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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:GRIK2-ARMC2 (FusionGDB2 ID:34783)

Fusion Gene Summary for GRIK2-ARMC2

check button Fusion gene summary
Fusion gene informationFusion gene name: GRIK2-ARMC2
Fusion gene ID: 34783
HgeneTgene
Gene symbol

GRIK2

ARMC2

Gene ID

2901

84071

Gene nameglutamate ionotropic receptor kainate type subunit 5armadillo repeat containing 2
SynonymsEAA2|GRIK2|GluK5|KA2SPGF38|bA787I22.1
Cytomap

19q13.2

6q21

Type of geneprotein-codingprotein-coding
Descriptionglutamate receptor ionotropic, kainate 5excitatory amino acid receptor 2glutamate receptor KA2armadillo repeat-containing protein 2
Modification date2020031320200313
UniProtAcc

Q13002

Q8NEN0

Ensembl transtripts involved in fusion geneENST00000318991, ENST00000358361, 
ENST00000369137, ENST00000369138, 
ENST00000413795, ENST00000421544, 
ENST00000369134, 		ENST00000481850, 
ENST00000368972, ENST00000392644, 
Fusion gene scores* DoF score9 X 4 X 6=21615 X 15 X 7=1575
# samples 1016
** MAII scorelog2(10/216*10)=-1.11103131238874
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(16/1575*10)=-3.29920801838728
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: GRIK2 [Title/Abstract] AND ARMC2 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointGRIK2(101847268)-ARMC2(109274236), # samples:2
Anticipated loss of major functional domain due to fusion event.GRIK2-ARMC2 seems lost the major protein functional domain in Hgene partner, which is a essential gene due to the frame-shifted ORF.
GRIK2-ARMC2 seems lost the major protein functional domain in Hgene 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 GRIK2 (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 ARMC2 (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
ChimerDB4BRCATCGA-E2-A15D-01AGRIK2chr6

101847268

+ARMC2chr6

109274236

+


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Fusion Gene ORF analysis for GRIK2-ARMC2

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-intronENST00000318991ENST00000481850GRIK2chr6

101847268

+ARMC2chr6

109274236

+
5CDS-intronENST00000358361ENST00000481850GRIK2chr6

101847268

+ARMC2chr6

109274236

+
5CDS-intronENST00000369137ENST00000481850GRIK2chr6

101847268

+ARMC2chr6

109274236

+
5CDS-intronENST00000369138ENST00000481850GRIK2chr6

101847268

+ARMC2chr6

109274236

+
5CDS-intronENST00000413795ENST00000481850GRIK2chr6

101847268

+ARMC2chr6

109274236

+
5CDS-intronENST00000421544ENST00000481850GRIK2chr6

101847268

+ARMC2chr6

109274236

+
Frame-shiftENST00000318991ENST00000368972GRIK2chr6

101847268

+ARMC2chr6

109274236

+
Frame-shiftENST00000318991ENST00000392644GRIK2chr6

101847268

+ARMC2chr6

109274236

+
Frame-shiftENST00000358361ENST00000368972GRIK2chr6

101847268

+ARMC2chr6

109274236

+
Frame-shiftENST00000358361ENST00000392644GRIK2chr6

101847268

+ARMC2chr6

109274236

+
Frame-shiftENST00000369137ENST00000368972GRIK2chr6

101847268

+ARMC2chr6

109274236

+
Frame-shiftENST00000369137ENST00000392644GRIK2chr6

101847268

+ARMC2chr6

109274236

+
Frame-shiftENST00000369138ENST00000368972GRIK2chr6

101847268

+ARMC2chr6

109274236

+
Frame-shiftENST00000369138ENST00000392644GRIK2chr6

101847268

+ARMC2chr6

109274236

+
Frame-shiftENST00000413795ENST00000368972GRIK2chr6

101847268

+ARMC2chr6

109274236

+
Frame-shiftENST00000413795ENST00000392644GRIK2chr6

101847268

+ARMC2chr6

109274236

+
Frame-shiftENST00000421544ENST00000368972GRIK2chr6

101847268

+ARMC2chr6

109274236

+
Frame-shiftENST00000421544ENST00000392644GRIK2chr6

101847268

+ARMC2chr6

109274236

+
intron-3CDSENST00000369134ENST00000368972GRIK2chr6

101847268

+ARMC2chr6

109274236

+
intron-3CDSENST00000369134ENST00000392644GRIK2chr6

101847268

+ARMC2chr6

109274236

+
intron-intronENST00000369134ENST00000481850GRIK2chr6

101847268

+ARMC2chr6

109274236

+

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 GRIK2-ARMC2


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)
GRIK2chr6101847268+ARMC2chr6109274235+0.040041860.9599582
GRIK2chr6101847268+ARMC2chr6109274235+0.040041860.9599582

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.
genomic feature of top 1%

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Fusion Protein Features for GRIK2-ARMC2


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/:101847268/:109274236)
- 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
GRIK2

Q13002

ARMC2

Q8NEN0

FUNCTION: Ionotropic glutamate receptor. L-glutamate acts as an excitatory neurotransmitter at many synapses in the central nervous system. Binding of the excitatory neurotransmitter L-glutamate induces a conformation change, leading to the opening of the cation channel, and thereby converts the chemical signal to an electrical impulse. The receptor then desensitizes rapidly and enters a transient inactive state, characterized by the presence of bound agonist (PubMed:28180184). Modulates cell surface expression of NETO2 (By similarity). {ECO:0000250|UniProtKB:P39087, ECO:0000269|PubMed:28180184}.; FUNCTION: Independent of its ionotropic glutamate receptor activity, acts as a thermoreceptor conferring sensitivity to cold temperatures (PubMed:31474366). Functions in dorsal root ganglion neurons (By similarity). {ECO:0000250|UniProtKB:P39087, ECO:0000269|PubMed:31474366}.FUNCTION: Required for sperm flagellum axoneme organization and function (By similarity). Involved in axonemal central pair complex assembly and/or stability (By similarity). {ECO:0000250|UniProtKB:Q3URY6}.

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 GRIK2-ARMC2


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 GRIK2-ARMC2


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 GRIK2-ARMC2


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 GRIK2-ARMC2


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