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Center for Computational Systems Medicine level1
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Fusion Gene Summary

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Fusion Gene Sample Information

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Fusion ORF Analysis

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Fusion Amino Acid Sequences

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Fusion Protein Functional Features

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Fusion Protein-Protein Interaction

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Related drugs with this fusion protein

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Related disease with this fusion protein

Fusion Protein:NCOA5-CDH4

Fusion Protein Summary

check button Fusion gene summary
Fusion partner gene informationFusion gene name: NCOA5-CDH4
FusionPDB ID: 57779
FusionGDB2.0 ID: 57779
HgeneTgene
Gene symbol

NCOA5

CDH4

Gene ID

57727

1002

Gene namenuclear receptor coactivator 5cadherin 4
SynonymsCIA|bA465L10.6CAD4|R-CAD|RCAD
Cytomap

20q13.12

20q13.33

Type of geneprotein-codingprotein-coding
Descriptionnuclear receptor coactivator 5NCoA-5coactivator independent of AF-2cadherin-4R-cadherincadherin 4, type 1, R-cadherin (retinal)cadherin 4, type 1, preproproteinretinal cadherin
Modification date2020031320200313
UniProtAcc

Q9HCD5

P55283

Ensembl transtripts involved in fusion geneENST idsENST00000290231, ENST00000543233, 
ENST00000360469, 
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)* DoF score9 X 11 X 4=39616 X 14 X 7=1568
# samples 1021
** MAII scorelog2(10/396*10)=-1.98550043030488
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(21/1568*10)=-2.90046432644909
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context (manual curation of fusion genes in FusionPDB)

PubMed: NCOA5 [Title/Abstract] AND CDH4 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)NCOA5(44708026)-CDH4(60318619), # samples:3
Anticipated loss of major functional domain due to fusion event.NCOA5-CDH4 seems lost the major protein functional domain in Hgene partner, which is a CGC by not retaining the major functional domain in the partially deleted in-frame ORF.
NCOA5-CDH4 seems lost the major protein functional domain in Hgene partner, which is a CGC by not retaining the major functional domain in the partially deleted in-frame ORF.
NCOA5-CDH4 seems lost the major protein functional domain in Hgene partner, which is a essential gene by not retaining the major functional domain in the partially deleted in-frame ORF.
NCOA5-CDH4 seems lost the major protein functional domain in Hgene partner, which is a essential gene by not retaining the major functional domain in the partially deleted in-frame 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 NCOA5 (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 CDH4 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure


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Fusion Gene Sample Information

check buttonFusion gene information from FusionGDB2.0.
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
ChimerDB4BRCATCGA-A8-A091-01ANCOA5chr20

44708026

-CDH4chr20

60318619

+
ChimerDB4BRCATCGA-A8-A091-01ANCOA5chr20

44718456

-CDH4chr20

60318619

+
ChimerDB4BRCATCGA-A8-A091NCOA5chr20

44708025

-CDH4chr20

60318618

+
ChimerDB4BRCATCGA-A8-A091NCOA5chr20

44718455

-CDH4chr20

60318618

+


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Fusion ORF Analysis


check buttonFusion information from ORFfinder translation from full-length transcript sequence from FusionPDB.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandSeq length
(transcript)
BP loci
(transcript)
Predicted start
(transcript)
Predicted stop
(transcript)
Seq length
(amino acids)
ENST00000290231NCOA5chr2044708026-ENST00000360469CDH4chr2060318619+64572032562784842
ENST00000290231NCOA5chr2044708025-ENST00000360469CDH4chr2060318618+64572032562784842

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
ENST00000290231ENST00000360469NCOA5chr2044708026-CDH4chr2060318619+0.003769360.99623066
ENST00000290231ENST00000360469NCOA5chr2044708025-CDH4chr2060318618+0.003769360.99623066

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Fusion Amino Acid Sequences


check button For individual full-length fusion transcript sequence from FusionPDB, we ran ORFfinder and chose the longest ORF among the all predicted ones.
>FusionGDB ID_FusionGDB isoform ID_FGname_Hgene_Hchr_Hbp_Henst_Tgene_Tchr_Tbp_Tenst_length(fusion AA) seq_BP

>57779_57779_1_NCOA5-CDH4_NCOA5_chr20_44708025_ENST00000290231_CDH4_chr20_60318618_ENST00000360469_length(amino acids)=842AA_BP=
MDFKVGADGTVFATRELQVPSEQVAFTVTAWDSQTAEKWDAVVRLLVAQTSSPHSGHKPQKGKKVVALDPSPPPKDTLLPWPQHQNANGL
RRRKRDWVIPPINVPENSRGPFPQQLVRIRSDKDNDIPIRYSITGVGADQPPMEVFSIDSMSGRMYVTRPMDREEHASYHLRAHAVDMNG
NKVENPIDLYIYVIDMNDNRPEFINQVYNGSVDEGSKPGTYVMTVTANDADDSTTANGMVRYRIVTQTPQSPSQNMFTINSETGDIVTVA
AGLDREKVQQYTVIVQATDMEGNLNYGLSNTATAIITVTDVNDNPPEFTASTFAGEVPENRVETVVANLTVMDRDQPHSPNWNAVYRIIS
GDPSGHFSVRTDPVTNEGMVTVVKAVDYELNRAFMLTVMVSNQAPLASGIQMSFQSTAGVTISIMDINEAPYFPSNHKLIRLEEGVPPGT
VLTTFSAVDPDRFMQQAVRYSKLSDPASWLHINATNGQITTAAVLDRESLYTKNNVYEATFLAADNGIPPASGTGTLQIYLIDINDNAPE
LLPKEAQICEKPNLNAINITAADADVDPNIGPYVFELPFVPAAVRKNWTITRLNGDYAQLSLRILYLEAGMYDVPIIVTDSGNPPLSNTS
IIKVKVCPCDDNGDCTTIGAVAAAGLGTGAIVAILICILILLTMVLLFVMWMKRREKERHTKQLLIDPEDDVRDNILKYDEEGGGEEDQD
YDLSQLQQPEAMGHVPSKAPGVRRVDERPVGAEPQYPIRPMVPHPGDIGDFINEGLRAADNDPTAPPYDSLLVFDYEGSGSTAGSVSSLN

--------------------------------------------------------------

>57779_57779_2_NCOA5-CDH4_NCOA5_chr20_44708026_ENST00000290231_CDH4_chr20_60318619_ENST00000360469_length(amino acids)=842AA_BP=
MDFKVGADGTVFATRELQVPSEQVAFTVTAWDSQTAEKWDAVVRLLVAQTSSPHSGHKPQKGKKVVALDPSPPPKDTLLPWPQHQNANGL
RRRKRDWVIPPINVPENSRGPFPQQLVRIRSDKDNDIPIRYSITGVGADQPPMEVFSIDSMSGRMYVTRPMDREEHASYHLRAHAVDMNG
NKVENPIDLYIYVIDMNDNRPEFINQVYNGSVDEGSKPGTYVMTVTANDADDSTTANGMVRYRIVTQTPQSPSQNMFTINSETGDIVTVA
AGLDREKVQQYTVIVQATDMEGNLNYGLSNTATAIITVTDVNDNPPEFTASTFAGEVPENRVETVVANLTVMDRDQPHSPNWNAVYRIIS
GDPSGHFSVRTDPVTNEGMVTVVKAVDYELNRAFMLTVMVSNQAPLASGIQMSFQSTAGVTISIMDINEAPYFPSNHKLIRLEEGVPPGT
VLTTFSAVDPDRFMQQAVRYSKLSDPASWLHINATNGQITTAAVLDRESLYTKNNVYEATFLAADNGIPPASGTGTLQIYLIDINDNAPE
LLPKEAQICEKPNLNAINITAADADVDPNIGPYVFELPFVPAAVRKNWTITRLNGDYAQLSLRILYLEAGMYDVPIIVTDSGNPPLSNTS
IIKVKVCPCDDNGDCTTIGAVAAAGLGTGAIVAILICILILLTMVLLFVMWMKRREKERHTKQLLIDPEDDVRDNILKYDEEGGGEEDQD
YDLSQLQQPEAMGHVPSKAPGVRRVDERPVGAEPQYPIRPMVPHPGDIGDFINEGLRAADNDPTAPPYDSLLVFDYEGSGSTAGSVSSLN

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Fusion Protein Functional Features


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/chr20:44708026/chr20:60318619)
- 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
NCOA5

Q9HCD5

CDH4

P55283

FUNCTION: Nuclear receptor coregulator that can have both coactivator and corepressor functions. Interacts with nuclear receptors for steroids (ESR1 and ESR2) independently of the steroid binding domain (AF-2) of the ESR receptors, and with the orphan nuclear receptor NR1D2. Involved in the coactivation of nuclear steroid receptors (ER) as well as the corepression of MYC in response to 17-beta-estradiol (E2). {ECO:0000269|PubMed:15073177}.FUNCTION: Cadherins are calcium-dependent cell adhesion proteins. They preferentially interact with themselves in a homophilic manner in connecting cells; cadherins may thus contribute to the sorting of heterogeneous cell types. May play an important role in retinal development.

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.
- Retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
TgeneCDH4chr20:44708025chr20:60318618ENST00000360469116873_88856.333333333333336917.0Compositional biasNote=Ser-rich
TgeneCDH4chr20:44708025chr20:60318618ENST00000543233015873_8880843.0Compositional biasNote=Ser-rich
TgeneCDH4chr20:44708026chr20:60318619ENST00000360469116873_88856.333333333333336917.0Compositional biasNote=Ser-rich
TgeneCDH4chr20:44708026chr20:60318619ENST00000543233015873_8880843.0Compositional biasNote=Ser-rich
TgeneCDH4chr20:44708025chr20:60318618ENST00000360469116170_27756.333333333333336917.0DomainCadherin 1
TgeneCDH4chr20:44708025chr20:60318618ENST00000360469116278_39256.333333333333336917.0DomainCadherin 2
TgeneCDH4chr20:44708025chr20:60318618ENST00000360469116393_50756.333333333333336917.0DomainCadherin 3
TgeneCDH4chr20:44708025chr20:60318618ENST00000360469116508_61356.333333333333336917.0DomainCadherin 4
TgeneCDH4chr20:44708025chr20:60318618ENST00000360469116614_72456.333333333333336917.0DomainCadherin 5
TgeneCDH4chr20:44708025chr20:60318618ENST00000543233015170_2770843.0DomainCadherin 1
TgeneCDH4chr20:44708025chr20:60318618ENST00000543233015278_3920843.0DomainCadherin 2
TgeneCDH4chr20:44708025chr20:60318618ENST00000543233015393_5070843.0DomainCadherin 3
TgeneCDH4chr20:44708025chr20:60318618ENST00000543233015508_6130843.0DomainCadherin 4
TgeneCDH4chr20:44708025chr20:60318618ENST00000543233015614_7240843.0DomainCadherin 5
TgeneCDH4chr20:44708026chr20:60318619ENST00000360469116170_27756.333333333333336917.0DomainCadherin 1
TgeneCDH4chr20:44708026chr20:60318619ENST00000360469116278_39256.333333333333336917.0DomainCadherin 2
TgeneCDH4chr20:44708026chr20:60318619ENST00000360469116393_50756.333333333333336917.0DomainCadherin 3
TgeneCDH4chr20:44708026chr20:60318619ENST00000360469116508_61356.333333333333336917.0DomainCadherin 4
TgeneCDH4chr20:44708026chr20:60318619ENST00000360469116614_72456.333333333333336917.0DomainCadherin 5
TgeneCDH4chr20:44708026chr20:60318619ENST00000543233015170_2770843.0DomainCadherin 1
TgeneCDH4chr20:44708026chr20:60318619ENST00000543233015278_3920843.0DomainCadherin 2
TgeneCDH4chr20:44708026chr20:60318619ENST00000543233015393_5070843.0DomainCadherin 3
TgeneCDH4chr20:44708026chr20:60318619ENST00000543233015508_6130843.0DomainCadherin 4
TgeneCDH4chr20:44708026chr20:60318619ENST00000543233015614_7240843.0DomainCadherin 5
TgeneCDH4chr20:44708025chr20:60318618ENST00000360469116170_73456.333333333333336917.0Topological domainExtracellular
TgeneCDH4chr20:44708025chr20:60318618ENST00000360469116757_91656.333333333333336917.0Topological domainCytoplasmic
TgeneCDH4chr20:44708025chr20:60318618ENST00000543233015170_7340843.0Topological domainExtracellular
TgeneCDH4chr20:44708025chr20:60318618ENST00000543233015757_9160843.0Topological domainCytoplasmic
TgeneCDH4chr20:44708026chr20:60318619ENST00000360469116170_73456.333333333333336917.0Topological domainExtracellular
TgeneCDH4chr20:44708026chr20:60318619ENST00000360469116757_91656.333333333333336917.0Topological domainCytoplasmic
TgeneCDH4chr20:44708026chr20:60318619ENST00000543233015170_7340843.0Topological domainExtracellular
TgeneCDH4chr20:44708026chr20:60318619ENST00000543233015757_9160843.0Topological domainCytoplasmic
TgeneCDH4chr20:44708025chr20:60318618ENST00000360469116735_75656.333333333333336917.0TransmembraneHelical
TgeneCDH4chr20:44708025chr20:60318618ENST00000543233015735_7560843.0TransmembraneHelical
TgeneCDH4chr20:44708026chr20:60318619ENST00000360469116735_75656.333333333333336917.0TransmembraneHelical
TgeneCDH4chr20:44708026chr20:60318619ENST00000543233015735_7560843.0TransmembraneHelical

- Not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneNCOA5chr20:44708025chr20:60318618ENST00000290231-287_15012.666666666666666580.0Compositional biasNote=Arg/Asp-rich (mixed charge)
HgeneNCOA5chr20:44708026chr20:60318619ENST00000290231-287_15012.666666666666666580.0Compositional biasNote=Arg/Asp-rich (mixed charge)
HgeneNCOA5chr20:44708025chr20:60318618ENST00000290231-28345_34912.666666666666666580.0MotifNote=LXXLL motif
HgeneNCOA5chr20:44708026chr20:60318619ENST00000290231-28345_34912.666666666666666580.0MotifNote=LXXLL motif
HgeneNCOA5chr20:44708025chr20:60318618ENST00000290231-281_15812.666666666666666580.0RegionNote=Transcription repression
HgeneNCOA5chr20:44708025chr20:60318618ENST00000290231-28458_57912.666666666666666580.0RegionNote=Transcription activation
HgeneNCOA5chr20:44708026chr20:60318619ENST00000290231-281_15812.666666666666666580.0RegionNote=Transcription repression
HgeneNCOA5chr20:44708026chr20:60318619ENST00000290231-28458_57912.666666666666666580.0RegionNote=Transcription activation


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Fusion Protein-Protein Interaction


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 from validated records (BIOGRID-3.4.160)
GenePPI interactors


check button Protein-protein interactors based on sequence similarity (STRING)
GeneSTRING network
NCOA5
CDH4


check button - Retained interactions in fusion protein (protein functional feature from UniProt).
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenStill interaction with


check button - Lost interactions due to fusion (protein functional feature from UniProt).
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


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Related Drugs to NCOA5-CDH4


check button Drugs used for this fusion-positive patient.
(Manual curation of PubMed, 04-30-2022 + MyCancerGenome)
HgeneTgeneDrugSourcePMID

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Related Diseases to NCOA5-CDH4


check button Diseases that have this fusion gene.
(Manual curation of PubMed, 04-30-2022 + MyCancerGenome)
HgeneTgeneDiseaseSourcePMID

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