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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:CCND3-C6orf89 (FusionGDB2 ID:14113)

Fusion Gene Summary for CCND3-C6orf89

check button Fusion gene summary
Fusion gene informationFusion gene name: CCND3-C6orf89
Fusion gene ID: 14113
HgeneTgene
Gene symbol

CCND3

C6orf89

Gene ID

896

221477

Gene namecyclin D3chromosome 6 open reading frame 89
Synonyms-BRAP|PS1TP5TP1
Cytomap

6p21.1

6p21.2

Type of geneprotein-codingprotein-coding
DescriptionG1/S-specific cyclin-D3D3-type cyclinbombesin receptor-activated protein C6orf89amfion
Modification date2020031320200313
UniProtAcc.

Q6UWU4

Ensembl transtripts involved in fusion geneENST00000372988, ENST00000415497, 
ENST00000510503, ENST00000511686, 
ENST00000372987, ENST00000372991, 
ENST00000414200, ENST00000511642, 
ENST00000355190, ENST00000359359, 
ENST00000373685, ENST00000480824, 
ENST00000510325, 
Fusion gene scores* DoF score17 X 5 X 11=9358 X 6 X 6=288
# samples 218
** MAII scorelog2(21/935*10)=-2.15457703710888
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(8/288*10)=-1.84799690655495
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: CCND3 [Title/Abstract] AND C6orf89 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointCCND3(42016239)-C6orf89(36867202), # samples:1
CCND3(42016239)-C6orf89(36846784), # samples:1
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
HgeneCCND3

GO:0001934

positive regulation of protein phosphorylation

8114739

HgeneCCND3

GO:0045737

positive regulation of cyclin-dependent protein serine/threonine kinase activity

8114739

TgeneC6orf89

GO:0042060

wound healing

21857995

TgeneC6orf89

GO:0045787

positive regulation of cell cycle

21857995

TgeneC6orf89

GO:0050673

epithelial cell proliferation

21857995

TgeneC6orf89

GO:1901727

positive regulation of histone deacetylase activity

23460338


check buttonFusion gene breakpoints across CCND3 (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

check buttonFusion gene breakpoints across C6orf89 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

check button Fusion gene information from two resources (ChiTars 5.0 and ChimerDB 4.0)
* 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
ChimerDB4GBMTCGA-06-0129-01ACCND3chr6

42016239

-C6orf89chr6

36846784

+
ChimerDB4STADTCGA-FP-8211-01ACCND3chr6

42016239

-C6orf89chr6

36867202

+


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Fusion Gene ORF analysis for CCND3-C6orf89

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
5UTR-5UTRENST00000372988ENST00000355190CCND3chr6

42016239

-C6orf89chr6

36867202

+
5UTR-5UTRENST00000372988ENST00000359359CCND3chr6

42016239

-C6orf89chr6

36846784

+
5UTR-5UTRENST00000372988ENST00000359359CCND3chr6

42016239

-C6orf89chr6

36867202

+
5UTR-5UTRENST00000372988ENST00000373685CCND3chr6

42016239

-C6orf89chr6

36867202

+
5UTR-5UTRENST00000372988ENST00000480824CCND3chr6

42016239

-C6orf89chr6

36867202

+
5UTR-5UTRENST00000372988ENST00000510325CCND3chr6

42016239

-C6orf89chr6

36846784

+
5UTR-5UTRENST00000372988ENST00000510325CCND3chr6

42016239

-C6orf89chr6

36867202

+
5UTR-5UTRENST00000415497ENST00000355190CCND3chr6

42016239

-C6orf89chr6

36867202

+
5UTR-5UTRENST00000415497ENST00000359359CCND3chr6

42016239

-C6orf89chr6

36846784

+
5UTR-5UTRENST00000415497ENST00000359359CCND3chr6

42016239

-C6orf89chr6

36867202

+
5UTR-5UTRENST00000415497ENST00000373685CCND3chr6

42016239

-C6orf89chr6

36867202

+
5UTR-5UTRENST00000415497ENST00000480824CCND3chr6

42016239

-C6orf89chr6

36867202

+
5UTR-5UTRENST00000415497ENST00000510325CCND3chr6

42016239

-C6orf89chr6

36846784

+
5UTR-5UTRENST00000415497ENST00000510325CCND3chr6

42016239

-C6orf89chr6

36867202

+
5UTR-5UTRENST00000510503ENST00000355190CCND3chr6

42016239

-C6orf89chr6

36867202

+
5UTR-5UTRENST00000510503ENST00000359359CCND3chr6

42016239

-C6orf89chr6

36846784

+
5UTR-5UTRENST00000510503ENST00000359359CCND3chr6

42016239

-C6orf89chr6

36867202

+
5UTR-5UTRENST00000510503ENST00000373685CCND3chr6

42016239

-C6orf89chr6

36867202

+
5UTR-5UTRENST00000510503ENST00000480824CCND3chr6

42016239

-C6orf89chr6

36867202

+
5UTR-5UTRENST00000510503ENST00000510325CCND3chr6

42016239

-C6orf89chr6

36846784

+
5UTR-5UTRENST00000510503ENST00000510325CCND3chr6

42016239

-C6orf89chr6

36867202

+
5UTR-5UTRENST00000511686ENST00000355190CCND3chr6

42016239

-C6orf89chr6

36867202

+
5UTR-5UTRENST00000511686ENST00000359359CCND3chr6

42016239

-C6orf89chr6

36846784

+
5UTR-5UTRENST00000511686ENST00000359359CCND3chr6

42016239

-C6orf89chr6

36867202

+
5UTR-5UTRENST00000511686ENST00000373685CCND3chr6

42016239

-C6orf89chr6

36867202

+
5UTR-5UTRENST00000511686ENST00000480824CCND3chr6

42016239

-C6orf89chr6

36867202

+
5UTR-5UTRENST00000511686ENST00000510325CCND3chr6

42016239

-C6orf89chr6

36846784

+
5UTR-5UTRENST00000511686ENST00000510325CCND3chr6

42016239

-C6orf89chr6

36867202

+
5UTR-intronENST00000372988ENST00000355190CCND3chr6

42016239

-C6orf89chr6

36846784

+
5UTR-intronENST00000372988ENST00000373685CCND3chr6

42016239

-C6orf89chr6

36846784

+
5UTR-intronENST00000372988ENST00000480824CCND3chr6

42016239

-C6orf89chr6

36846784

+
5UTR-intronENST00000415497ENST00000355190CCND3chr6

42016239

-C6orf89chr6

36846784

+
5UTR-intronENST00000415497ENST00000373685CCND3chr6

42016239

-C6orf89chr6

36846784

+
5UTR-intronENST00000415497ENST00000480824CCND3chr6

42016239

-C6orf89chr6

36846784

+
5UTR-intronENST00000510503ENST00000355190CCND3chr6

42016239

-C6orf89chr6

36846784

+
5UTR-intronENST00000510503ENST00000373685CCND3chr6

42016239

-C6orf89chr6

36846784

+
5UTR-intronENST00000510503ENST00000480824CCND3chr6

42016239

-C6orf89chr6

36846784

+
5UTR-intronENST00000511686ENST00000355190CCND3chr6

42016239

-C6orf89chr6

36846784

+
5UTR-intronENST00000511686ENST00000373685CCND3chr6

42016239

-C6orf89chr6

36846784

+
5UTR-intronENST00000511686ENST00000480824CCND3chr6

42016239

-C6orf89chr6

36846784

+
intron-5UTRENST00000372987ENST00000355190CCND3chr6

42016239

-C6orf89chr6

36867202

+
intron-5UTRENST00000372987ENST00000359359CCND3chr6

42016239

-C6orf89chr6

36846784

+
intron-5UTRENST00000372987ENST00000359359CCND3chr6

42016239

-C6orf89chr6

36867202

+
intron-5UTRENST00000372987ENST00000373685CCND3chr6

42016239

-C6orf89chr6

36867202

+
intron-5UTRENST00000372987ENST00000480824CCND3chr6

42016239

-C6orf89chr6

36867202

+
intron-5UTRENST00000372987ENST00000510325CCND3chr6

42016239

-C6orf89chr6

36846784

+
intron-5UTRENST00000372987ENST00000510325CCND3chr6

42016239

-C6orf89chr6

36867202

+
intron-5UTRENST00000372991ENST00000355190CCND3chr6

42016239

-C6orf89chr6

36867202

+
intron-5UTRENST00000372991ENST00000359359CCND3chr6

42016239

-C6orf89chr6

36846784

+
intron-5UTRENST00000372991ENST00000359359CCND3chr6

42016239

-C6orf89chr6

36867202

+
intron-5UTRENST00000372991ENST00000373685CCND3chr6

42016239

-C6orf89chr6

36867202

+
intron-5UTRENST00000372991ENST00000480824CCND3chr6

42016239

-C6orf89chr6

36867202

+
intron-5UTRENST00000372991ENST00000510325CCND3chr6

42016239

-C6orf89chr6

36846784

+
intron-5UTRENST00000372991ENST00000510325CCND3chr6

42016239

-C6orf89chr6

36867202

+
intron-5UTRENST00000414200ENST00000355190CCND3chr6

42016239

-C6orf89chr6

36867202

+
intron-5UTRENST00000414200ENST00000359359CCND3chr6

42016239

-C6orf89chr6

36846784

+
intron-5UTRENST00000414200ENST00000359359CCND3chr6

42016239

-C6orf89chr6

36867202

+
intron-5UTRENST00000414200ENST00000373685CCND3chr6

42016239

-C6orf89chr6

36867202

+
intron-5UTRENST00000414200ENST00000480824CCND3chr6

42016239

-C6orf89chr6

36867202

+
intron-5UTRENST00000414200ENST00000510325CCND3chr6

42016239

-C6orf89chr6

36846784

+
intron-5UTRENST00000414200ENST00000510325CCND3chr6

42016239

-C6orf89chr6

36867202

+
intron-5UTRENST00000511642ENST00000355190CCND3chr6

42016239

-C6orf89chr6

36867202

+
intron-5UTRENST00000511642ENST00000359359CCND3chr6

42016239

-C6orf89chr6

36846784

+
intron-5UTRENST00000511642ENST00000359359CCND3chr6

42016239

-C6orf89chr6

36867202

+
intron-5UTRENST00000511642ENST00000373685CCND3chr6

42016239

-C6orf89chr6

36867202

+
intron-5UTRENST00000511642ENST00000480824CCND3chr6

42016239

-C6orf89chr6

36867202

+
intron-5UTRENST00000511642ENST00000510325CCND3chr6

42016239

-C6orf89chr6

36846784

+
intron-5UTRENST00000511642ENST00000510325CCND3chr6

42016239

-C6orf89chr6

36867202

+
intron-intronENST00000372987ENST00000355190CCND3chr6

42016239

-C6orf89chr6

36846784

+
intron-intronENST00000372987ENST00000373685CCND3chr6

42016239

-C6orf89chr6

36846784

+
intron-intronENST00000372987ENST00000480824CCND3chr6

42016239

-C6orf89chr6

36846784

+
intron-intronENST00000372991ENST00000355190CCND3chr6

42016239

-C6orf89chr6

36846784

+
intron-intronENST00000372991ENST00000373685CCND3chr6

42016239

-C6orf89chr6

36846784

+
intron-intronENST00000372991ENST00000480824CCND3chr6

42016239

-C6orf89chr6

36846784

+
intron-intronENST00000414200ENST00000355190CCND3chr6

42016239

-C6orf89chr6

36846784

+
intron-intronENST00000414200ENST00000373685CCND3chr6

42016239

-C6orf89chr6

36846784

+
intron-intronENST00000414200ENST00000480824CCND3chr6

42016239

-C6orf89chr6

36846784

+
intron-intronENST00000511642ENST00000355190CCND3chr6

42016239

-C6orf89chr6

36846784

+
intron-intronENST00000511642ENST00000373685CCND3chr6

42016239

-C6orf89chr6

36846784

+
intron-intronENST00000511642ENST00000480824CCND3chr6

42016239

-C6orf89chr6

36846784

+

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 CCND3-C6orf89


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)
CCND3chr642016238-C6orf89chr636846783+4.75E-050.99995255
CCND3chr642016238-C6orf89chr636867201+8.14E-131
CCND3chr642016238-C6orf89chr636846783+4.75E-050.99995255
CCND3chr642016238-C6orf89chr636867201+8.14E-131

check buttonDistribution of 44 human genomic features loci across 20kb length fusion breakpoint regions. We integrated a total of 44 different types of human genomic feature loci information across five big categories including virus integration sites, repeats, structural variants, chromatin states, and gene expression regulation. More details are in help page.

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 CCND3-C6orf89


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/:42016239/:36867202)
- 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
.C6orf89

Q6UWU4

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: Exhibits histone deacetylase (HDAC) enhancer properties (PubMed:23460338). May play a role in cell cycle progression and wound repair of bronchial epithelial cells (PubMed:21857995). {ECO:0000269|PubMed:21857995, ECO:0000269|PubMed:23460338}.

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 CCND3-C6orf89


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 CCND3-C6orf89


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 CCND3-C6orf89


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 CCND3-C6orf89


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