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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:PER3-CAMTA1 (FusionGDB2 ID:HG8863TG23261)

Fusion Gene Summary for PER3-CAMTA1

check button Fusion gene summary
Fusion gene informationFusion gene name: PER3-CAMTA1
Fusion gene ID: hg8863tg23261
HgeneTgene
Gene symbol

PER3

CAMTA1

Gene ID

8863

23261

Gene nameperiod circadian regulator 3calmodulin binding transcription activator 1
SynonymsFASPS3|GIG13CANPMR
Cytomap('PER3')('CAMTA1')

1p36.23

1p36.31-p36.23

Type of geneprotein-codingprotein-coding
Descriptionperiod circadian protein homolog 3cell growth-inhibiting gene 13 proteincircadian clock protein PERIOD 3period circadian clock 3period circadian protein 3calmodulin-binding transcription activator 1
Modification date2020031320200315
UniProtAcc..
Ensembl transtripts involved in fusion geneENST00000361923, ENST00000377532, 
ENST00000377541, 
Fusion gene scores* DoF score11 X 10 X 5=55021 X 19 X 8=3192
# samples 1024
** MAII scorelog2(10/550*10)=-2.4594316186373
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(24/3192*10)=-3.73335434061383
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: PER3 [Title/Abstract] AND CAMTA1 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointPER3(7854068)-CAMTA1(7792508), # samples:1
Anticipated loss of major functional domain due to fusion event.PER3-CAMTA1 seems lost the major protein functional domain in Tgene partner, which is a CGC due to the frame-shifted ORF.
PER3-CAMTA1 seems lost the major protein functional domain in Tgene partner, which is a essential gene due to the frame-shifted ORF.
PER3-CAMTA1 seems lost the major protein functional domain in Tgene partner, which is a transcription factor due to the frame-shifted ORF.
PER3-CAMTA1 seems lost the major protein functional domain in Tgene partner, which is a tumor suppressor 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
HgenePER3

GO:0000122

negative regulation of transcription by RNA polymerase II

26903630



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
ChimerDB4HNSCTCGA-CV-7242-01APER3chr1

7854068

+CAMTA1chr1

7792508

+


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Fusion Gene ORF analysis for PER3-CAMTA1

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-intronENST00000361923ENST00000467404PER3chr1

7854068

+CAMTA1chr1

7792508

+
5CDS-intronENST00000361923ENST00000473578PER3chr1

7854068

+CAMTA1chr1

7792508

+
5CDS-intronENST00000361923ENST00000476163PER3chr1

7854068

+CAMTA1chr1

7792508

+
5CDS-intronENST00000361923ENST00000476864PER3chr1

7854068

+CAMTA1chr1

7792508

+
5CDS-intronENST00000361923ENST00000557126PER3chr1

7854068

+CAMTA1chr1

7792508

+
5CDS-intronENST00000377532ENST00000467404PER3chr1

7854068

+CAMTA1chr1

7792508

+
5CDS-intronENST00000377532ENST00000473578PER3chr1

7854068

+CAMTA1chr1

7792508

+
5CDS-intronENST00000377532ENST00000476163PER3chr1

7854068

+CAMTA1chr1

7792508

+
5CDS-intronENST00000377532ENST00000476864PER3chr1

7854068

+CAMTA1chr1

7792508

+
5CDS-intronENST00000377532ENST00000557126PER3chr1

7854068

+CAMTA1chr1

7792508

+
5CDS-intronENST00000377541ENST00000467404PER3chr1

7854068

+CAMTA1chr1

7792508

+
5CDS-intronENST00000377541ENST00000473578PER3chr1

7854068

+CAMTA1chr1

7792508

+
5CDS-intronENST00000377541ENST00000476163PER3chr1

7854068

+CAMTA1chr1

7792508

+
5CDS-intronENST00000377541ENST00000476864PER3chr1

7854068

+CAMTA1chr1

7792508

+
5CDS-intronENST00000377541ENST00000557126PER3chr1

7854068

+CAMTA1chr1

7792508

+
Frame-shiftENST00000361923ENST00000303635PER3chr1

7854068

+CAMTA1chr1

7792508

+
Frame-shiftENST00000361923ENST00000439411PER3chr1

7854068

+CAMTA1chr1

7792508

+
Frame-shiftENST00000377532ENST00000303635PER3chr1

7854068

+CAMTA1chr1

7792508

+
Frame-shiftENST00000377532ENST00000439411PER3chr1

7854068

+CAMTA1chr1

7792508

+
Frame-shiftENST00000377541ENST00000303635PER3chr1

7854068

+CAMTA1chr1

7792508

+
Frame-shiftENST00000377541ENST00000439411PER3chr1

7854068

+CAMTA1chr1

7792508

+

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 PER3-CAMTA1


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)
PER3chr17854068+CAMTA1chr17792507+3.41E-060.99999654
PER3chr17854068+CAMTA1chr17792507+3.41E-060.99999654


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 PER3-CAMTA1


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/:7854068/:7792508)
- 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
..
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: 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 PER3-CAMTA1


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 PER3-CAMTA1


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 PER3-CAMTA1


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 PER3-CAMTA1


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgenePER3C0005586Bipolar Disorder5PSYGENET
HgenePER3C0011570Mental Depression2PSYGENET
HgenePER3C0011581Depressive disorder2PSYGENET
HgenePER3C0085159Seasonal Affective Disorder2PSYGENET
HgenePER3C0001973Alcoholic Intoxication, Chronic1PSYGENET
HgenePER3C0006142Malignant neoplasm of breast1CTD_human
HgenePER3C0023473Myeloid Leukemia, Chronic1CTD_human
HgenePER3C0038587Substance Withdrawal Syndrome1CTD_human
HgenePER3C0086189Drug Withdrawal Symptoms1CTD_human
HgenePER3C0087169Withdrawal Symptoms1CTD_human
HgenePER3C0678222Breast Carcinoma1CTD_human
HgenePER3C1257931Mammary Neoplasms, Human1CTD_human
HgenePER3C1458155Mammary Neoplasms1CTD_human
HgenePER3C1858496Advanced Sleep-Phase Syndrome, Familial1CTD_human;ORPHANET
HgenePER3C4704874Mammary Carcinoma, Human1CTD_human
TgeneC0206732Epithelioid hemangioendothelioma1ORPHANET
TgeneC3553661CEREBELLAR ATAXIA, NONPROGRESSIVE, WITH MENTAL RETARDATION1CTD_human;GENOMICS_ENGLAND;ORPHANET