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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:GANC-RORA (FusionGDB2 ID:32353)

Fusion Gene Summary for GANC-RORA

check button Fusion gene summary
Fusion gene informationFusion gene name: GANC-RORA
Fusion gene ID: 32353
HgeneTgene
Gene symbol

GANC

RORA

Gene ID

2595

6095

Gene nameglucosidase alpha, neutral CRAR related orphan receptor A
Synonyms-IDDECA|NR1F1|ROR1|ROR2|ROR3|RZR-ALPHA|RZRA
Cytomap

15q15.1

15q22.2

Type of geneprotein-codingprotein-coding
Descriptionneutral alpha-glucosidase Cnuclear receptor ROR-alphaROR-alphanuclear receptor RZR-alphanuclear receptor subfamily 1 group F member 1retinoic acid receptor-related orphan receptor alpharetinoid-related orphan receptor alphathyroid hormone nuclear receptor alpha variant 4tran
Modification date2020031320200322
UniProtAcc..
Ensembl transtripts involved in fusion geneENST00000318010, ENST00000440615, 
ENST00000566442, 		ENST00000560004, 
ENST00000261523, ENST00000309157, 
ENST00000335670, ENST00000449337, 
Fusion gene scores* DoF score6 X 6 X 5=18013 X 10 X 6=780
# samples 613
** MAII scorelog2(6/180*10)=-1.58496250072116
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(13/780*10)=-2.58496250072116
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: GANC [Title/Abstract] AND RORA [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointGANC(42618622)-RORA(60789818), # samples:3
Anticipated loss of major functional domain due to fusion event.GANC-RORA seems lost the major protein functional domain in Hgene partner, which is a cell metabolism gene due to the frame-shifted ORF.
GANC-RORA seems lost the major protein functional domain in Tgene partner, which is a cell metabolism gene due to the frame-shifted ORF.
GANC-RORA seems lost the major protein functional domain in Tgene partner, which is a IUPHAR drug target due to the frame-shifted ORF.
GANC-RORA seems lost the major protein functional domain in Tgene partner, which is a transcription factor 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
TgeneRORA

GO:0006355

regulation of transcription, DNA-templated

9328355

TgeneRORA

GO:0030522

intracellular receptor signaling pathway

19965867

TgeneRORA

GO:0036315

cellular response to sterol

19965867

TgeneRORA

GO:0045893

positive regulation of transcription, DNA-templated

7926749

TgeneRORA

GO:0045944

positive regulation of transcription by RNA polymerase II

17545671|19955433


check buttonFusion gene breakpoints across GANC (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 RORA (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
ChimerDB4BLCATCGA-4Z-AA84-01AGANCchr15

42618622

-RORAchr15

60789818

-
ChimerDB4BLCATCGA-4Z-AA84-01AGANCchr15

42618622

+RORAchr15

60789818

-
ChimerDB4BLCATCGA-4Z-AA84GANCchr15

42618622

+RORAchr15

60789818

-


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Fusion Gene ORF analysis for GANC-RORA

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-intronENST00000318010ENST00000560004GANCchr15

42618622

+RORAchr15

60789818

-
Frame-shiftENST00000318010ENST00000261523GANCchr15

42618622

+RORAchr15

60789818

-
Frame-shiftENST00000318010ENST00000309157GANCchr15

42618622

+RORAchr15

60789818

-
Frame-shiftENST00000318010ENST00000335670GANCchr15

42618622

+RORAchr15

60789818

-
In-frameENST00000318010ENST00000449337GANCchr15

42618622

+RORAchr15

60789818

-
intron-3CDSENST00000440615ENST00000261523GANCchr15

42618622

+RORAchr15

60789818

-
intron-3CDSENST00000440615ENST00000309157GANCchr15

42618622

+RORAchr15

60789818

-
intron-3CDSENST00000440615ENST00000335670GANCchr15

42618622

+RORAchr15

60789818

-
intron-3CDSENST00000440615ENST00000449337GANCchr15

42618622

+RORAchr15

60789818

-
intron-3CDSENST00000566442ENST00000261523GANCchr15

42618622

+RORAchr15

60789818

-
intron-3CDSENST00000566442ENST00000309157GANCchr15

42618622

+RORAchr15

60789818

-
intron-3CDSENST00000566442ENST00000335670GANCchr15

42618622

+RORAchr15

60789818

-
intron-3CDSENST00000566442ENST00000449337GANCchr15

42618622

+RORAchr15

60789818

-
intron-intronENST00000440615ENST00000560004GANCchr15

42618622

+RORAchr15

60789818

-
intron-intronENST00000566442ENST00000560004GANCchr15

42618622

+RORAchr15

60789818

-

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)
ENST00000318010GANCchr1542618622+ENST00000449337RORAchr1560789818-199516602101727505

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
ENST00000318010ENST00000449337GANCchr1542618622+RORAchr1560789818-0.0006941170.99930584

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Fusion Genomic Features for GANC-RORA


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 GANC-RORA


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/chr15:42618622/chr15:60789818)
- 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
..
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: 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
TgeneRORAchr15:42618622chr15:60789818ENST000002615231012506_523502557.0MotifNote=AF-2
TgeneRORAchr15:42618622chr15:60789818ENST00000309157911506_523494549.0MotifNote=AF-2
TgeneRORAchr15:42618622chr15:60789818ENST00000335670911506_523469524.0MotifNote=AF-2
TgeneRORAchr15:42618622chr15:60789818ENST00000449337810506_523414469.0MotifNote=AF-2

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
TgeneRORAchr15:42618622chr15:60789818ENST000002615231012166_169502557.0Compositional biasNote=Poly-Gln
TgeneRORAchr15:42618622chr15:60789818ENST00000309157911166_169494549.0Compositional biasNote=Poly-Gln
TgeneRORAchr15:42618622chr15:60789818ENST00000335670911166_169469524.0Compositional biasNote=Poly-Gln
TgeneRORAchr15:42618622chr15:60789818ENST00000449337810166_169414469.0Compositional biasNote=Poly-Gln
TgeneRORAchr15:42618622chr15:60789818ENST00000261523101273_138502557.0DNA bindingNuclear receptor
TgeneRORAchr15:42618622chr15:60789818ENST0000030915791173_138494549.0DNA bindingNuclear receptor
TgeneRORAchr15:42618622chr15:60789818ENST0000033567091173_138469524.0DNA bindingNuclear receptor
TgeneRORAchr15:42618622chr15:60789818ENST0000044933781073_138414469.0DNA bindingNuclear receptor
TgeneRORAchr15:42618622chr15:60789818ENST000002615231012272_510502557.0DomainNR LBD
TgeneRORAchr15:42618622chr15:60789818ENST00000309157911272_510494549.0DomainNR LBD
TgeneRORAchr15:42618622chr15:60789818ENST00000335670911272_510469524.0DomainNR LBD
TgeneRORAchr15:42618622chr15:60789818ENST00000449337810272_510414469.0DomainNR LBD
TgeneRORAchr15:42618622chr15:60789818ENST000002615231012109_133502557.0Zinc fingerNR C4-type
TgeneRORAchr15:42618622chr15:60789818ENST00000261523101273_93502557.0Zinc fingerNR C4-type
TgeneRORAchr15:42618622chr15:60789818ENST00000309157911109_133494549.0Zinc fingerNR C4-type
TgeneRORAchr15:42618622chr15:60789818ENST0000030915791173_93494549.0Zinc fingerNR C4-type
TgeneRORAchr15:42618622chr15:60789818ENST00000335670911109_133469524.0Zinc fingerNR C4-type
TgeneRORAchr15:42618622chr15:60789818ENST0000033567091173_93469524.0Zinc fingerNR C4-type
TgeneRORAchr15:42618622chr15:60789818ENST00000449337810109_133414469.0Zinc fingerNR C4-type
TgeneRORAchr15:42618622chr15:60789818ENST0000044933781073_93414469.0Zinc fingerNR C4-type


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Fusion Gene Sequence for GANC-RORA


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.
>32353_32353_1_GANC-RORA_GANC_chr15_42618622_ENST00000318010_RORA_chr15_60789818_ENST00000449337_length(transcript)=1995nt_BP=1660nt
ATAATCAAGACAAATTTGCCAAATAAATCATTGTAGAAACGCTAGTTTGGGCCTGAAAAATTCCAGGAGCAAGAGTCAAGATTTGTCACT
CCATGAGAATCTGGAGGGGACTCCCTTCCCAGAAACTTGACGATGAAGTACTGGTTGTAATTTTAGAAAGACACCCAATCGGCTTTTTTA
AAAGATCGCCCAGGGCCCTTGTCCTGAGAGCTGGGAGCTGGTCGGAGTGACAGAGAAGCCATGGAAGCAGCAGTGAAAGAGGAAATAAGT
CTTGAAGATGAAGCTGTAGATAAAAACATTTTCAGAGACTGTAACAAGATCGCATTTTACAGGCGTCAGAAACAGTGGCTTTCCAAGAAG
TCCACCTATCAGGCATTATTGGATTCAGTCACAACAGATGAAGACAGCACCAGGTTCCAAATCATCAATGAAGCAAGTAAGGTTCCTCTC
CTGGCTGAAATTTATGGTATAGAAGGAAACATTTTCAGGCTTAAAATTAATGAAGAGACTCCTCTAAAACCCAGATTTGAAGTTCCGGAT
GTCCTCACAAGCAAGCCAAGCACTGTAAGGCTGATTTCATGCTCTGGGGACACAGGCAGTCTGATATTGGCAGATGGAAAAGGAGACCTG
AAGTGCCATATCACAGCAAACCCATTCAAGGTAGACTTGGTGTCTGAAGAAGAGGTTGTGATTAGCATAAATTCCCTGGGCCAATTATAC
TTTGAGCATCTACAGATTCTTCACAAACAAAGAGCTGCTAAAGAAAATGAGGAGGAGACATCAGTGGACACCTCTCAGGAAAATCAAGAA
GATCTGGGCCTGTGGGAAGAGAAATTTGGAAAATTTGTGGATATCAAAGCTAATGGCCCTTCTTCTATTGGTTTGGATTTCTCCTTGCAT
GGATTTGAGCATCTTTATGGGATCCCACAACATGCAGAATCACACCAACTTAAAAATACTGGTGATGGAGATGCTTACCGTCTTTATAAC
CTGGATGTCTATGGATACCAAATATATGATAAAATGGGCATTTATGGTTCAGTACCTTATCTCCTGGCCCACAAACTGGGCAGAACTATA
GGTATTTTCTGGCTGAATGCCTCGGAAACACTGGTGGAGATCAATACAGAGCCTGCAGTAGAGTACACACTGACCCAGATGGGCCCAGTT
GCTGCTAAACAAAAGGTCAGATCTCGCACTCATGTGCACTGGATGTCAGAGAGTGGCATCATTGATGTTTTTCTGCTGACAGGACCTACA
CCTTCTGATGTCTTCAAACAGTACTCACACCTTACAGGCACACAAGCCATGCCCCCTCTTTTCTCTTTGGGATACCACCAGTGCCGCTGG
AACTATGAAGATGAGCAGGATGTAAAAGCAGTGGATGCAGGGTTTGATGAGCATGACATTCCTTATGATGCCATGTGGCTGGACATAGAG
CACACTGAGGGCAAGAGGTACTTCACCTGGGACAAAAACAGATTCCCAAACCCCAAGAGGATGCAAGAGCTGCTCAGGAGCAAAAAGCGT
AAGCTTGTGGTCATCAGTGATCCCCACATCAAGATTGATCCTGACTACTCAGTATATGTGAAGGCCAAAGATCAGGGCTTCTTTGTGAAG
AATCAGGAAGGGGAAGACTTTGAAGGGGTGTGTTGGCCAGTTAATATGCAAGGTGTCTACCTTAAGAGCCTTATGTGGACGACATACAGA
AAAGCTAATGGCATTTAAAGCAATATACCCAGACATTGTGCGACTTCATTTTCCTCCATTATACAAGGAGTTGTTCACTTCAGAATTTGA
GCCAGCAATGCAAATTGATGGGTAAATGTTATCACCTAAGCACTTCTAGAATGTCTGAAGTACAAACATGAAAAACAAACAAAAAAATTA
ACCGAGACACTTTATATGGCCCTGCACAGACCTGGAGCGCCACACACTGCACATCTTTTGGTGATCGGGGTCAGGCAAAGGAGGGGAAAC

>32353_32353_1_GANC-RORA_GANC_chr15_42618622_ENST00000318010_RORA_chr15_60789818_ENST00000449337_length(amino acids)=505AA_BP=483
MGAGRSDREAMEAAVKEEISLEDEAVDKNIFRDCNKIAFYRRQKQWLSKKSTYQALLDSVTTDEDSTRFQIINEASKVPLLAEIYGIEGN
IFRLKINEETPLKPRFEVPDVLTSKPSTVRLISCSGDTGSLILADGKGDLKCHITANPFKVDLVSEEEVVISINSLGQLYFEHLQILHKQ
RAAKENEEETSVDTSQENQEDLGLWEEKFGKFVDIKANGPSSIGLDFSLHGFEHLYGIPQHAESHQLKNTGDGDAYRLYNLDVYGYQIYD
KMGIYGSVPYLLAHKLGRTIGIFWLNASETLVEINTEPAVEYTLTQMGPVAAKQKVRSRTHVHWMSESGIIDVFLLTGPTPSDVFKQYSH
LTGTQAMPPLFSLGYHQCRWNYEDEQDVKAVDAGFDEHDIPYDAMWLDIEHTEGKRYFTWDKNRFPNPKRMQELLRSKKRKLVVISDPHI

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

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Fusion Gene PPI Analysis for GANC-RORA


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 GANC-RORA


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 GANC-RORA


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