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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:G3BP1-LMNB1 (FusionGDB2 ID:31990)

Fusion Gene Summary for G3BP1-LMNB1

check button Fusion gene summary
Fusion gene informationFusion gene name: G3BP1-LMNB1
Fusion gene ID: 31990
HgeneTgene
Gene symbol

G3BP1

LMNB1

Gene ID

10146

4001

Gene nameG3BP stress granule assembly factor 1lamin B1
SynonymsG3BP|HDH-VIIIADLD|LMN|LMN2|LMNB
Cytomap

5q33.1

5q23.2

Type of geneprotein-codingprotein-coding
Descriptionras GTPase-activating protein-binding protein 1ATP-dependent DNA helicase VIIIDNA helicase VIIIG3BP-1GAP SH3 domain-binding protein 1GAP binding proteinGTPase activating protein (SH3 domain) binding protein 1Ras-GTPase-activating protein SH3-domainlamin-B1
Modification date2020031320200313
UniProtAcc

Q13283

P20700

Ensembl transtripts involved in fusion geneENST00000356245, ENST00000394123, 
ENST00000543466, 		ENST00000261366, 
ENST00000395354, ENST00000460265, 
Fusion gene scores* DoF score12 X 11 X 6=7927 X 7 X 3=147
# samples 148
** MAII scorelog2(14/792*10)=-2.50007360313464
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(8/147*10)=-0.877744249949002
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: G3BP1 [Title/Abstract] AND LMNB1 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointG3BP1(151151597)-LMNB1(126140468), # 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
HgeneG3BP1

GO:0032606

type I interferon production

30804210


check buttonFusion gene breakpoints across G3BP1 (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 LMNB1 (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
ChimerDB4UCECTCGA-AX-A3GI-01AG3BP1chr5

151151596

+LMNB1chr5

126140467

+
ChimerDB4UCECTCGA-AX-A3GI-01AG3BP1chr5

151151597

-LMNB1chr5

126140468

+
ChimerDB4UCECTCGA-AX-A3GI-01AG3BP1chr5

151151597

+LMNB1chr5

126140468

+
ChimerDB4UCECTCGA-AX-A3GIG3BP1chr5

151151597

+LMNB1chr5

126140467

+


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Fusion Gene ORF analysis for G3BP1-LMNB1

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-3UTRENST00000356245ENST00000261366G3BP1chr5

151151596

+LMNB1chr5

126140467

+
5UTR-3UTRENST00000356245ENST00000261366G3BP1chr5

151151597

+LMNB1chr5

126140468

+
5UTR-3UTRENST00000356245ENST00000261366G3BP1chr5

151151597

+LMNB1chr5

126140467

+
5UTR-3UTRENST00000356245ENST00000395354G3BP1chr5

151151596

+LMNB1chr5

126140467

+
5UTR-3UTRENST00000356245ENST00000395354G3BP1chr5

151151597

+LMNB1chr5

126140468

+
5UTR-3UTRENST00000356245ENST00000395354G3BP1chr5

151151597

+LMNB1chr5

126140467

+
5UTR-3UTRENST00000356245ENST00000460265G3BP1chr5

151151596

+LMNB1chr5

126140467

+
5UTR-3UTRENST00000356245ENST00000460265G3BP1chr5

151151597

+LMNB1chr5

126140468

+
5UTR-3UTRENST00000356245ENST00000460265G3BP1chr5

151151597

+LMNB1chr5

126140467

+
5UTR-3UTRENST00000394123ENST00000261366G3BP1chr5

151151596

+LMNB1chr5

126140467

+
5UTR-3UTRENST00000394123ENST00000261366G3BP1chr5

151151597

+LMNB1chr5

126140468

+
5UTR-3UTRENST00000394123ENST00000261366G3BP1chr5

151151597

+LMNB1chr5

126140467

+
5UTR-3UTRENST00000394123ENST00000395354G3BP1chr5

151151596

+LMNB1chr5

126140467

+
5UTR-3UTRENST00000394123ENST00000395354G3BP1chr5

151151597

+LMNB1chr5

126140468

+
5UTR-3UTRENST00000394123ENST00000395354G3BP1chr5

151151597

+LMNB1chr5

126140467

+
5UTR-3UTRENST00000394123ENST00000460265G3BP1chr5

151151596

+LMNB1chr5

126140467

+
5UTR-3UTRENST00000394123ENST00000460265G3BP1chr5

151151597

+LMNB1chr5

126140468

+
5UTR-3UTRENST00000394123ENST00000460265G3BP1chr5

151151597

+LMNB1chr5

126140467

+
5UTR-3UTRENST00000543466ENST00000261366G3BP1chr5

151151596

+LMNB1chr5

126140467

+
5UTR-3UTRENST00000543466ENST00000261366G3BP1chr5

151151597

+LMNB1chr5

126140468

+
5UTR-3UTRENST00000543466ENST00000261366G3BP1chr5

151151597

+LMNB1chr5

126140467

+
5UTR-3UTRENST00000543466ENST00000395354G3BP1chr5

151151596

+LMNB1chr5

126140467

+
5UTR-3UTRENST00000543466ENST00000395354G3BP1chr5

151151597

+LMNB1chr5

126140468

+
5UTR-3UTRENST00000543466ENST00000395354G3BP1chr5

151151597

+LMNB1chr5

126140467

+
5UTR-3UTRENST00000543466ENST00000460265G3BP1chr5

151151596

+LMNB1chr5

126140467

+
5UTR-3UTRENST00000543466ENST00000460265G3BP1chr5

151151597

+LMNB1chr5

126140468

+
5UTR-3UTRENST00000543466ENST00000460265G3BP1chr5

151151597

+LMNB1chr5

126140467

+

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 G3BP1-LMNB1


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)
G3BP1chr5151151597+LMNB1chr5126140467+3.38E-050.99996626
G3BP1chr5151151597+LMNB1chr5126140467+3.38E-050.99996626
G3BP1chr5151151597+LMNB1chr5126140467+3.38E-050.99996626
G3BP1chr5151151597+LMNB1chr5126140467+3.38E-050.99996626

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 G3BP1-LMNB1


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/:151151597/:126140468)
- 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
G3BP1

Q13283

LMNB1

P20700

FUNCTION: ATP- and magnesium-dependent helicase that plays an essential role in innate immunity (PubMed:30510222). Participates in the DNA-triggered cGAS/STING pathway by promoting the DNA binding and activation of CGAS. Enhances also DDX58-induced type I interferon production probably by helping DDX58 at sensing pathogenic RNA (PubMed:30804210). In addition, plays an essential role in stress granule formation (PubMed:12642610, PubMed:20180778, PubMed:23279204). Unwinds preferentially partial DNA and RNA duplexes having a 17 bp annealed portion and either a hanging 3' tail or hanging tails at both 5'- and 3'-ends (PubMed:9889278). Unwinds DNA/DNA, RNA/DNA, and RNA/RNA substrates with comparable efficiency (PubMed:9889278). Acts unidirectionally by moving in the 5' to 3' direction along the bound single-stranded DNA (PubMed:9889278). Phosphorylation-dependent sequence-specific endoribonuclease in vitro (PubMed:11604510). Cleaves exclusively between cytosine and adenine and cleaves MYC mRNA preferentially at the 3'-UTR (PubMed:11604510). {ECO:0000269|PubMed:11604510, ECO:0000269|PubMed:12642610, ECO:0000269|PubMed:20180778, ECO:0000269|PubMed:23279204, ECO:0000269|PubMed:30510222, ECO:0000269|PubMed:30804210, ECO:0000269|PubMed:9889278}.FUNCTION: Lamins are components of the nuclear lamina, a fibrous layer on the nucleoplasmic side of the inner nuclear membrane, which is thought to provide a framework for the nuclear envelope and may also interact with chromatin.

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 G3BP1-LMNB1


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 G3BP1-LMNB1


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 G3BP1-LMNB1


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 G3BP1-LMNB1


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