Fusion Gene Studies
in Kim Lab

FusionBase FusionGDB FusionGDB2 FusionPDB FusionNeoAntigen FusionAI FusionNW FGviewer Publication Contact
FusionGDB Logo

Home

Download

Statistics

Examples

Help

Contact

Center for Computational Systems Medicine
leaf

Fusion Gene Summary

leaf

Fusion Gene ORF analysis

leaf

Fusion Genomic Features

leaf

Fusion Protein Features

leaf

Fusion Gene Sequence

leaf

Fusion Gene PPI analysis

leaf

Related Drugs

leaf

Related Diseases

Fusion gene:CDC25A-RBM6 (FusionGDB2 ID:HG993TG10180)

Fusion Gene Summary for CDC25A-RBM6

check button Fusion gene summary
Fusion gene informationFusion gene name: CDC25A-RBM6
Fusion gene ID: hg993tg10180
HgeneTgene
Gene symbol

CDC25A

RBM6

Gene ID

993

10180

Gene namecell division cycle 25ARNA binding motif protein 6
SynonymsCDC25A23G2|DEF-3|DEF3|HLC-11|NY-LU-12|g16
Cytomap('CDC25A')('RBM6')

3p21.31

3p21.31

Type of geneprotein-codingprotein-coding
DescriptionM-phase inducer phosphatase 1CDC25 isoform A1-CAGCDC25A2-CAG isoformdual specificity phosphatase CDC25ARNA-binding protein 6RNA-binding protein DEF-3lung cancer antigen NY-LU-12lung cancer protooncogene 11
Modification date2020031320200313
UniProtAcc

P30304

.
Ensembl transtripts involved in fusion geneENST00000302506, ENST00000351231, 
ENST00000459900, 
Fusion gene scores* DoF score8 X 9 X 7=50422 X 21 X 10=4620
# samples 930
** MAII scorelog2(9/504*10)=-2.48542682717024
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(30/4620*10)=-3.94485844580754
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: CDC25A [Title/Abstract] AND RBM6 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointCDC25A(48224419)-RBM6(50085678), # samples:2
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
HgeneCDC25A

GO:0009314

response to radiation

21376736

HgeneCDC25A

GO:0034644

cellular response to UV

19966869



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
ChimerDB4SKCMTCGA-D3-A2JG-06ACDC25Achr3

48224419

-RBM6chr3

50085678

+


Top

Fusion Gene ORF analysis for CDC25A-RBM6

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-3UTRENST00000302506ENST00000441115CDC25Achr3

48224419

-RBM6chr3

50085678

+
5CDS-3UTRENST00000351231ENST00000441115CDC25Achr3

48224419

-RBM6chr3

50085678

+
5CDS-5UTRENST00000302506ENST00000266022CDC25Achr3

48224419

-RBM6chr3

50085678

+
5CDS-5UTRENST00000302506ENST00000422955CDC25Achr3

48224419

-RBM6chr3

50085678

+
5CDS-5UTRENST00000302506ENST00000442092CDC25Achr3

48224419

-RBM6chr3

50085678

+
5CDS-5UTRENST00000302506ENST00000443081CDC25Achr3

48224419

-RBM6chr3

50085678

+
5CDS-5UTRENST00000351231ENST00000266022CDC25Achr3

48224419

-RBM6chr3

50085678

+
5CDS-5UTRENST00000351231ENST00000422955CDC25Achr3

48224419

-RBM6chr3

50085678

+
5CDS-5UTRENST00000351231ENST00000442092CDC25Achr3

48224419

-RBM6chr3

50085678

+
5CDS-5UTRENST00000351231ENST00000443081CDC25Achr3

48224419

-RBM6chr3

50085678

+
5CDS-intronENST00000302506ENST00000421682CDC25Achr3

48224419

-RBM6chr3

50085678

+
5CDS-intronENST00000302506ENST00000539992CDC25Achr3

48224419

-RBM6chr3

50085678

+
5CDS-intronENST00000351231ENST00000421682CDC25Achr3

48224419

-RBM6chr3

50085678

+
5CDS-intronENST00000351231ENST00000539992CDC25Achr3

48224419

-RBM6chr3

50085678

+
intron-3UTRENST00000459900ENST00000441115CDC25Achr3

48224419

-RBM6chr3

50085678

+
intron-5UTRENST00000459900ENST00000266022CDC25Achr3

48224419

-RBM6chr3

50085678

+
intron-5UTRENST00000459900ENST00000422955CDC25Achr3

48224419

-RBM6chr3

50085678

+
intron-5UTRENST00000459900ENST00000442092CDC25Achr3

48224419

-RBM6chr3

50085678

+
intron-5UTRENST00000459900ENST00000443081CDC25Achr3

48224419

-RBM6chr3

50085678

+
intron-intronENST00000459900ENST00000421682CDC25Achr3

48224419

-RBM6chr3

50085678

+
intron-intronENST00000459900ENST00000539992CDC25Achr3

48224419

-RBM6chr3

50085678

+

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

Top

Fusion Genomic Features for CDC25A-RBM6


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)
CDC25Achr348224418-RBM6chr350085677+2.42E-060.9999976
CDC25Achr348224418-RBM6chr350085677+2.42E-060.9999976


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%

Top

Fusion Protein Features for CDC25A-RBM6


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/:48224419/:50085678)
- 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
CDC25A

P30304

.
FUNCTION: Tyrosine protein phosphatase which functions as a dosage-dependent inducer of mitotic progression. Directly dephosphorylates CDK1 and stimulates its kinase activity. Also dephosphorylates CDK2 in complex with cyclin E, in vitro.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


Top

Fusion Gene Sequence for CDC25A-RBM6


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.

Top

Fusion Gene PPI Analysis for CDC25A-RBM6


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


Top

Related Drugs for CDC25A-RBM6


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.8 2021-05-08)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

Top

Related Diseases for CDC25A-RBM6


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