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Fusion gene ID: 2519 |
FusionGeneSummary for ARHGEF12_GRIK4 |
 Fusion gene summary |
| Fusion gene information | Fusion gene name: ARHGEF12_GRIK4 | Fusion gene ID: 2519 | Hgene | Tgene | Gene symbol | ARHGEF12 | GRIK4 | Gene ID | 23365 | 2900 |
| Gene name | Rho guanine nucleotide exchange factor 12 | glutamate ionotropic receptor kainate type subunit 4 | |
| Synonyms | LARG|PRO2792 | EAA1|GRIK|GluK4|KA1 | |
| Cytomap | 11q23.3 | 11q23.3 | |
| Type of gene | protein-coding | protein-coding | |
| Description | rho guanine nucleotide exchange factor 12Rho guanine nucleotide exchange factor (GEF) 12leukemia-associated RhoGEFleukemia-associated rho guanine nucleotide exchange factor | glutamate receptor ionotropic, kainate 4excitatory amino acid receptor 1glutamate receptor KA1glutamate receptor, ionotropic, kainate 4 | |
| Modification date | 20180519 | 20180523 | |
| UniProtAcc | Q9NZN5 | Q16099 | |
| Ensembl transtripts involved in fusion gene | ENST00000397843, ENST00000356641, ENST00000532993, | ENST00000527524, ENST00000438375, ENST00000527130, | |
| Fusion gene scores | * DoF score | 11 X 8 X 8=704 | 5 X 5 X 6=150 |
| # samples | 14 | 6 | |
| ** MAII score | log2(14/704*10)=-2.33014860169233 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | log2(6/150*10)=-1.32192809488736 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | |
| Context | PubMed: ARHGEF12 [Title/Abstract] AND GRIK4 [Title/Abstract] AND fusion [Title/Abstract] | ||
| Functional or gene categories assigned by FusionGDB annotation | Tumor suppressor gene involved fusion gene, retained protein feature but frameshift. DDR (DNA damage repair) gene involved fusion gene, in-frame but not retained their domain. | ||
| * DoF score (Degree of Frequency) = # partners X # break points X # cancer types ** MAII score (Major Active Isofusion Index) = log2(# samples/DoF score*10) |
| Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
| Partner | Gene | GO ID | GO term | PubMed ID |
| Hgene | ARHGEF12 | GO:0007186 | G-protein coupled receptor signaling pathway | 15755723 |
| Fusion gene information from three resources (ChiTars (NAR, 2018), tumorfusions (NAR, 2018), Gao et al. (Cell, 2018)) * 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. |
| Data type | Source | Cancer type | Sample | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand |
| TCGA | LD | BLCA | TCGA-GV-A3QI-01A | ARHGEF12 | chr11 | 120302620 | + | GRIK4 | chr11 | 120673402 | + |
| TCGA | LD | PRAD | TCGA-VP-A87J-01A | ARHGEF12 | chr11 | 120207984 | + | GRIK4 | chr11 | 120811056 | + |
| * LD: Li Ding group's fusion gene list RV: Roel Verhaak group's fusion gene list ChiTaRs fusion database |
| 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. |
| ORF | Henst | Tenst | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand |
| Frame-shift | ENST00000397843 | ENST00000527524 | ARHGEF12 | chr11 | 120302620 | + | GRIK4 | chr11 | 120673402 | + |
| Frame-shift | ENST00000397843 | ENST00000438375 | ARHGEF12 | chr11 | 120302620 | + | GRIK4 | chr11 | 120673402 | + |
| 5CDS-intron | ENST00000397843 | ENST00000527130 | ARHGEF12 | chr11 | 120302620 | + | GRIK4 | chr11 | 120673402 | + |
| Frame-shift | ENST00000356641 | ENST00000527524 | ARHGEF12 | chr11 | 120302620 | + | GRIK4 | chr11 | 120673402 | + |
| Frame-shift | ENST00000356641 | ENST00000438375 | ARHGEF12 | chr11 | 120302620 | + | GRIK4 | chr11 | 120673402 | + |
| 5CDS-intron | ENST00000356641 | ENST00000527130 | ARHGEF12 | chr11 | 120302620 | + | GRIK4 | chr11 | 120673402 | + |
| Frame-shift | ENST00000532993 | ENST00000527524 | ARHGEF12 | chr11 | 120302620 | + | GRIK4 | chr11 | 120673402 | + |
| Frame-shift | ENST00000532993 | ENST00000438375 | ARHGEF12 | chr11 | 120302620 | + | GRIK4 | chr11 | 120673402 | + |
| 5CDS-intron | ENST00000532993 | ENST00000527130 | ARHGEF12 | chr11 | 120302620 | + | GRIK4 | chr11 | 120673402 | + |
| Frame-shift | ENST00000397843 | ENST00000527524 | ARHGEF12 | chr11 | 120207984 | + | GRIK4 | chr11 | 120811056 | + |
| Frame-shift | ENST00000397843 | ENST00000438375 | ARHGEF12 | chr11 | 120207984 | + | GRIK4 | chr11 | 120811056 | + |
| 5CDS-intron | ENST00000397843 | ENST00000527130 | ARHGEF12 | chr11 | 120207984 | + | GRIK4 | chr11 | 120811056 | + |
| Frame-shift | ENST00000356641 | ENST00000527524 | ARHGEF12 | chr11 | 120207984 | + | GRIK4 | chr11 | 120811056 | + |
| Frame-shift | ENST00000356641 | ENST00000438375 | ARHGEF12 | chr11 | 120207984 | + | GRIK4 | chr11 | 120811056 | + |
| 5CDS-intron | ENST00000356641 | ENST00000527130 | ARHGEF12 | chr11 | 120207984 | + | GRIK4 | chr11 | 120811056 | + |
| intron-3CDS | ENST00000532993 | ENST00000527524 | ARHGEF12 | chr11 | 120207984 | + | GRIK4 | chr11 | 120811056 | + |
| intron-3CDS | ENST00000532993 | ENST00000438375 | ARHGEF12 | chr11 | 120207984 | + | GRIK4 | chr11 | 120811056 | + |
| intron-intron | ENST00000532993 | ENST00000527130 | ARHGEF12 | chr11 | 120207984 | + | GRIK4 | chr11 | 120811056 | + |
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FusionProtFeatures for ARHGEF12_GRIK4 |
| Main function of each fusion partner protein. (from UniProt) |
| Hgene | Tgene |
| ARHGEF12 | GRIK4 |
| May play a role in the regulation of RhoA GTPase byguanine nucleotide-binding alpha-12 (GNA12) and alpha-13 (GNA13).Acts as guanine nucleotide exchange factor (GEF) for RhoA GTPaseand may act as GTPase-activating protein (GAP) for GNA12 andGNA13. {ECO:0000269|PubMed:11094164}. | Receptor for glutamate. L-glutamate acts as anexcitatory neurotransmitter at many synapses in the centralnervous system. The postsynaptic actions of Glu are mediated by avariety of receptors that are named according to their selectiveagonists. |
| Retention 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 . * 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. |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Protein feature | Protein feature note |
| - In-frame and not-retained protein feature among the 13 regional features. |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Protein feature | Protein feature note |
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FusionGeneSequence for ARHGEF12_GRIK4 |
| For in-frame fusion transcripts, we provide the fusion transcript sequences and fusion amino acid sequences. (nt: nucleotides, aa: amino acids) |
| * Fusion amino acid sequences. |
| * Fusion transcript sequences (only coding sequence (CDS) region). |
| * Fusion transcript sequences (Full-length transcript). |
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FusionGenePPI for ARHGEF12_GRIK4 |
| Go to ChiPPI (Chimeric Protein-Protein interactions) to see the chimeric PPI interaction in . |
| Protein-protein interactors with each fusion partner protein in wild-type (BIOGRID-3.4.160) |
| Hgene | Hgene's interactors | Tgene | Tgene's interactors |
| ARHGEF12 | ARHGEF12, RHOA, IGF1R, PLXNB2, PLXNB1, GNA12, GNA13, TEC, CUL3, ARRB2, CYLD, KLHL20, CCDC183, SLC25A41, TRMT61A, VAPB, NTRK1, CLK1, NIPSNAP1, SMC3, VAPA, GAN, MYO6, CDH1, RHOC, TRIM25 | GRIK4 | RAB5A, RUFY1, EGFR |
| - Retained PPIs in in-frame fusion. |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Still interaction with |
| - Lost PPIs in in-frame fusion. |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Interaction lost with |
| - Retained PPIs, but lost function due to frame-shift fusion. |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Interaction lost with |
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RelatedDrugs for ARHGEF12_GRIK4 |
| Drugs targeting genes involved in this fusion gene. (DrugBank Version 5.1.0 2018-04-02) |
| Partner | Gene | UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
| Tgene | GRIK4 | Q16099 | DB00142 | Glutamic Acid | Glutamate receptor ionotropic, kainate 4 | small molecule | approved|nutraceutical |
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RelatedDiseases for ARHGEF12_GRIK4 |
| Diseases associated with fusion partners. (DisGeNet 4.0) |
| Partner | Gene | Disease ID | Disease name | # pubmeds | Source |
| Hgene | ARHGEF12 | C0043094 | Weight Gain | 1 | CTD_human |
| Tgene | GRIK4 | C0005586 | Bipolar Disorder | 5 | PSYGENET |
| Tgene | GRIK4 | C0036341 | Schizophrenia | 4 | PSYGENET |
| Tgene | GRIK4 | C0005587 | Depression, Bipolar | 1 | PSYGENET |
| Tgene | GRIK4 | C0033975 | Psychotic Disorders | 1 | PSYGENET |
| Tgene | GRIK4 | C0041696 | Unipolar Depression | 1 | PSYGENET |
| Tgene | GRIK4 | C0349204 | Nonorganic psychosis | 1 | PSYGENET |
| Tgene | GRIK4 | C1269683 | Major Depressive Disorder | 1 | PSYGENET |
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