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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: 31755

FusionGeneSummary for RPF1_PRKACB

check button Fusion gene summary
Fusion gene informationFusion gene name: RPF1_PRKACB
Fusion gene ID: 31755
HgeneTgene
Gene symbol

RPF1

PRKACB

Gene ID

80135

5567

Gene nameribosome production factor 1 homologprotein kinase cAMP-activated catalytic subunit beta
SynonymsBXDC5PKA C-beta|PKACB
Cytomap

1p22.3

1p31.1

Type of geneprotein-codingprotein-coding
Descriptionribosome production factor 12310066N05RikRNA processing factor 1 (RPF1)brix domain containing 5brix domain-containing protein 5ribosome biogenesis protein RPF1cAMP-dependent protein kinase catalytic subunit betacAMP-dependent protein kinase catalytic beta subunit isoform 4abprotein kinase A catalytic subunit betaprotein kinase, cAMP-dependent, beta catalytic subunitprotein kinase, cAMP-dependent, catalytic,
Modification date2018052320180519
UniProtAcc

Q9H9Y2

P22694

Ensembl transtripts involved in fusion geneENST00000370656, ENST00000370654, 
ENST00000370689, ENST00000370685, 
ENST00000394838, ENST00000370682, 
ENST00000394839, ENST00000370688, 
ENST00000470673, ENST00000370680, 
Fusion gene scores* DoF score1 X 1 X 1=16 X 5 X 5=150
# samples 16
** MAII scorelog2(1/1*10)=3.32192809488736log2(6/150*10)=-1.32192809488736
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: RPF1 [Title/Abstract] AND PRKACB [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
TgenePRKACB

GO:0006468

protein phosphorylation

12420224|21880142


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
TCGARVSKCMTCGA-D3-A3C1-06ARPF1chr1

84945192

+PRKACBchr1

84700863

+
* 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
Frame-shiftENST00000370656ENST00000370689RPF1chr1

84945192

+PRKACBchr1

84700863

+
Frame-shiftENST00000370656ENST00000370685RPF1chr1

84945192

+PRKACBchr1

84700863

+
Frame-shiftENST00000370656ENST00000394838RPF1chr1

84945192

+PRKACBchr1

84700863

+
Frame-shiftENST00000370656ENST00000370682RPF1chr1

84945192

+PRKACBchr1

84700863

+
Frame-shiftENST00000370656ENST00000394839RPF1chr1

84945192

+PRKACBchr1

84700863

+
5CDS-intronENST00000370656ENST00000370688RPF1chr1

84945192

+PRKACBchr1

84700863

+
5CDS-intronENST00000370656ENST00000470673RPF1chr1

84945192

+PRKACBchr1

84700863

+
5CDS-intronENST00000370656ENST00000370680RPF1chr1

84945192

+PRKACBchr1

84700863

+
Frame-shiftENST00000370654ENST00000370689RPF1chr1

84945192

+PRKACBchr1

84700863

+
Frame-shiftENST00000370654ENST00000370685RPF1chr1

84945192

+PRKACBchr1

84700863

+
Frame-shiftENST00000370654ENST00000394838RPF1chr1

84945192

+PRKACBchr1

84700863

+
Frame-shiftENST00000370654ENST00000370682RPF1chr1

84945192

+PRKACBchr1

84700863

+
Frame-shiftENST00000370654ENST00000394839RPF1chr1

84945192

+PRKACBchr1

84700863

+
5CDS-intronENST00000370654ENST00000370688RPF1chr1

84945192

+PRKACBchr1

84700863

+
5CDS-intronENST00000370654ENST00000470673RPF1chr1

84945192

+PRKACBchr1

84700863

+
5CDS-intronENST00000370654ENST00000370680RPF1chr1

84945192

+PRKACBchr1

84700863

+

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FusionProtFeatures for RPF1_PRKACB


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
RPF1

Q9H9Y2

PRKACB

P22694

May be required for ribosome biogenesis.{ECO:0000269|PubMed:11864606}.

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 RPF1_PRKACB


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 RPF1_PRKACB


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
RPF1KRTAP10-7, NOL12, RPL14, NIFK, NPM1, ZC3H3, KIAA0020, RPF2, RPL5, KRAS, IFI16, C10orf12, EGFR, MAK16, ZNF324, WDR74, ZNF324B, RPL26L1, CNBP, ZNF460, ZNF689, MAGEB10, RRP8, ZNF512, RPL30, E4F1, RPL18A, ZBTB11, RPL37A, H2AFY2, RPS16, SART3, ZCRB1, STAU2, UPF1, MRPS5, RPS6, FOXA1PRKACBNGFR, RYR2, TNP1, TNP2, SPP1, PRKAR2A, PRKACA, HSP90AA1, CSNK2A1, ARFGAP1, RPS6, RPL27A, ACVR1B, KIAA1279, ACTR2, ACTR3, ARPC1B, ARPC2, ARPC4, PFDN1, SUMO1, TP53RK, TPRKB, VAPB, HSP90AB1, PRKAR1A, AKAP5, PRKAR1B, PRKAR2B, DCAF7, DYNLL1, TRAP1, DYRK1A, MAPRE1, PDE4DIP, AKAP1, CDK5RAP2, AKAP9, VAPA, AKAP7, AKAP11, APPBP2, MLF1, NAPG, PER1, TALDO1, RABGGTB, C11orf49, AP2M1, DCLRE1C, CCNL2, AKAP14, ARF1, RPE, NTRK1, XPO1, FGFR1OP, CEP170P1, GPR161, PRKACG, HSP90AB4P, FKBP5, PKIG, BMP1, MRPS15, ETFB, NPAS1, DFFB, RAPGEF5, KLHL28, DNA2, TRIM25


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 RPF1_PRKACB


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 RPF1_PRKACB


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
TgenePRKACBC0005426Biliary Tract Neoplasm1CTD_human
TgenePRKACBC0033578Prostatic Neoplasms1CTD_human
TgenePRKACBC0206698Cholangiocarcinoma1CTD_human