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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:BEND7-CDK10 (FusionGDB2 ID:HG222389TG8558)

Fusion Gene Summary for BEND7-CDK10

check button Fusion gene summary
Fusion gene informationFusion gene name: BEND7-CDK10
Fusion gene ID: hg222389tg8558
HgeneTgene
Gene symbol

BEND7

CDK10

Gene ID

222389

8558

Gene nameBEN domain containing 7cyclin dependent kinase 10
SynonymsC10orf30ALSAS|PISSLRE
Cytomap('BEND7')('CDK10')

10p13

16q24.3

Type of geneprotein-codingprotein-coding
DescriptionBEN domain-containing protein 7cyclin-dependent kinase 10CDC2-related protein kinasecell division protein kinase 10cyclin-dependent kinase (CDC2-like) 10cyclin-dependent kinase related proteinserine/threonine protein kinase PISSLRE
Modification date2020031320200320
UniProtAcc.

Q15131

Ensembl transtripts involved in fusion geneENST00000341083, ENST00000378605, 
ENST00000396898, ENST00000396900, 
ENST00000486542, 
Fusion gene scores* DoF score3 X 4 X 3=362 X 2 X 2=8
# samples 52
** MAII scorelog2(5/36*10)=0.473931188332412
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
log2(2/8*10)=1.32192809488736
Context

PubMed: BEND7 [Title/Abstract] AND CDK10 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointBEND7(13522899)-CDK10(89755660), # 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
TgeneCDK10

GO:0018107

peptidyl-threonine phosphorylation

27104747



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-D7-5577-01ABEND7chr10

13522899

-CDK10chr16

89755660

+


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Fusion Gene ORF analysis for BEND7-CDK10

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-3UTRENST00000341083ENST00000514965BEND7chr10

13522899

-CDK10chr16

89755660

+
5CDS-3UTRENST00000378605ENST00000514965BEND7chr10

13522899

-CDK10chr16

89755660

+
5CDS-3UTRENST00000396898ENST00000514965BEND7chr10

13522899

-CDK10chr16

89755660

+
5CDS-3UTRENST00000396900ENST00000514965BEND7chr10

13522899

-CDK10chr16

89755660

+
5CDS-5UTRENST00000341083ENST00000505473BEND7chr10

13522899

-CDK10chr16

89755660

+
5CDS-5UTRENST00000378605ENST00000505473BEND7chr10

13522899

-CDK10chr16

89755660

+
5CDS-5UTRENST00000396898ENST00000505473BEND7chr10

13522899

-CDK10chr16

89755660

+
5CDS-5UTRENST00000396900ENST00000505473BEND7chr10

13522899

-CDK10chr16

89755660

+
5CDS-intronENST00000341083ENST00000331006BEND7chr10

13522899

-CDK10chr16

89755660

+
5CDS-intronENST00000341083ENST00000353379BEND7chr10

13522899

-CDK10chr16

89755660

+
5CDS-intronENST00000378605ENST00000331006BEND7chr10

13522899

-CDK10chr16

89755660

+
5CDS-intronENST00000378605ENST00000353379BEND7chr10

13522899

-CDK10chr16

89755660

+
5CDS-intronENST00000396898ENST00000331006BEND7chr10

13522899

-CDK10chr16

89755660

+
5CDS-intronENST00000396898ENST00000353379BEND7chr10

13522899

-CDK10chr16

89755660

+
5CDS-intronENST00000396900ENST00000331006BEND7chr10

13522899

-CDK10chr16

89755660

+
5CDS-intronENST00000396900ENST00000353379BEND7chr10

13522899

-CDK10chr16

89755660

+
intron-3UTRENST00000486542ENST00000514965BEND7chr10

13522899

-CDK10chr16

89755660

+
intron-5UTRENST00000486542ENST00000505473BEND7chr10

13522899

-CDK10chr16

89755660

+
intron-intronENST00000486542ENST00000331006BEND7chr10

13522899

-CDK10chr16

89755660

+
intron-intronENST00000486542ENST00000353379BEND7chr10

13522899

-CDK10chr16

89755660

+

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 BEND7-CDK10


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)
BEND7chr1013522898-CDK10chr1689755659+0.0021031530.9978968
BEND7chr1013522898-CDK10chr1689755659+0.0021031530.9978968


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 BEND7-CDK10


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/:13522899/:89755660)
- 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
.CDK10

Q15131

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: Cyclin-dependent kinase that phosphorylates the transcription factor ETS2 (in vitro) and positively controls its proteasomal degradation (in cells) (PubMed:24218572). Involved in the regulation of actin cytoskeleton organization through the phosphorylation of actin dynamics regulators such as PKN2. Is a negative regulator of ciliogenesis through phosphorylation of PKN2 and promotion of RhoA signaling (PubMed:27104747). {ECO:0000269|PubMed:24218572, ECO:0000269|PubMed:27104747}.

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 BEND7-CDK10


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 BEND7-CDK10


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 BEND7-CDK10


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 BEND7-CDK10


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
TgeneC3714756Intellectual Disability1GENOMICS_ENGLAND
TgeneC4540156AL KAISSI SYNDROME1GENOMICS_ENGLAND