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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: 25906

FusionGeneSummary for PAPD4_GPBP1

check button Fusion gene summary
Fusion gene informationFusion gene name: PAPD4_GPBP1
Fusion gene ID: 25906
HgeneTgene
Gene symbol

PAPD4

GPBP1

Gene ID

65056

Gene nameGC-rich promoter binding protein 1
SynonymsGPBP|SSH6|VASCULIN
Cytomap

5q11.2

Type of geneprotein-coding
Descriptionvasculinvascular wall-linked protein
Modification date20180523
UniProtAcc

Q86WP2

Ensembl transtripts involved in fusion geneENST00000453514, ENST00000423041, 
ENST00000504233, ENST00000428308, 
ENST00000502269, ENST00000296783, 
ENST00000424459, ENST00000514387, 
ENST00000506184, ENST00000454432, 
ENST00000511209, ENST00000264779, 
ENST00000538707, 
Fusion gene scores* DoF score2 X 2 X 2=88 X 8 X 6=384
# samples 29
** MAII scorelog2(2/8*10)=1.32192809488736log2(9/384*10)=-2.09310940439148
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: PAPD4 [Title/Abstract] AND GPBP1 [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

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
TCGARVACCTCGA-OR-A5J1-01APAPD4chr5

78908898

+GPBP1chr5

56471275

+
* 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
5UTR-5UTRENST00000453514ENST00000424459PAPD4chr5

78908898

+GPBP1chr5

56471275

+
5UTR-5UTRENST00000453514ENST00000514387PAPD4chr5

78908898

+GPBP1chr5

56471275

+
5UTR-5UTRENST00000453514ENST00000506184PAPD4chr5

78908898

+GPBP1chr5

56471275

+
5UTR-5UTRENST00000453514ENST00000454432PAPD4chr5

78908898

+GPBP1chr5

56471275

+
5UTR-intronENST00000453514ENST00000511209PAPD4chr5

78908898

+GPBP1chr5

56471275

+
5UTR-intronENST00000453514ENST00000264779PAPD4chr5

78908898

+GPBP1chr5

56471275

+
5UTR-intronENST00000453514ENST00000538707PAPD4chr5

78908898

+GPBP1chr5

56471275

+
5UTR-5UTRENST00000423041ENST00000424459PAPD4chr5

78908898

+GPBP1chr5

56471275

+
5UTR-5UTRENST00000423041ENST00000514387PAPD4chr5

78908898

+GPBP1chr5

56471275

+
5UTR-5UTRENST00000423041ENST00000506184PAPD4chr5

78908898

+GPBP1chr5

56471275

+
5UTR-5UTRENST00000423041ENST00000454432PAPD4chr5

78908898

+GPBP1chr5

56471275

+
5UTR-intronENST00000423041ENST00000511209PAPD4chr5

78908898

+GPBP1chr5

56471275

+
5UTR-intronENST00000423041ENST00000264779PAPD4chr5

78908898

+GPBP1chr5

56471275

+
5UTR-intronENST00000423041ENST00000538707PAPD4chr5

78908898

+GPBP1chr5

56471275

+
5UTR-5UTRENST00000504233ENST00000424459PAPD4chr5

78908898

+GPBP1chr5

56471275

+
5UTR-5UTRENST00000504233ENST00000514387PAPD4chr5

78908898

+GPBP1chr5

56471275

+
5UTR-5UTRENST00000504233ENST00000506184PAPD4chr5

78908898

+GPBP1chr5

56471275

+
5UTR-5UTRENST00000504233ENST00000454432PAPD4chr5

78908898

+GPBP1chr5

56471275

+
5UTR-intronENST00000504233ENST00000511209PAPD4chr5

78908898

+GPBP1chr5

56471275

+
5UTR-intronENST00000504233ENST00000264779PAPD4chr5

78908898

+GPBP1chr5

56471275

+
5UTR-intronENST00000504233ENST00000538707PAPD4chr5

78908898

+GPBP1chr5

56471275

+
5UTR-5UTRENST00000428308ENST00000424459PAPD4chr5

78908898

+GPBP1chr5

56471275

+
5UTR-5UTRENST00000428308ENST00000514387PAPD4chr5

78908898

+GPBP1chr5

56471275

+
5UTR-5UTRENST00000428308ENST00000506184PAPD4chr5

78908898

+GPBP1chr5

56471275

+
5UTR-5UTRENST00000428308ENST00000454432PAPD4chr5

78908898

+GPBP1chr5

56471275

+
5UTR-intronENST00000428308ENST00000511209PAPD4chr5

78908898

+GPBP1chr5

56471275

+
5UTR-intronENST00000428308ENST00000264779PAPD4chr5

78908898

+GPBP1chr5

56471275

+
5UTR-intronENST00000428308ENST00000538707PAPD4chr5

78908898

+GPBP1chr5

56471275

+
3UTR-5UTRENST00000502269ENST00000424459PAPD4chr5

78908898

+GPBP1chr5

56471275

+
3UTR-5UTRENST00000502269ENST00000514387PAPD4chr5

78908898

+GPBP1chr5

56471275

+
3UTR-5UTRENST00000502269ENST00000506184PAPD4chr5

78908898

+GPBP1chr5

56471275

+
3UTR-5UTRENST00000502269ENST00000454432PAPD4chr5

78908898

+GPBP1chr5

56471275

+
3UTR-intronENST00000502269ENST00000511209PAPD4chr5

78908898

+GPBP1chr5

56471275

+
3UTR-intronENST00000502269ENST00000264779PAPD4chr5

78908898

+GPBP1chr5

56471275

+
3UTR-intronENST00000502269ENST00000538707PAPD4chr5

78908898

+GPBP1chr5

56471275

+
5UTR-5UTRENST00000296783ENST00000424459PAPD4chr5

78908898

+GPBP1chr5

56471275

+
5UTR-5UTRENST00000296783ENST00000514387PAPD4chr5

78908898

+GPBP1chr5

56471275

+
5UTR-5UTRENST00000296783ENST00000506184PAPD4chr5

78908898

+GPBP1chr5

56471275

+
5UTR-5UTRENST00000296783ENST00000454432PAPD4chr5

78908898

+GPBP1chr5

56471275

+
5UTR-intronENST00000296783ENST00000511209PAPD4chr5

78908898

+GPBP1chr5

56471275

+
5UTR-intronENST00000296783ENST00000264779PAPD4chr5

78908898

+GPBP1chr5

56471275

+
5UTR-intronENST00000296783ENST00000538707PAPD4chr5

78908898

+GPBP1chr5

56471275

+

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FusionProtFeatures for PAPD4_GPBP1


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
PAPD4

GPBP1

Q86WP2

Lectin that binds to various sugars: galactose > mannose= fucose > N-acetylglucosamine > N-acetylgalactosamine(PubMed:10224141). Acts as a chemoattractant, probably involved inthe regulation of cell migration (PubMed:28301481).{ECO:0000269|PubMed:10224141, ECO:0000269|PubMed:28301481}. Functions as a GC-rich promoter-specific transactivatingtranscription factor. {ECO:0000250|UniProtKB:Q6NXH3}.

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 PAPD4_GPBP1


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 PAPD4_GPBP1


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
PAPD4ELAVL1, SOX2, CALCOCO2, RBPMS, BCCIP, NANOGGPBP1MCRS1, DNAL4, C20orf195, PLEKHF2, HNRNPD, SORT1, TSC22D2, SLX1A, PKP3, PLCD1, OTUB2, DUSP14, SELENBP1, EPB41L5, SERPINB5, HEPHL1, HIST1H1B, LRRC15, EIF3A, EIF3C, CRYAB


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 PAPD4_GPBP1


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.0 2018-04-02)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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RelatedDiseases for PAPD4_GPBP1


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