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Center for Computational Systems Medicine
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FusionGeneSummary

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FusionProtFeature

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FusionGeneSequence

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FusionGenePPI

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RelatedDrugs

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RelatedDiseases

Fusion gene ID: 41620

FusionGeneSummary for VPS52_FDPS

check button Fusion gene summary
Fusion gene informationFusion gene name: VPS52_FDPS
Fusion gene ID: 41620
HgeneTgene
Gene symbol

VPS52

FDPS

Gene ID

6293

2224

Gene nameVPS52, GARP complex subunitfarnesyl diphosphate synthase
SynonymsARE1|SAC2|SACM2L|dJ1033B10.5FPPS|FPS|POROK9
Cytomap

6p21.32

1q22

Type of geneprotein-codingprotein-coding
Descriptionvacuolar protein sorting-associated protein 52 homologSAC2 suppressor of actin mutations 2-like proteinvacuolar protein sorting 52 homologfarnesyl pyrophosphate synthase(2E,6E)-farnesyl diphosphate synthaseFPP synthaseFPP synthetasefarnesyl pyrophosphate synthetase, dimethylallyltranstransferase, geranyltranstransferase
Modification date2018052320180523
UniProtAcc

Q8N1B4

P14324

Ensembl transtripts involved in fusion geneENST00000482399, ENST00000445902, 
ENST00000478934, ENST00000436044, 
ENST00000448042, ENST00000488583, 
ENST00000441058, ENST00000471761, 
ENST00000443860, ENST00000483351, 
ENST00000383210, ENST00000489236, 
ENST00000485418, ENST00000421357, 
ENST00000428608, ENST00000484649, 
ENST00000447866, ENST00000368356, 
ENST00000487002, ENST00000356657, 
Fusion gene scores* DoF score4 X 3 X 3=363 X 3 X 1=9
# samples 55
** MAII scorelog2(5/36*10)=0.473931188332412
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
log2(5/9*10)=2.47393118833241
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
Context

PubMed: VPS52 [Title/Abstract] AND FDPS [Title/Abstract] AND fusion [Title/Abstract]

Functional or gene categories assigned by FusionGDB annotation
* 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
HgeneVPS52

GO:0007041

lysosomal transport

25799061


check button Fusion gene information from three resources
(ChiTars (NAR, 2018), tumorfusions (NAR, 2018), Gao et al. (Cell, 2018))
* 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.
Data typeSourceCancer typeSampleHgeneHchrHbpHstrandTgeneTchrTbpTstrand
ChiTaRS3.1CA312317VPS52chr6

4708717

+FDPSchr1

155285195

-
* LD: Li Ding group's fusion gene list
  RV: Roel Verhaak group's fusion gene list
  ChiTaRs fusion database

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-intronENST00000482399ENST00000447866VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000482399ENST00000368356VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000482399ENST00000487002VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000482399ENST00000356657VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000445902ENST00000447866VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000445902ENST00000368356VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000445902ENST00000487002VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000445902ENST00000356657VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000478934ENST00000447866VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000478934ENST00000368356VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000478934ENST00000487002VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000478934ENST00000356657VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000436044ENST00000447866VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000436044ENST00000368356VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000436044ENST00000487002VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000436044ENST00000356657VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000448042ENST00000447866VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000448042ENST00000368356VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000448042ENST00000487002VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000448042ENST00000356657VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000488583ENST00000447866VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000488583ENST00000368356VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000488583ENST00000487002VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000488583ENST00000356657VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000441058ENST00000447866VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000441058ENST00000368356VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000441058ENST00000487002VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000441058ENST00000356657VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000471761ENST00000447866VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000471761ENST00000368356VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000471761ENST00000487002VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000471761ENST00000356657VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000443860ENST00000447866VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000443860ENST00000368356VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000443860ENST00000487002VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000443860ENST00000356657VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000483351ENST00000447866VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000483351ENST00000368356VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000483351ENST00000487002VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000483351ENST00000356657VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000383210ENST00000447866VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000383210ENST00000368356VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000383210ENST00000487002VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000383210ENST00000356657VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000489236ENST00000447866VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000489236ENST00000368356VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000489236ENST00000487002VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000489236ENST00000356657VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000485418ENST00000447866VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000485418ENST00000368356VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000485418ENST00000487002VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000485418ENST00000356657VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000421357ENST00000447866VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000421357ENST00000368356VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000421357ENST00000487002VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000421357ENST00000356657VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000428608ENST00000447866VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000428608ENST00000368356VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000428608ENST00000487002VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000428608ENST00000356657VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000484649ENST00000447866VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000484649ENST00000368356VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000484649ENST00000487002VPS52chr6

4708717

+FDPSchr1

155285195

-
intron-intronENST00000484649ENST00000356657VPS52chr6

4708717

+FDPSchr1

155285195

-

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FusionProtFeatures for VPS52_FDPS


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
VPS52

Q8N1B4

FDPS

P14324

Key enzyme in isoprenoid biosynthesis which catalyzesthe formation of farnesyl diphosphate (FPP), a precursor forseveral classes of essential metabolites including sterols,dolichols, carotenoids, and ubiquinones. FPP also serves assubstrate for protein farnesylation and geranylgeranylation.Catalyzes the sequential condensation of isopentenyl pyrophosphatewith the allylic pyrophosphates, dimethylallyl pyrophosphate, andthen with the resultant geranylpyrophosphate to the ultimateproduct 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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FusionGeneSequence for VPS52_FDPS


check button For in-frame fusion transcripts, we provide the fusion transcript sequences and fusion amino acid sequences.
(nt: nucleotides, aa: amino acids)

* Fusion amino acid sequences.

* Fusion transcript sequences (only coding sequence (CDS) region).

* Fusion transcript sequences (Full-length transcript).

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FusionGenePPI for VPS52_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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RelatedDrugs for VPS52_FDPS


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.0 2018-04-02)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status
TgeneFDPSP14324DB00282PamidronateFarnesyl pyrophosphate synthasesmall moleculeapproved
TgeneFDPSP14324DB00399Zoledronic acidFarnesyl pyrophosphate synthasesmall moleculeapproved
TgeneFDPSP14324DB00630Alendronic acidFarnesyl pyrophosphate synthasesmall moleculeapproved
TgeneFDPSP14324DB00710IbandronateFarnesyl pyrophosphate synthasesmall moleculeapproved|investigational
TgeneFDPSP14324DB00884RisedronateFarnesyl pyrophosphate synthasesmall moleculeapproved|investigational

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RelatedDiseases for VPS52_FDPS


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneVPS52C0033578Prostatic Neoplasms1CTD_human
TgeneFDPSC4225262POROKERATOSIS 9, MULTIPLE TYPES1UNIPROT