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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:CDS2-PAN3 (FusionGDB2 ID:HG8760TG255967)

Fusion Gene Summary for CDS2-PAN3

check button Fusion gene summary
Fusion gene informationFusion gene name: CDS2-PAN3
Fusion gene ID: hg8760tg255967
HgeneTgene
Gene symbol

CDS2

PAN3

Gene ID

8760

255967

Gene nameCDP-diacylglycerol synthase 2poly(A) specific ribonuclease subunit PAN3
Synonyms--
Cytomap('CDS2')('PAN3')

20p12.3

13q12.2

Type of geneprotein-codingprotein-coding
Descriptionphosphatidate cytidylyltransferase 2CDP-DAG synthase 2CDP-DG synthase 2CDP-DG synthetase 2CDP-diacylglycerol synthase (phosphatidate cytidylyltransferase) 2CDP-diglyceride diphosphorylase 2CDP-diglyceride pyrophosphorylase 2CDP-diglyceride synthasePAN2-PAN3 deadenylation complex subunit PAN3PAB-dependent poly(A)-specific ribonuclease subunit 3PAB-dependent poly(A)-specific ribonuclease subunit PAN3PAB1P-dependent poly(A)-nucleasePAB1P-dependent poly(A)-specific ribonucleasePABP-dependent poly(
Modification date2020032720200320
UniProtAcc

O95674

.
Ensembl transtripts involved in fusion geneENST00000379062, ENST00000460006, 
ENST00000379070, ENST00000535100, 
Fusion gene scores* DoF score6 X 7 X 5=21014 X 12 X 4=672
# samples 714
** MAII scorelog2(7/210*10)=-1.58496250072116
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(14/672*10)=-2.26303440583379
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: CDS2 [Title/Abstract] AND PAN3 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointCDS2(5107795)-PAN3(28830429), # samples:1
Anticipated loss of major functional domain due to fusion event.CDS2-PAN3 seems lost the major protein functional domain in Hgene partner, which is a cell metabolism gene due to the frame-shifted ORF.
CDS2-PAN3 seems lost the major protein functional domain in Tgene partner, which is a essential gene due to the frame-shifted ORF.
CDS2-PAN3 seems lost the major protein functional domain in Tgene partner, which is a kinase due to the frame-shifted ORF.
* 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
* 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
ChimerDB4STADTCGA-BR-8077-01ACDS2chr20

5107795

+PAN3chr13

28830429

+


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Fusion Gene ORF analysis for CDS2-PAN3

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
5CDS-3UTRENST00000379062ENST00000483842CDS2chr20

5107795

+PAN3chr13

28830429

+
5CDS-3UTRENST00000460006ENST00000483842CDS2chr20

5107795

+PAN3chr13

28830429

+
Frame-shiftENST00000379062ENST00000282391CDS2chr20

5107795

+PAN3chr13

28830429

+
Frame-shiftENST00000379062ENST00000380958CDS2chr20

5107795

+PAN3chr13

28830429

+
Frame-shiftENST00000379062ENST00000399613CDS2chr20

5107795

+PAN3chr13

28830429

+
Frame-shiftENST00000460006ENST00000282391CDS2chr20

5107795

+PAN3chr13

28830429

+
Frame-shiftENST00000460006ENST00000380958CDS2chr20

5107795

+PAN3chr13

28830429

+
Frame-shiftENST00000460006ENST00000399613CDS2chr20

5107795

+PAN3chr13

28830429

+
intron-3CDSENST00000379070ENST00000282391CDS2chr20

5107795

+PAN3chr13

28830429

+
intron-3CDSENST00000379070ENST00000380958CDS2chr20

5107795

+PAN3chr13

28830429

+
intron-3CDSENST00000379070ENST00000399613CDS2chr20

5107795

+PAN3chr13

28830429

+
intron-3CDSENST00000535100ENST00000282391CDS2chr20

5107795

+PAN3chr13

28830429

+
intron-3CDSENST00000535100ENST00000380958CDS2chr20

5107795

+PAN3chr13

28830429

+
intron-3CDSENST00000535100ENST00000399613CDS2chr20

5107795

+PAN3chr13

28830429

+
intron-3UTRENST00000379070ENST00000483842CDS2chr20

5107795

+PAN3chr13

28830429

+
intron-3UTRENST00000535100ENST00000483842CDS2chr20

5107795

+PAN3chr13

28830429

+

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 CDS2-PAN3


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)
CDS2chr205107795+PAN3chr1328830428+0.0007504910.9992495
CDS2chr205107795+PAN3chr1328830428+0.0007504910.9992495


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 CDS2-PAN3


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/:5107795/:28830429)
- 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
CDS2

O95674

.
FUNCTION: Catalyzes the conversion of phosphatidic acid (PA) to CDP-diacylglycerol (CDP-DAG), an essential intermediate in the synthesis of phosphatidylglycerol, cardiolipin and phosphatidylinositol (PubMed:25375833). Exhibits specificity for the nature of the acyl chains at the sn-1 and sn-2 positions in the substrate, PA and the preferred acyl chain composition is 1-stearoyl-2-arachidonoyl-sn-phosphatidic acid (PubMed:25375833). Plays an important role in regulating the growth and maturation of lipid droplets which are storage organelles at the center of lipid and energy homeostasis (PubMed:26946540, PubMed:31548309). {ECO:0000269|PubMed:25375833, ECO:0000269|PubMed:26946540, ECO:0000269|PubMed:31548309}.FUNCTION: Transcriptional activator which is required for calcium-dependent dendritic growth and branching in cortical neurons. Recruits CREB-binding protein (CREBBP) to nuclear bodies. Component of the CREST-BRG1 complex, a multiprotein complex that regulates promoter activation by orchestrating a calcium-dependent release of a repressor complex and a recruitment of an activator complex. In resting neurons, transcription of the c-FOS promoter is inhibited by BRG1-dependent recruitment of a phospho-RB1-HDAC1 repressor complex. Upon calcium influx, RB1 is dephosphorylated by calcineurin, which leads to release of the repressor complex. At the same time, there is increased recruitment of CREBBP to the promoter by a CREST-dependent mechanism, which leads to transcriptional activation. The CREST-BRG1 complex also binds to the NR2B promoter, and activity-dependent induction of NR2B expression involves a release of HDAC1 and recruitment of CREBBP (By similarity). {ECO:0000250}.

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 CDS2-PAN3


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 CDS2-PAN3


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 CDS2-PAN3


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 CDS2-PAN3


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