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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:RASA3-KCNG2 (FusionGDB2 ID:72397)

Fusion Gene Summary for RASA3-KCNG2

check button Fusion gene summary
Fusion gene informationFusion gene name: RASA3-KCNG2
Fusion gene ID: 72397
HgeneTgene
Gene symbol

RASA3

KCNG2

Gene ID

22821

26251

Gene nameRAS p21 protein activator 3potassium voltage-gated channel modifier subfamily G member 2
SynonymsGAP1IP4BP|GAPIIIKCNF2|KV6.2
Cytomap

13q34

18q23

Type of geneprotein-codingprotein-coding
Descriptionras GTPase-activating protein 3GTPase activating protein IIIGTPase-activating protein 1 family, inositol 1,3,4,5-tetrakisphosphate-binding proteinIns(1,3,4,5)P4-binding proteinins P4-binding proteinpotassium voltage-gated channel subfamily G member 2cardiac potassium channel subunitpotassium channel, voltage gated modifier subfamily G, member 2potassium voltage-gated channel, subfamily G, member 2voltage-gated potassium channel subunit Kv6.2
Modification date2020031320200313
UniProtAcc..
Ensembl transtripts involved in fusion geneENST00000334062, ENST00000389544, 
ENST00000542651, 
ENST00000590307, 
ENST00000316249, 
Fusion gene scores* DoF score4 X 5 X 4=801 X 2 X 1=2
# samples 52
** MAII scorelog2(5/80*10)=-0.678071905112638
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(2/2*10)=3.32192809488736
Context

PubMed: RASA3 [Title/Abstract] AND KCNG2 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointRASA3(114817527)-KCNG2(77659040), # samples:3
Anticipated loss of major functional domain due to fusion event.RASA3-KCNG2 seems lost the major protein functional domain in Hgene partner, which is a essential gene due to the frame-shifted ORF.
RASA3-KCNG2 seems lost the major protein functional domain in Tgene partner, which is a cell metabolism gene due to the frame-shifted ORF.
RASA3-KCNG2 seems lost the major protein functional domain in Tgene partner, which is a IUPHAR drug target 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 RASA3 (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 KCNG2 (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
ChimerDB4LGGTCGA-FG-A711-01ARASA3chr13

114817527

-KCNG2chr18

77659040

+
ChimerDB4LGGTCGA-FG-A711RASA3chr13

114817526

-KCNG2chr18

77659039

+
ChimerDB4LGGTCGA-FG-A711RASA3chr13

114817527

-KCNG2chr18

77659040

+


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Fusion Gene ORF analysis for RASA3-KCNG2

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-3UTRENST00000334062ENST00000590307RASA3chr13

114817527

-KCNG2chr18

77659040

+
5CDS-3UTRENST00000334062ENST00000590307RASA3chr13

114817526

-KCNG2chr18

77659039

+
5CDS-3UTRENST00000389544ENST00000590307RASA3chr13

114817527

-KCNG2chr18

77659040

+
5CDS-3UTRENST00000389544ENST00000590307RASA3chr13

114817526

-KCNG2chr18

77659039

+
5CDS-3UTRENST00000542651ENST00000590307RASA3chr13

114817527

-KCNG2chr18

77659040

+
5CDS-3UTRENST00000542651ENST00000590307RASA3chr13

114817526

-KCNG2chr18

77659039

+
Frame-shiftENST00000334062ENST00000316249RASA3chr13

114817527

-KCNG2chr18

77659040

+
Frame-shiftENST00000334062ENST00000316249RASA3chr13

114817526

-KCNG2chr18

77659039

+
Frame-shiftENST00000389544ENST00000316249RASA3chr13

114817527

-KCNG2chr18

77659040

+
Frame-shiftENST00000389544ENST00000316249RASA3chr13

114817526

-KCNG2chr18

77659039

+
In-frameENST00000542651ENST00000316249RASA3chr13

114817527

-KCNG2chr18

77659040

+
In-frameENST00000542651ENST00000316249RASA3chr13

114817526

-KCNG2chr18

77659039

+

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)
ENST00000542651RASA3chr13114817527-ENST00000316249KCNG2chr1877659040+11173403671116250
ENST00000542651RASA3chr13114817526-ENST00000316249KCNG2chr1877659039+11173403671116250

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
ENST00000542651ENST00000316249RASA3chr13114817527-KCNG2chr1877659040+0.462502780.5374972
ENST00000542651ENST00000316249RASA3chr13114817526-KCNG2chr1877659039+0.462502780.5374972

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Fusion Genomic Features for RASA3-KCNG2


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)
RASA3chr13114817526-KCNG2chr1877659039+7.36E-050.9999263
RASA3chr13114817526-KCNG2chr1877659039+7.36E-050.9999263
RASA3chr13114817526-KCNG2chr1877659039+7.36E-050.9999263
RASA3chr13114817526-KCNG2chr1877659039+7.36E-050.9999263

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.
genomic feature of top 1%

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Fusion Protein Features for RASA3-KCNG2


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/chr13:114817527/chr18:77659040)
- 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
TgeneKCNG2chr13:114817526chr18:77659039ENST0000031624902357_377208467.0IntramembranePore-forming%3B Name%3DSegment H5
TgeneKCNG2chr13:114817527chr18:77659040ENST0000031624902357_377208467.0IntramembranePore-forming%3B Name%3DSegment H5
TgeneKCNG2chr13:114817526chr18:77659039ENST0000031624902369_374208467.0MotifSelectivity filter
TgeneKCNG2chr13:114817527chr18:77659040ENST0000031624902369_374208467.0MotifSelectivity filter
TgeneKCNG2chr13:114817526chr18:77659039ENST0000031624902309_321208467.0Topological domainCytoplasmic
TgeneKCNG2chr13:114817526chr18:77659039ENST0000031624902406_466208467.0Topological domainCytoplasmic
TgeneKCNG2chr13:114817527chr18:77659040ENST0000031624902309_321208467.0Topological domainCytoplasmic
TgeneKCNG2chr13:114817527chr18:77659040ENST0000031624902406_466208467.0Topological domainCytoplasmic
TgeneKCNG2chr13:114817526chr18:77659039ENST0000031624902218_238208467.0TransmembraneHelical%3B Name%3DSegment S2
TgeneKCNG2chr13:114817526chr18:77659039ENST0000031624902253_273208467.0TransmembraneHelical%3B Name%3DSegment S3
TgeneKCNG2chr13:114817526chr18:77659039ENST0000031624902288_308208467.0TransmembraneHelical%3B Voltage-sensor%3B Name%3DSegment S4
TgeneKCNG2chr13:114817526chr18:77659039ENST0000031624902322_342208467.0TransmembraneHelical%3B Name%3DSegment S5
TgeneKCNG2chr13:114817526chr18:77659039ENST0000031624902385_405208467.0TransmembraneHelical%3B Name%3DSegment S6
TgeneKCNG2chr13:114817527chr18:77659040ENST0000031624902218_238208467.0TransmembraneHelical%3B Name%3DSegment S2
TgeneKCNG2chr13:114817527chr18:77659040ENST0000031624902253_273208467.0TransmembraneHelical%3B Name%3DSegment S3
TgeneKCNG2chr13:114817527chr18:77659040ENST0000031624902288_308208467.0TransmembraneHelical%3B Voltage-sensor%3B Name%3DSegment S4
TgeneKCNG2chr13:114817527chr18:77659040ENST0000031624902322_342208467.0TransmembraneHelical%3B Name%3DSegment S5
TgeneKCNG2chr13:114817527chr18:77659040ENST0000031624902385_405208467.0TransmembraneHelical%3B Name%3DSegment S6

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneRASA3chr13:114817526chr18:77659039ENST00000334062-324123_26392835.0DomainC2 2
HgeneRASA3chr13:114817526chr18:77659039ENST00000334062-3241_11292835.0DomainC2 1
HgeneRASA3chr13:114817526chr18:77659039ENST00000334062-324330_52492835.0DomainRas-GAP
HgeneRASA3chr13:114817526chr18:77659039ENST00000334062-324576_67792835.0DomainPH
HgeneRASA3chr13:114817527chr18:77659040ENST00000334062-324123_26392835.0DomainC2 2
HgeneRASA3chr13:114817527chr18:77659040ENST00000334062-3241_11292835.0DomainC2 1
HgeneRASA3chr13:114817527chr18:77659040ENST00000334062-324330_52492835.0DomainRas-GAP
HgeneRASA3chr13:114817527chr18:77659040ENST00000334062-324576_67792835.0DomainPH
HgeneRASA3chr13:114817526chr18:77659039ENST00000334062-324679_71592835.0Zinc fingerBtk-type
HgeneRASA3chr13:114817527chr18:77659040ENST00000334062-324679_71592835.0Zinc fingerBtk-type
TgeneKCNG2chr13:114817526chr18:77659039ENST00000316249029_13208467.0Compositional biasNote=Poly-Gly
TgeneKCNG2chr13:114817527chr18:77659040ENST00000316249029_13208467.0Compositional biasNote=Poly-Gly
TgeneKCNG2chr13:114817526chr18:77659039ENST00000316249021_177208467.0Topological domainCytoplasmic
TgeneKCNG2chr13:114817527chr18:77659040ENST00000316249021_177208467.0Topological domainCytoplasmic
TgeneKCNG2chr13:114817526chr18:77659039ENST0000031624902178_198208467.0TransmembraneHelical%3B Name%3DSegment S1
TgeneKCNG2chr13:114817527chr18:77659040ENST0000031624902178_198208467.0TransmembraneHelical%3B Name%3DSegment S1


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Fusion Gene Sequence for RASA3-KCNG2


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.
>72397_72397_1_RASA3-KCNG2_RASA3_chr13_114817526_ENST00000542651_KCNG2_chr18_77659039_ENST00000316249_length(transcript)=1117nt_BP=340nt
GGCCTGAGCTGCCCGGGCTCGGCGCGCGCTTGGGGCGAGGCTCGGCGGGCGCGGACGCGCAGCATGGCGGTGGAGGACGAGGGGCTCCGG
GTCTTCCAGAGCGTGAAGATCAAGATCGGTGAAGCCAAAAACCTTCCCTCTTACCCGGGGCCGAGCAAGATGAGGGATTGCTACTGCACG
GTGAACCTGGACCAGGAGGAGGTTTTCAGGACCAAAATTGTGGAAAAGTCACTCTGCCCGTTTTACGGAGAAGACTTTTACTGTGAAATT
CCTCGGAGCTTTCGTCACCTGTCCTTCTACATTTTCGATAGAGACGTTTTCCGGAGGGATTCCATCATAGGGCGAGTGCTCCCCCAAGTG
CCGCAGCCTGTTCGTGCTGGAGACCGTGTGCGTGGCCTGGTTCTCCTTCGAGTTCCTGCTGCGCTCCCTGCAGGCCGAGAGCAAGTGCGC
CTTCCTGCGCGCGCCACTCAACATCATTGACATCCTGGCGCTCCTGCCGTTCTACGTGTCGCTGCTGCTGGGGCTGGCGGCAGGCCCGGG
CGGGACCAAGCTCCTGGAGCGCGCGGGGCTGGTGCTGCGGCTGCTGCGTGCGCTGCGCGTGCTCTACGTGATGCGCCTGGCGCGCCACTC
GCTGGGGCTGCGTTCGCTGGGCCTGACCATGCGCCGCTGCGCGCGCGAGTTCGGGCTGCTGCTGCTGTTCCTCTGCGTGGCCATGGCGCT
CTTCGCGCCACTGGTGCACCTGGCCGAGCGCGAGCTGGGCGCGCGCCGCGACTTCTCCAGCGTGCCCGCCAGCTATTGGTGGGCCGTCAT
CTCCATGACCACCGTGGGCTACGGCGACATGGTCCCGCGCAGCCTGCCCGGGCAGGTGGTGGCGCTCAGCAGCATCCTCAGCGGCATCCT
GCTCATGGCCTTCCCGGTCACCTCCATCTTCCACACCTTTTCGCGCTCCTACTCCGAGCTCAAGGAGCAGCAGCAGCGCGCGGCCAGCCC
CGAGCCGGCCCTGCAGGAGGACAGCACGCACTCGGCCACAGCCACCGAGGACAGCTCGCAGGGCCCCGACAGCGCGGGCCTGGCCGACGA

>72397_72397_1_RASA3-KCNG2_RASA3_chr13_114817526_ENST00000542651_KCNG2_chr18_77659039_ENST00000316249_length(amino acids)=250AA_BP=
MFVLETVCVAWFSFEFLLRSLQAESKCAFLRAPLNIIDILALLPFYVSLLLGLAAGPGGTKLLERAGLVLRLLRALRVLYVMRLARHSLG
LRSLGLTMRRCAREFGLLLLFLCVAMALFAPLVHLAERELGARRDFSSVPASYWWAVISMTTVGYGDMVPRSLPGQVVALSSILSGILLM

--------------------------------------------------------------
>72397_72397_2_RASA3-KCNG2_RASA3_chr13_114817527_ENST00000542651_KCNG2_chr18_77659040_ENST00000316249_length(transcript)=1117nt_BP=340nt
GGCCTGAGCTGCCCGGGCTCGGCGCGCGCTTGGGGCGAGGCTCGGCGGGCGCGGACGCGCAGCATGGCGGTGGAGGACGAGGGGCTCCGG
GTCTTCCAGAGCGTGAAGATCAAGATCGGTGAAGCCAAAAACCTTCCCTCTTACCCGGGGCCGAGCAAGATGAGGGATTGCTACTGCACG
GTGAACCTGGACCAGGAGGAGGTTTTCAGGACCAAAATTGTGGAAAAGTCACTCTGCCCGTTTTACGGAGAAGACTTTTACTGTGAAATT
CCTCGGAGCTTTCGTCACCTGTCCTTCTACATTTTCGATAGAGACGTTTTCCGGAGGGATTCCATCATAGGGCGAGTGCTCCCCCAAGTG
CCGCAGCCTGTTCGTGCTGGAGACCGTGTGCGTGGCCTGGTTCTCCTTCGAGTTCCTGCTGCGCTCCCTGCAGGCCGAGAGCAAGTGCGC
CTTCCTGCGCGCGCCACTCAACATCATTGACATCCTGGCGCTCCTGCCGTTCTACGTGTCGCTGCTGCTGGGGCTGGCGGCAGGCCCGGG
CGGGACCAAGCTCCTGGAGCGCGCGGGGCTGGTGCTGCGGCTGCTGCGTGCGCTGCGCGTGCTCTACGTGATGCGCCTGGCGCGCCACTC
GCTGGGGCTGCGTTCGCTGGGCCTGACCATGCGCCGCTGCGCGCGCGAGTTCGGGCTGCTGCTGCTGTTCCTCTGCGTGGCCATGGCGCT
CTTCGCGCCACTGGTGCACCTGGCCGAGCGCGAGCTGGGCGCGCGCCGCGACTTCTCCAGCGTGCCCGCCAGCTATTGGTGGGCCGTCAT
CTCCATGACCACCGTGGGCTACGGCGACATGGTCCCGCGCAGCCTGCCCGGGCAGGTGGTGGCGCTCAGCAGCATCCTCAGCGGCATCCT
GCTCATGGCCTTCCCGGTCACCTCCATCTTCCACACCTTTTCGCGCTCCTACTCCGAGCTCAAGGAGCAGCAGCAGCGCGCGGCCAGCCC
CGAGCCGGCCCTGCAGGAGGACAGCACGCACTCGGCCACAGCCACCGAGGACAGCTCGCAGGGCCCCGACAGCGCGGGCCTGGCCGACGA

>72397_72397_2_RASA3-KCNG2_RASA3_chr13_114817527_ENST00000542651_KCNG2_chr18_77659040_ENST00000316249_length(amino acids)=250AA_BP=
MFVLETVCVAWFSFEFLLRSLQAESKCAFLRAPLNIIDILALLPFYVSLLLGLAAGPGGTKLLERAGLVLRLLRALRVLYVMRLARHSLG
LRSLGLTMRRCAREFGLLLLFLCVAMALFAPLVHLAERELGARRDFSSVPASYWWAVISMTTVGYGDMVPRSLPGQVVALSSILSGILLM

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

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Fusion Gene PPI Analysis for RASA3-KCNG2


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 RASA3-KCNG2


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 RASA3-KCNG2


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