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-intronENST00000433638ENST00000556984SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-intronENST00000440310ENST00000556984SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-intronENST00000446070ENST00000556984SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-intronENST00000527707ENST00000556984SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-intronENST00000528331ENST00000556984SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-intronENST00000528647ENST00000556984SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-intronENST00000529175ENST00000556984SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-intronENST00000529690ENST00000556984SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-intronENST00000532779ENST00000556984SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-intronENST00000533065ENST00000556984SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-intronENST00000533171ENST00000556984SYBUchr8

110653262

-RBM23chr14

23371500

-
intron-intronENST00000533895ENST00000556984SYBUchr8

110653262

-RBM23chr14

23371500

-

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 SYBU-RBM23


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 SYBU-RBM23


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/:110653262/:23371500)
- 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 SYBU-RBM23


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 SYBU-RBM23


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 SYBU-RBM23


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 SYBU-RBM23


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