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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:CCDC36-RHOA (FusionGDB2 ID:13835)

Fusion Gene Summary for CCDC36-RHOA

check button Fusion gene summary
Fusion gene informationFusion gene name: CCDC36-RHOA
Fusion gene ID: 13835
HgeneTgene
Gene symbol

CCDC36

RHOA

Gene ID

339834

387

Gene nameinteractor of HORMAD1 1ras homolog family member A
SynonymsCCDC36|CT74|LELA1ARH12|ARHA|EDFAOB|RHO12|RHOH12
Cytomap

3p21.31

3p21.31

Type of geneprotein-codingprotein-coding
Descriptioninteractor of HORMAD1 protein 1cancer/testis antigen 74coiled-coil domain containing 36coiled-coil domain-containing protein 36transforming protein RhoAAplysia ras-related homolog 12epididymis secretory sperm binding proteinoncogene RHO H12small GTP binding protein RhoA
Modification date2020032720200329
UniProtAcc..
Ensembl transtripts involved in fusion geneENST00000296449, ENST00000438782, 
ENST00000452691, ENST00000366429, 
ENST00000451634, ENST00000493870, 
ENST00000418115, ENST00000454011, 
ENST00000422781, ENST00000265538, 
Fusion gene scores* DoF score4 X 3 X 3=3625 X 14 X 7=2450
# samples 431
** MAII scorelog2(4/36*10)=0.15200309344505
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0		log2(31/2450*10)=-2.9824416286157
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: CCDC36 [Title/Abstract] AND RHOA [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointCCDC36(49249269)-RHOA(49405981), # samples:1
Anticipated loss of major functional domain due to fusion event.CCDC36-RHOA seems lost the major protein functional domain in Tgene partner, which is a CGC due to the frame-shifted ORF.
CCDC36-RHOA seems lost the major protein functional domain in Tgene partner, which is a tumor suppressor due to the frame-shifted ORF.
CCDC36-RHOA 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
TgeneRHOA

GO:0007266

Rho protein signal transduction

26529257

TgeneRHOA

GO:0016477

cell migration

26529257

TgeneRHOA

GO:0032956

regulation of actin cytoskeleton organization

25911094

TgeneRHOA

GO:0035385

Roundabout signaling pathway

26529257

TgeneRHOA

GO:0036089

cleavage furrow formation

16103226

TgeneRHOA

GO:0051496

positive regulation of stress fiber assembly

15467718

TgeneRHOA

GO:0060193

positive regulation of lipase activity

19887681

TgeneRHOA

GO:0071222

cellular response to lipopolysaccharide

19734146

TgeneRHOA

GO:0071902

positive regulation of protein serine/threonine kinase activity

8617235


check buttonFusion gene breakpoints across CCDC36 (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 RHOA (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
ChimerDB4Non-CancerTCGA-BH-A1EO-11ACCDC36chr3

49249269

+RHOAchr3

49405981

-


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Fusion Gene ORF analysis for CCDC36-RHOA

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
Frame-shiftENST00000296449ENST00000418115CCDC36chr3

49249269

+RHOAchr3

49405981

-
5CDS-intronENST00000296449ENST00000454011CCDC36chr3

49249269

+RHOAchr3

49405981

-
5CDS-intronENST00000296449ENST00000422781CCDC36chr3

49249269

+RHOAchr3

49405981

-
5CDS-intronENST00000296449ENST00000265538CCDC36chr3

49249269

+RHOAchr3

49405981

-
Frame-shiftENST00000438782ENST00000418115CCDC36chr3

49249269

+RHOAchr3

49405981

-
5CDS-intronENST00000438782ENST00000454011CCDC36chr3

49249269

+RHOAchr3

49405981

-
5CDS-intronENST00000438782ENST00000422781CCDC36chr3

49249269

+RHOAchr3

49405981

-
5CDS-intronENST00000438782ENST00000265538CCDC36chr3

49249269

+RHOAchr3

49405981

-
Frame-shiftENST00000452691ENST00000418115CCDC36chr3

49249269

+RHOAchr3

49405981

-
5CDS-intronENST00000452691ENST00000454011CCDC36chr3

49249269

+RHOAchr3

49405981

-
5CDS-intronENST00000452691ENST00000422781CCDC36chr3

49249269

+RHOAchr3

49405981

-
5CDS-intronENST00000452691ENST00000265538CCDC36chr3

49249269

+RHOAchr3

49405981

-
Frame-shiftENST00000366429ENST00000418115CCDC36chr3

49249269

+RHOAchr3

49405981

-
5CDS-intronENST00000366429ENST00000454011CCDC36chr3

49249269

+RHOAchr3

49405981

-
5CDS-intronENST00000366429ENST00000422781CCDC36chr3

49249269

+RHOAchr3

49405981

-
5CDS-intronENST00000366429ENST00000265538CCDC36chr3

49249269

+RHOAchr3

49405981

-
intron-3CDSENST00000451634ENST00000418115CCDC36chr3

49249269

+RHOAchr3

49405981

-
intron-intronENST00000451634ENST00000454011CCDC36chr3

49249269

+RHOAchr3

49405981

-
intron-intronENST00000451634ENST00000422781CCDC36chr3

49249269

+RHOAchr3

49405981

-
intron-intronENST00000451634ENST00000265538CCDC36chr3

49249269

+RHOAchr3

49405981

-
intron-3CDSENST00000493870ENST00000418115CCDC36chr3

49249269

+RHOAchr3

49405981

-
intron-intronENST00000493870ENST00000454011CCDC36chr3

49249269

+RHOAchr3

49405981

-
intron-intronENST00000493870ENST00000422781CCDC36chr3

49249269

+RHOAchr3

49405981

-
intron-intronENST00000493870ENST00000265538CCDC36chr3

49249269

+RHOAchr3

49405981

-

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 CCDC36-RHOA


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.

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 CCDC36-RHOA


check button Go to

FGviewer for the breakpoints of :-:

.
- FGviewer provides the online visualization of the retention search of the protein functional features across DNA, RNA, protein, and pathological levels.
FGviewer

check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
..
FUNCTION: Might normally function as a transcriptional repressor. EWS-fusion-proteins (EFPS) may play a role in the tumorigenic process. They may disturb gene expression by mimicking, or interfering with the normal function of CTD-POLII within the transcription initiation complex. They may also contribute to an aberrant activation of the fusion protein target genes.FUNCTION: Might normally function as a transcriptional repressor. EWS-fusion-proteins (EFPS) may play a role in the tumorigenic process. They may disturb gene expression by mimicking, or interfering with the normal function of CTD-POLII within the transcription initiation complex. They may also contribute to an aberrant activation of the fusion protein target genes.

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 CCDC36-RHOA


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 CCDC36-RHOA


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 CCDC36-RHOA


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 CCDC36-RHOA


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
TgeneRHOAC0024623Malignant neoplasm of stomach3CTD_human
TgeneRHOAC0038356Stomach Neoplasms3CTD_human
TgeneRHOAC1708349Hereditary Diffuse Gastric Cancer3CTD_human
TgeneRHOAC0020981Angioimmunoblastic Lymphadenopathy2CTD_human
TgeneRHOAC0079774Peripheral T-Cell Lymphoma2CTD_human
TgeneRHOAC0000771Abnormalities, Drug-Induced1CTD_human
TgeneRHOAC0002170Alopecia1CTD_human
TgeneRHOAC0005684Malignant neoplasm of urinary bladder1CTD_human
TgeneRHOAC0005695Bladder Neoplasm1CTD_human
TgeneRHOAC0007097Carcinoma1CTD_human
TgeneRHOAC0009171Cocaine Abuse1CTD_human
TgeneRHOAC0013575Ectodermal Dysplasia1CTD_human
TgeneRHOAC0027626Neoplasm Invasiveness1CTD_human
TgeneRHOAC0033687Proteinuria1CTD_human
TgeneRHOAC0038587Substance Withdrawal Syndrome1CTD_human
TgeneRHOAC0040435Tooth Diseases1CTD_human
TgeneRHOAC0079772T-Cell Lymphoma1CTD_human
TgeneRHOAC0079773Lymphoma, T-Cell, Cutaneous1CTD_human
TgeneRHOAC0086189Drug Withdrawal Symptoms1CTD_human
TgeneRHOAC0086873Pseudopelade1CTD_human
TgeneRHOAC0087169Withdrawal Symptoms1CTD_human
TgeneRHOAC0162311Androgenetic Alopecia1CTD_human
TgeneRHOAC0162361Hidrotic Ectodermal Dysplasia1CTD_human
TgeneRHOAC0162835Hypopigmentation disorder1CTD_human
TgeneRHOAC0205696Anaplastic carcinoma1CTD_human
TgeneRHOAC0205697Carcinoma, Spindle-Cell1CTD_human
TgeneRHOAC0205698Undifferentiated carcinoma1CTD_human
TgeneRHOAC0205699Carcinomatosis1CTD_human
TgeneRHOAC0235833Congenital diaphragmatic hernia1CTD_human
TgeneRHOAC0236736Cocaine-Related Disorders1CTD_human
TgeneRHOAC0263477Female pattern alopecia (disorder)1CTD_human
TgeneRHOAC0265316Neurocutaneous Syndromes1CTD_human
TgeneRHOAC0265699Congenital hernia of foramen of Morgagni1CTD_human
TgeneRHOAC0265700Congenital hernia of foramen of Bochdalek1CTD_human
TgeneRHOAC0270612Leukoencephalopathy1CTD_human
TgeneRHOAC0282160Aplasia Cutis Congenita1CTD_human
TgeneRHOAC0376407Granulomatous Slack Skin1CTD_human
TgeneRHOAC0376634Craniofacial Abnormalities1CTD_human
TgeneRHOAC0600427Cocaine Dependence1CTD_human
TgeneRHOAC1706004Anhydrotic Ectodermal Dysplasias1CTD_human
TgeneRHOAC1744559Congenital ectodermal dysplasia of face1CTD_human
TgeneRHOAC1858991Childhood Ataxia with Central Nervous System Hypomyelinization1CTD_human
TgeneRHOAC4083212Alopecia, Male Pattern1CTD_human