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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:RALGPS2-FDPS (FusionGDB2 ID:71518)

Fusion Gene Summary for RALGPS2-FDPS

check button Fusion gene summary
Fusion gene informationFusion gene name: RALGPS2-FDPS
Fusion gene ID: 71518
HgeneTgene
Gene symbol

RALGPS2

FDPS

Gene ID

55103

2224

Gene nameRal GEF with PH domain and SH3 binding motif 2farnesyl diphosphate synthase
SynonymsdJ595C2.1FPPS|FPS|POROK9
Cytomap

1q25.2

1q22

Type of geneprotein-codingprotein-coding
Descriptionras-specific guanine nucleotide-releasing factor RalGPS2Ral-A exchange factor RalGPS2ral GEF with PH domain and SH3-binding motif 2ralA exchange factor RalGPS2farnesyl pyrophosphate synthase(2E,6E)-farnesyl diphosphate synthaseFPP synthaseFPP synthetasefarnesyl pyrophosphate synthetase, dimethylallyltranstransferase, geranyltranstransferase
Modification date2020031320200329
UniProtAcc.

P14324

Ensembl transtripts involved in fusion geneENST00000367635, ENST00000367634, 
ENST00000477383, 		ENST00000447866, 
ENST00000368356, ENST00000487002, 
ENST00000356657, 
Fusion gene scores* DoF score8 X 11 X 5=4405 X 4 X 2=40
# samples 105
** MAII scorelog2(10/440*10)=-2.13750352374993
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(5/40*10)=0.321928094887362
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
Context

PubMed: RALGPS2 [Title/Abstract] AND FDPS [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointRALGPS2(178710744)-FDPS(155287732), # 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 RALGPS2 (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 FDPS (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
ChimerDB4PRADTCGA-G9-6499RALGPS2chr1

178710744

+FDPSchr1

155287732

+


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Fusion Gene ORF analysis for RALGPS2-FDPS

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-3CDSENST00000367635ENST00000447866RALGPS2chr1

178710744

+FDPSchr1

155287732

+
intron-3CDSENST00000367635ENST00000368356RALGPS2chr1

178710744

+FDPSchr1

155287732

+
intron-intronENST00000367635ENST00000487002RALGPS2chr1

178710744

+FDPSchr1

155287732

+
intron-intronENST00000367635ENST00000356657RALGPS2chr1

178710744

+FDPSchr1

155287732

+
intron-3CDSENST00000367634ENST00000447866RALGPS2chr1

178710744

+FDPSchr1

155287732

+
intron-3CDSENST00000367634ENST00000368356RALGPS2chr1

178710744

+FDPSchr1

155287732

+
intron-intronENST00000367634ENST00000487002RALGPS2chr1

178710744

+FDPSchr1

155287732

+
intron-intronENST00000367634ENST00000356657RALGPS2chr1

178710744

+FDPSchr1

155287732

+
intron-3CDSENST00000477383ENST00000447866RALGPS2chr1

178710744

+FDPSchr1

155287732

+
intron-3CDSENST00000477383ENST00000368356RALGPS2chr1

178710744

+FDPSchr1

155287732

+
intron-intronENST00000477383ENST00000487002RALGPS2chr1

178710744

+FDPSchr1

155287732

+
intron-intronENST00000477383ENST00000356657RALGPS2chr1

178710744

+FDPSchr1

155287732

+

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 RALGPS2-FDPS


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 RALGPS2-FDPS


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
.FDPS

P14324

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: Key enzyme in isoprenoid biosynthesis which catalyzes the formation of farnesyl diphosphate (FPP), a precursor for several classes of essential metabolites including sterols, dolichols, carotenoids, and ubiquinones. FPP also serves as substrate for protein farnesylation and geranylgeranylation. Catalyzes the sequential condensation of isopentenyl pyrophosphate with the allylic pyrophosphates, dimethylallyl pyrophosphate, and then with the resultant geranylpyrophosphate to the ultimate product farnesyl pyrophosphate.

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 RALGPS2-FDPS


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 RALGPS2-FDPS


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 RALGPS2-FDPS


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.8 2021-05-08)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status
TgeneFDPSP14324DB00282Pamidronic acidInhibitorSmall moleculeApproved
TgeneFDPSP14324DB00282Pamidronic acidInhibitorSmall moleculeApproved
TgeneFDPSP14324DB00282Pamidronic acidInhibitorSmall moleculeApproved
TgeneFDPSP14324DB00399Zoledronic acidInhibitorSmall moleculeApproved
TgeneFDPSP14324DB00399Zoledronic acidInhibitorSmall moleculeApproved
TgeneFDPSP14324DB00399Zoledronic acidInhibitorSmall moleculeApproved
TgeneFDPSP14324DB00630Alendronic acidInhibitorSmall moleculeApproved
TgeneFDPSP14324DB00630Alendronic acidInhibitorSmall moleculeApproved
TgeneFDPSP14324DB00630Alendronic acidInhibitorSmall moleculeApproved
TgeneFDPSP14324DB00710IbandronateInhibitorSmall moleculeApproved|Investigational
TgeneFDPSP14324DB00710IbandronateInhibitorSmall moleculeApproved|Investigational
TgeneFDPSP14324DB00710IbandronateInhibitorSmall moleculeApproved|Investigational
TgeneFDPSP14324DB00884Risedronic acidInhibitorSmall moleculeApproved|Investigational
TgeneFDPSP14324DB00884Risedronic acidInhibitorSmall moleculeApproved|Investigational
TgeneFDPSP14324DB00884Risedronic acidInhibitorSmall moleculeApproved|Investigational

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Related Diseases for RALGPS2-FDPS


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
TgeneFDPSC4225262POROKERATOSIS 9, MULTIPLE TYPES2CTD_human;GENOMICS_ENGLAND;UNIPROT
TgeneFDPSC0265970Porokeratosis, Disseminated Superficial Actinic1ORPHANET