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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:CEP72-CDH9 (FusionGDB2 ID:15890)

Fusion Gene Summary for CEP72-CDH9

check button Fusion gene summary
Fusion gene informationFusion gene name: CEP72-CDH9
Fusion gene ID: 15890
HgeneTgene
Gene symbol

CEP72

CDH9

Gene ID

55722

1007

Gene namecentrosomal protein 72cadherin 9
Synonyms--
Cytomap

5p15.33

5p14.1

Type of geneprotein-codingprotein-coding
Descriptioncentrosomal protein of 72 kDacentrosomal protein 72kDacadherin-9T1-cadherin
Modification date2020032720200313
UniProtAcc

Q9P209

.
Ensembl transtripts involved in fusion geneENST00000444221, ENST00000264935, 
ENST00000514507, 
ENST00000231021, 
Fusion gene scores* DoF score7 X 5 X 5=1751 X 2 X 1=2
# samples 81
** MAII scorelog2(8/175*10)=-1.12928301694497
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(1/2*10)=2.32192809488736
Context

PubMed: CEP72 [Title/Abstract] AND CDH9 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointCEP72(639339)-CDH9(26902838), # samples:1
CEP72(639339)-CDH9(26903933), # samples:1
Anticipated loss of major functional domain due to fusion event.CEP72-CDH9 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

check buttonFusion gene breakpoints across CEP72 (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure

check buttonFusion gene breakpoints across CDH9 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure

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
ChimerDB4SARCTCGA-DX-A7EF-01ACEP72chr5

639339

+CDH9chr5

26902838

-
ChimerDB4SARCTCGA-DX-A7EF-01ACEP72chr5

639339

-CDH9chr5

26903933

-


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Fusion Gene ORF analysis for CEP72-CDH9

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-3CDSENST00000444221ENST00000231021CEP72chr5

639339

+CDH9chr5

26902838

-
3UTR-3CDSENST00000444221ENST00000231021CEP72chr5

639339

-CDH9chr5

26903933

-
Frame-shiftENST00000264935ENST00000231021CEP72chr5

639339

+CDH9chr5

26902838

-
In-frameENST00000264935ENST00000231021CEP72chr5

639339

-CDH9chr5

26903933

-
intron-3CDSENST00000514507ENST00000231021CEP72chr5

639339

+CDH9chr5

26902838

-
intron-3CDSENST00000514507ENST00000231021CEP72chr5

639339

-CDH9chr5

26903933

-

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)
ENST00000264935CEP72chr5639339-ENST00000231021CDH9chr526903933-35271432902990966

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
ENST00000264935ENST00000231021CEP72chr5639339-CDH9chr526903933-0.0004279770.999572

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Fusion Genomic Features for CEP72-CDH9


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)

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.
genomic feature

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.

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Fusion Protein Features for CEP72-CDH9


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/chr5:639339/chr5:26902838)
- 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
CEP72

Q9P209

.
FUNCTION: Involved in the recruitment of key centrosomal proteins to the centrosome. Provides centrosomal microtubule-nucleation activity on the gamma-tubulin ring complexes (gamma-TuRCs) and has critical roles in forming a focused bipolar spindle, which is needed for proper tension generation between sister chromatids. Required for localization of KIZ, AKAP9 and gamma-tubulin ring complexes (gamma-TuRCs) (PubMed:19536135). Involved in centriole duplication. Required for CDK5RAP22, CEP152, WDR62 and CEP63 centrosomal localization and promotes the centrosomal localization of CDK2 (PubMed:26297806). {ECO:0000269|PubMed:19536135, ECO:0000269|PubMed:26297806}.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
HgeneCEP72chr5:639339chr5:26903933ENST00000444221-711476_620387306.3333333333333Coiled coilOntology_term=ECO:0000255
HgeneCEP72chr5:639339chr5:26903933ENST00000264935-812111_150447648.0DomainNote=LRRCT
HgeneCEP72chr5:639339chr5:26903933ENST00000444221-711111_150387306.3333333333333DomainNote=LRRCT
HgeneCEP72chr5:639339chr5:26903933ENST00000264935-81229_50447648.0RepeatNote=LRR 1
HgeneCEP72chr5:639339chr5:26903933ENST00000264935-81255_76447648.0RepeatNote=LRR 2
HgeneCEP72chr5:639339chr5:26903933ENST00000264935-81277_98447648.0RepeatNote=LRR 3
HgeneCEP72chr5:639339chr5:26903933ENST00000444221-71129_50387306.3333333333333RepeatNote=LRR 1
HgeneCEP72chr5:639339chr5:26903933ENST00000444221-71155_76387306.3333333333333RepeatNote=LRR 2
HgeneCEP72chr5:639339chr5:26903933ENST00000444221-71177_98387306.3333333333333RepeatNote=LRR 3
TgeneCDH9chr5:639339chr5:26903933ENST00000231021412269_383270790.0DomainCadherin 3
TgeneCDH9chr5:639339chr5:26903933ENST00000231021412384_486270790.0DomainCadherin 4
TgeneCDH9chr5:639339chr5:26903933ENST00000231021412487_608270790.0DomainCadherin 5
TgeneCDH9chr5:639339chr5:26903933ENST00000231021412637_789270790.0Topological domainCytoplasmic
TgeneCDH9chr5:639339chr5:26903933ENST00000231021412616_636270790.0TransmembraneHelical

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneCEP72chr5:639339chr5:26903933ENST00000264935-812476_620447648.0Coiled coilOntology_term=ECO:0000255
TgeneCDH9chr5:639339chr5:26903933ENST00000231021412160_268270790.0DomainCadherin 2
TgeneCDH9chr5:639339chr5:26903933ENST0000023102141254_159270790.0DomainCadherin 1
TgeneCDH9chr5:639339chr5:26903933ENST0000023102141254_615270790.0Topological domainExtracellular


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Fusion Gene Sequence for CEP72-CDH9


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.
>15890_15890_1_CEP72-CDH9_CEP72_chr5_639339_ENST00000264935_CDH9_chr5_26903933_ENST00000231021_length(transcript)=3527nt_BP=1432nt
GGCTCTCGGTTCTGCCGACGCAGGTCCCGCCCCTCTCGTAGCCTCGCCCCGCCCGCCGCGCAGGCGCCGTCCGAGGGCTCCGTTTGAAAC
ATGGCGCGGGCTGGCCCTCGGCTGGTGCTGAGCGAGGAGGCGGTTCGGGCGAAGAGCGGCTTAGGGCCTCACCGCGACCTGGCTGAGCTT
CAGTCATTGTCTATTCCTGGAACTTACCAAGAGAAGATCACCCACCTGGGACATTCTCTGATGAGTTTAACAGGTCTGAAATCTTTGGAT
CTCTCGCGCAACTCCTTGGTTAGTCTGGAGGGCATTCAGTACCTGACTGCATTGGAGAGTCTCAATCTCTACTACAACTGCATCTCCTCG
TTGGCAGAAGTGTTTCGGCTCCACGCCTTAACCGAGCTCGTGGATGTGGACTTCCGGCTGAACCCCGTGGTGAAGGTTGAGCCTGACTAC
CGCCTTTTTGTTGTGCACCTGCTCCCCAAGCTCCAGCAGCTGGACGATCGCCCCGTGAGAGCAAGCGAGCGGAAGGCTTCCCGACTGCAT
TTTGCATCAGAGGACTCACTCGACTCCAAAGAGAGCGTCCCAGCTTCTTTGAAAGAGGGCAGACCACACCACCCCAGAGCCAAGTGCACC
GAGGCCTTGGCCAAGCAGAGCCTGGTCATGGATGCGGATGACGAGGCAGTCCTGAACCTCATTGCAGAGTGCGAGTGGGACCTCGGCAGG
CCTCCCGGGAGCACGAGCTTCAGCCAGAAGGGGCGTGAGGCCGACTCTCGTGGTTCCCAAGAATCCAGACATCTGTTGAGCCCGCAGTTG
GTACAGTACCAGTGTGGGGACTCTGGGAAGCAGGGCCGTGAGACGAGGAGGAGCAGCTGCAGAGGGTGCTGTCTGGAGAAGATGCCTTGG
AGCCAGCTCTGTGGAGAGCTTCCGCCACTGTACGGAGCGGAGCCAGAGGCCTCCCGTGCCCCCAGGCCACACACGTACTTCACCCCACAC
CCAGACTCCATGGATACCGAGGACTCGGCCTCTTCTCAGAAGTTGGATTTGTCAGGAGAAATGGTGCCTGGTCCCCTGCCAGCCCCCGGA
AAGTGCAGGAAGCGAAGAATGCCTGTTGGAAGATTCCAGACGTTTTCGGACCAGGAGGGTTTGGGCTGCCCGGAGAGAACTCATGGGTCC
TCCGTGCCCAAGGAGAGCCTGAGCAGACAGGACAGCTCAGAAAGCAGGAACGGGAGGACCTTGTCTCAGCCTGAGGCCTCGGAGACTGAG
GAGCAGAGGTCTCGGGGTGTGACCGACACCAGAGAGCCGTCTCCCGGGTCACACTCGGCTCTACCCGGGAAGAAGACGGCCCTGCAGGCG
GCGCTCCTGGAGACGCTCTTGGACCTGGTGGACAGGAGCTGGGGCGGCTGCAGGTCCCTGCACAGCAACGAGGCATTCCTTGGTACGTAT
CAATTTAATTCTCCTGAGTCTGTACCTCTTGGAACTCATCTTGGAAGGATAAAAGCCAATGACCCTGACGTGGGGGAAAATGCAGAAATG
GAGTATAGCATTGCTGAAGGAGATGGTGCAGACATGTTCGATGTCATCACTGACAAGGATACACAGGAAGGGATTATAACTGTCAAACAG
AATTTAGATTTTGAAAATCAAATGCTCTATACTTTAAGAGTGGATGCAAGTAACACTCACCCTGATCCACGATTCTTACACCTGGGACCT
TTCAAAGATACAGCTGTGGTCAAAATATCTGTGGAAGATATAGATGAGCCTCCTGTGTTCACTAAAGTCTCTTACTTGATAGAAGTAGAT
GAAGATGTAAAGGAGGGCAGTATCATTGGACAGGTTACAGCATACGATCCAGATGCCAGGAACAATTTAATAAAGTACTCTGTTGATCGG
CATACTGATATGGACCGTATTTTTGGTATTCACTCAGAAAATGGTTCTATTTTCACTTTGAAAGCCCTTGACCGGGAATCATCTCCTTGG
CATAACATCACTGTTACAGCCACAGAAATAAATAACCCAAAACAAAGTAGCCACATCCCTGTCTTCATCAGAATTCTAGATATAAATGAC
CATGCTCCGGAATTTGCCATGTATTATGAAACATTTGTTTGTGAAAATGCAAAACCTGGGCAGTTGATTCAGACTGTCAGTGTCATGGAT
AAGGATGACCCTCCCCGAGGTCACAAATTCTTTTTTGAACCAGTGCCAGAATTTACTCTCAATCCGAATTTCACCATTGTAGATAATAAA
GATAATACAGCAGGAATCATGACTCGGAAAGATGGCTACAGTCGCAACAAAATGAGCACCTACTTATTGCCGATTTTAATCTTTGACAAC
GATTATCCAATTCAAAGCAGCACTGGTACACTCACTATCCGTGTGTGTGCCTGCGATAATCAAGGAAACATGCAATCCTGCACCGCAGAA
GCCCTGATCCTTTCAGCCGGCCTGAGCACGGGAGCTCTCGTTGCGATTCTACTCTGTGTCCTCATACTGCTTATTTTAGTCGTGTTGTTT
GCTGCATTGAAGAGGCAAAGAAAAAAGGAACCTCTGATAATTTCAAAAGACGATGTCCGGGACAACATTGTGACCTACAACGATGAAGGC
GGCGGGGAAGAAGATACCCAAGCTTTTGACATTGGCACATTAAGGAATCCAGAGGCAAGAGAAGACAGTAAACTTAGACGGGATGTAATG
CCTGAAACTATTTTTCAGATAAGGAGGACTGTGCCTCTGTGGGAAAATATTGATGTACAAGATTTTATCCATCGAAGATTAAAAGAAAAC
GACGCAGACCCAAGTGCACCTCCATATGATTCGCTGGCAACGTATGCCTATGAAGGGAATGATTCCATAGCAGATTCGCTCAGTTCTTTG
GAATCTCTCACAGCTGATTGTAACCAAGATTATGATTACCTCAGTGACTGGGGGCCTCGTTTCAAAAAACTTGCCGATATGTATGGGGGT
GATGATAGTGACCGAGACTAAGAGGATTGTTTGACTTAATCAATATTAGTGGAAGTACTGTCTATGTTATTAGATTGAGTGGCCTGCATT
CTCTTCCTGGGAGGAAATCTTTCAAAAATTGAAGTTACAAACAATACGTAGATGTTGTCAAGTAGGGATTTGCTTAATCAGTAAGTCTTT
GTGAATGAATACGAATGATACAGATTTTTAAAAAAGTAATAACCAGTTCACCCTCTTTGCCTAACAATCTCGGAAGGAAAATATATCACA
TCAATAATCAATAAAAATAAGTAAAAGGCTTTTTGTGCCTTTTCTTAGGTATAATAATTTATAAATGTTTTCTTAACTGACTTTCAGTCA
CCTTTACAATTAAACTAAATATTGTGCAACCGCTTTGTAAATTAATATGAAGAAGATATATCCCTAATGAAATAGGAATGACTATTACTG
CCATATTTATTTAGTTGAAGAATGTCTTTGTGTTAATTCATTCATATTTTTATAAATGTATATTTATATTTTTGTATTTTTATGAAATAA

>15890_15890_1_CEP72-CDH9_CEP72_chr5_639339_ENST00000264935_CDH9_chr5_26903933_ENST00000231021_length(amino acids)=966AA_BP=445
MARAGPRLVLSEEAVRAKSGLGPHRDLAELQSLSIPGTYQEKITHLGHSLMSLTGLKSLDLSRNSLVSLEGIQYLTALESLNLYYNCISS
LAEVFRLHALTELVDVDFRLNPVVKVEPDYRLFVVHLLPKLQQLDDRPVRASERKASRLHFASEDSLDSKESVPASLKEGRPHHPRAKCT
EALAKQSLVMDADDEAVLNLIAECEWDLGRPPGSTSFSQKGREADSRGSQESRHLLSPQLVQYQCGDSGKQGRETRRSSCRGCCLEKMPW
SQLCGELPPLYGAEPEASRAPRPHTYFTPHPDSMDTEDSASSQKLDLSGEMVPGPLPAPGKCRKRRMPVGRFQTFSDQEGLGCPERTHGS
SVPKESLSRQDSSESRNGRTLSQPEASETEEQRSRGVTDTREPSPGSHSALPGKKTALQAALLETLLDLVDRSWGGCRSLHSNEAFLGTY
QFNSPESVPLGTHLGRIKANDPDVGENAEMEYSIAEGDGADMFDVITDKDTQEGIITVKQNLDFENQMLYTLRVDASNTHPDPRFLHLGP
FKDTAVVKISVEDIDEPPVFTKVSYLIEVDEDVKEGSIIGQVTAYDPDARNNLIKYSVDRHTDMDRIFGIHSENGSIFTLKALDRESSPW
HNITVTATEINNPKQSSHIPVFIRILDINDHAPEFAMYYETFVCENAKPGQLIQTVSVMDKDDPPRGHKFFFEPVPEFTLNPNFTIVDNK
DNTAGIMTRKDGYSRNKMSTYLLPILIFDNDYPIQSSTGTLTIRVCACDNQGNMQSCTAEALILSAGLSTGALVAILLCVLILLILVVLF
AALKRQRKKEPLIISKDDVRDNIVTYNDEGGGEEDTQAFDIGTLRNPEAREDSKLRRDVMPETIFQIRRTVPLWENIDVQDFIHRRLKEN

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Fusion Gene PPI Analysis for CEP72-CDH9


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 CEP72-CDH9


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 CEP72-CDH9


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