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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:CHP1-RAD51B (FusionGDB2 ID:HG11261TG5890)

Fusion Gene Summary for CHP1-RAD51B

check button Fusion gene summary
Fusion gene informationFusion gene name: CHP1-RAD51B
Fusion gene ID: hg11261tg5890
HgeneTgene
Gene symbol

CHP1

RAD51B

Gene ID

11261

5890

Gene namecalcineurin like EF-hand protein 1RAD51 paralog B
SynonymsCHP|SLC9A1BP|SPAX9|Sid470p|p22|p24R51H2|RAD51L1|REC2
Cytomap('CHP1')('RAD51B')

15q15.1

14q24.1

Type of geneprotein-codingprotein-coding
Descriptioncalcineurin B homologous protein 1EF-hand calcium-binding domain-containing protein p22SLC9A1 binding proteincalcineurin B homologcalcineurin B-like proteincalcineurin homologous proteincalcium binding protein P22calcium-binding protein CHPcalciumDNA repair protein RAD51 homolog 2RAD51 homolog BRecA-like proteinrecombination repair protein
Modification date2020031320200313
UniProtAcc.

O15315

Ensembl transtripts involved in fusion geneENST00000558351, ENST00000334660, 
ENST00000560397, 
Fusion gene scores* DoF score11 X 13 X 7=100141 X 23 X 12=11316
# samples 1556
** MAII scorelog2(15/1001*10)=-2.73840756834011
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(56/11316*10)=-4.33679344445129
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: CHP1 [Title/Abstract] AND RAD51B [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointCHP1(41549188)-RAD51B(68758601), # samples:2
Anticipated loss of major functional domain due to fusion event.CHP1-RAD51B seems lost the major protein functional domain in Hgene partner, which is a essential gene due to the frame-shifted ORF.
CHP1-RAD51B seems lost the major protein functional domain in Tgene partner, which is a CGC due to the frame-shifted ORF.
CHP1-RAD51B seems lost the major protein functional domain in Tgene partner, which is a essential gene 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
HgeneCHP1

GO:0010923

negative regulation of phosphatase activity

10593895

HgeneCHP1

GO:0032088

negative regulation of NF-kappaB transcription factor activity

10593895

HgeneCHP1

GO:0032417

positive regulation of sodium:proton antiporter activity

8901634|11350981

HgeneCHP1

GO:0042308

negative regulation of protein import into nucleus

10593895

HgeneCHP1

GO:0051453

regulation of intracellular pH

8901634|15035633

HgeneCHP1

GO:0070885

negative regulation of calcineurin-NFAT signaling cascade

10593895



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
ChimerDB4OVTCGA-24-2027-01ACHP1chr15

41549188

+RAD51Bchr14

68758601

+


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Fusion Gene ORF analysis for CHP1-RAD51B

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
3UTR-3CDSENST00000558351ENST00000390683CHP1chr15

41549188

+RAD51Bchr14

68758601

+
3UTR-3CDSENST00000558351ENST00000471583CHP1chr15

41549188

+RAD51Bchr14

68758601

+
3UTR-3CDSENST00000558351ENST00000487270CHP1chr15

41549188

+RAD51Bchr14

68758601

+
3UTR-3CDSENST00000558351ENST00000487861CHP1chr15

41549188

+RAD51Bchr14

68758601

+
3UTR-3CDSENST00000558351ENST00000488612CHP1chr15

41549188

+RAD51Bchr14

68758601

+
3UTR-3UTRENST00000558351ENST00000469165CHP1chr15

41549188

+RAD51Bchr14

68758601

+
5CDS-3UTRENST00000334660ENST00000469165CHP1chr15

41549188

+RAD51Bchr14

68758601

+
5CDS-3UTRENST00000560397ENST00000469165CHP1chr15

41549188

+RAD51Bchr14

68758601

+
Frame-shiftENST00000334660ENST00000390683CHP1chr15

41549188

+RAD51Bchr14

68758601

+
Frame-shiftENST00000334660ENST00000471583CHP1chr15

41549188

+RAD51Bchr14

68758601

+
Frame-shiftENST00000334660ENST00000487270CHP1chr15

41549188

+RAD51Bchr14

68758601

+
Frame-shiftENST00000334660ENST00000487861CHP1chr15

41549188

+RAD51Bchr14

68758601

+
Frame-shiftENST00000334660ENST00000488612CHP1chr15

41549188

+RAD51Bchr14

68758601

+
Frame-shiftENST00000560397ENST00000390683CHP1chr15

41549188

+RAD51Bchr14

68758601

+
Frame-shiftENST00000560397ENST00000471583CHP1chr15

41549188

+RAD51Bchr14

68758601

+
Frame-shiftENST00000560397ENST00000487270CHP1chr15

41549188

+RAD51Bchr14

68758601

+
Frame-shiftENST00000560397ENST00000487861CHP1chr15

41549188

+RAD51Bchr14

68758601

+
Frame-shiftENST00000560397ENST00000488612CHP1chr15

41549188

+RAD51Bchr14

68758601

+

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 CHP1-RAD51B


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)
CHP1chr1541549188+RAD51Bchr1468758600+7.84E-111
CHP1chr1541549188+RAD51Bchr1468758600+7.84E-111


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 CHP1-RAD51B


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/:41549188/:68758601)
- 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
.RAD51B

O15315

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}.FUNCTION: Involved in the homologous recombination repair (HRR) pathway of double-stranded DNA breaks arising during DNA replication or induced by DNA-damaging agents. May promote the assembly of presynaptic RAD51 nucleoprotein filaments. Binds single-stranded DNA and double-stranded DNA and has DNA-dependent ATPase activity. Part of the RAD21 paralog protein complex BCDX2 which acts in the BRCA1-BRCA2-dependent HR pathway. Upon DNA damage, BCDX2 acts downstream of BRCA2 recruitment and upstream of RAD51 recruitment. BCDX2 binds predominantly to the intersection of the four duplex arms of the Holliday junction and to junction of replication forks. The BCDX2 complex was originally reported to bind single-stranded DNA, single-stranded gaps in duplex DNA and specifically to nicks in duplex DNA. The BCDX2 subcomplex RAD51B:RAD51C exhibits single-stranded DNA-dependent ATPase activity suggesting an involvement in early stages of the HR pathway. {ECO:0000269|PubMed:11751635, ECO:0000269|PubMed:11751636, ECO:0000269|PubMed:11842113, ECO:0000269|PubMed:12441335, ECO:0000269|PubMed:23108668, ECO:0000269|PubMed:23149936}.

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 CHP1-RAD51B


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 CHP1-RAD51B


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 CHP1-RAD51B


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 CHP1-RAD51B


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
TgeneC0006142Malignant neoplasm of breast1CTD_human
TgeneC0013146Drug abuse1CTD_human
TgeneC0013170Drug habituation1CTD_human
TgeneC0013222Drug Use Disorders1CTD_human
TgeneC0029231Organic Mental Disorders, Substance-Induced1CTD_human
TgeneC0038580Substance Dependence1CTD_human
TgeneC0038586Substance Use Disorders1CTD_human
TgeneC0236969Substance-Related Disorders1CTD_human
TgeneC0238033Carcinoma of Male Breast1CTD_human
TgeneC0242788Breast Neoplasms, Male1CTD_human
TgeneC0678222Breast Carcinoma1CTD_human
TgeneC0740858Substance abuse problem1CTD_human
TgeneC1257931Mammary Neoplasms, Human1CTD_human
TgeneC1458155Mammary Neoplasms1CTD_human
TgeneC1510472Drug Dependence1CTD_human
TgeneC4316881Prescription Drug Abuse1CTD_human
TgeneC4704874Mammary Carcinoma, Human1CTD_human