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Fusion Protein:IL6R-ARHGEF2 |
Fusion Gene and Fusion Protein Summary |
 Fusion gene summary |
| Fusion partner gene information | Fusion gene name: IL6R-ARHGEF2 | FusionPDB ID: 39571 | FusionGDB2.0 ID: 39571 | Hgene | Tgene | Gene symbol | IL6R | ARHGEF2 | Gene ID | 3570 | 9181 |
| Gene name | interleukin 6 receptor | Rho/Rac guanine nucleotide exchange factor 2 | |
| Synonyms | CD126|IL-6R-1|IL-6RA|IL6Q|IL6RA|IL6RQ|gp80 | GEF|GEF-H1|GEFH1|LFP40|Lfc|NEDMHM|P40 | |
| Cytomap | 1q21.3 | 1q22 | |
| Type of gene | protein-coding | protein-coding | |
| Description | interleukin-6 receptor subunit alphaCD126 antigenIL-6 receptor subunit alphaIL-6R 1membrane glycoprotein 80 | rho guanine nucleotide exchange factor 2Rho/Rac guanine nucleotide exchange factor (GEF) 2guanine nucleotide exchange factor H1microtubule-regulated Rho-GEFproliferating cell nucleolar antigen p40 | |
| Modification date | 20200313 | 20200313 | |
| UniProtAcc | P08887 Main function of 5'-partner protein: FUNCTION: Part of the receptor for interleukin 6. Binds to IL6 with low affinity, but does not transduce a signal (PubMed:28265003). Signal activation necessitate an association with IL6ST. Activation leads to the regulation of the immune response, acute-phase reactions and hematopoiesis (PubMed:30995492, PubMed:31235509). The interaction with membrane-bound IL6R and IL6ST stimulates 'classic signaling', the restricted expression of the IL6R limits classic IL6 signaling to only a few tissues such as the liver and some cells of the immune system. Whereas the binding of IL6 and soluble IL6R to IL6ST stimulates 'trans-signaling'. Alternatively, 'cluster signaling' occurs when membrane-bound IL6:IL6R complexes on transmitter cells activate IL6ST receptors on neighboring receiver cells (Probable). {ECO:0000269|PubMed:28265003, ECO:0000269|PubMed:31235509, ECO:0000305|PubMed:30995492}.; FUNCTION: [Isoform 1]: Signaling via the membrane-bound IL6R is mostly regenerative and anti-inflammatory (Probable). Drives naive CD4(+) T cells to the Th17 lineage, through 'cluster signaling' by dendritic cells (By similarity). {ECO:0000250|UniProtKB:P22272, ECO:0000305|PubMed:30995492}.; FUNCTION: [Isoform 2]: Soluble form of IL6 receptor (sIL6R) that acts as an agonist of IL6 activity (PubMed:21990364). The IL6:sIL6R complex (hyper-IL6) binds to IL6ST/gp130 on cell surfaces and induces signaling also on cells that do not express membrane-bound IL6R in a process called IL6 'trans-signaling'. sIL6R is causative for the proinflammatory properties of IL6 and an important player in the development of chronic inflammatory diseases (PubMed:21990364). In complex with IL6, is required for induction of VEGF production (PubMed:12794819). Plays a protective role during liver injury, being required for maintenance of tissue regeneration (By similarity). 'Trans-signaling' in central nervous system regulates energy and glucose homeostasis (By similarity). {ECO:0000250|UniProtKB:P22272, ECO:0000269|PubMed:12794819, ECO:0000269|PubMed:21990364}.; FUNCTION: [Soluble interleukin-6 receptor subunit alpha]: Soluble form of IL6 receptor (sIL6R) that acts as an agonist of IL6 activity (PubMed:21990364). The IL6:sIL6R complex (hyper-IL6) binds to IL6ST/gp130 on cell surfaces and induces signaling also on cells that do not express membrane-bound IL6R in a process called IL6 'trans-signaling'. sIL6R is causative for the proinflammatory properties of IL6 and an important player in the development of chronic inflammatory diseases (PubMed:21990364). In complex with IL6, is required for induction of VEGF production (PubMed:12794819). Plays a protective role during liver injury, being required for maintenance of tissue regeneration (By similarity). 'Trans-signaling' in central nervous system regulates energy and glucose homeostasis (By similarity). {ECO:0000250|UniProtKB:P22272, ECO:0000269|PubMed:12794819, ECO:0000269|PubMed:21990364}. | Q8N1W1 Main function of 5'-partner protein: FUNCTION: Functions as a RHOA-specific guanine nucleotide exchange factor regulating signaling pathways downstream of integrins and growth factor receptors. Functions in axonal branching, synapse formation and dendritic morphogenesis. Functions also in focal adhesion formation, cell motility and B-lymphocytes activation. May regulate NEFL expression and aggregation and play a role in apoptosis (By similarity). {ECO:0000250}. | |
| Ensembl transtripts involved in fusion gene | ENST ids | ENST00000507256, ENST00000368485, ENST00000344086, | ENST00000313695, ENST00000361247, ENST00000368315, ENST00000368316, ENST00000462460, ENST00000313667, ENST00000477754, |
| Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0) | * DoF score | 5 X 6 X 5=150 | 8 X 10 X 8=640 |
| # samples | 6 | 16 | |
| ** MAII score | log2(6/150*10)=-1.32192809488736 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | log2(16/640*10)=-2 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | |
| Fusion gene context | PubMed: IL6R [Title/Abstract] AND ARHGEF2 [Title/Abstract] AND fusion [Title/Abstract] | ||
| Fusion neoantigen context | PubMed: IL6R [Title/Abstract] AND ARHGEF2 [Title/Abstract] AND neoantigen [Title/Abstract] | ||
| Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0) | IL6R(154427057)-ARHGEF2(155917806), # samples:1 | ||
| Anticipated loss of major functional domain due to fusion event. | IL6R-ARHGEF2 seems lost the major protein functional domain in Hgene partner, which is a CGC by not retaining the major functional domain in the partially deleted in-frame ORF. IL6R-ARHGEF2 seems lost the major protein functional domain in Hgene partner, which is a CGC by not retaining the major functional domain in the partially deleted in-frame ORF. IL6R-ARHGEF2 seems lost the major protein functional domain in Hgene partner, which is a essential gene by not retaining the major functional domain in the partially deleted in-frame ORF. IL6R-ARHGEF2 seems lost the major protein functional domain in Hgene partner, which is a essential gene by not retaining the major functional domain in the partially deleted in-frame ORF. IL6R-ARHGEF2 seems lost the major protein functional domain in Hgene partner, which is a IUPHAR drug target due to the frame-shifted ORF. IL6R-ARHGEF2 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) |
| 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 | IL6R | GO:0008284 | positive regulation of cell proliferation | 2261637 |
| Hgene | IL6R | GO:0019221 | cytokine-mediated signaling pathway | 2261637 |
| Hgene | IL6R | GO:0032722 | positive regulation of chemokine production | 10510402 |
| Hgene | IL6R | GO:0032755 | positive regulation of interleukin-6 production | 10510402 |
| Hgene | IL6R | GO:0034097 | response to cytokine | 2261637 |
| Hgene | IL6R | GO:0048661 | positive regulation of smooth muscle cell proliferation | 10510402 |
| Hgene | IL6R | GO:0050731 | positive regulation of peptidyl-tyrosine phosphorylation | 11884403 |
| Tgene | ARHGEF2 | GO:0032755 | positive regulation of interleukin-6 production | 21887730 |
| Tgene | ARHGEF2 | GO:0032760 | positive regulation of tumor necrosis factor production | 21887730 |
| Tgene | ARHGEF2 | GO:0045666 | positive regulation of neuron differentiation | 28453519 |
| Tgene | ARHGEF2 | GO:0045944 | positive regulation of transcription by RNA polymerase II | 21887730 |
| Tgene | ARHGEF2 | GO:0050731 | positive regulation of peptidyl-tyrosine phosphorylation | 21887730 |
| Tgene | ARHGEF2 | GO:0051092 | positive regulation of NF-kappaB transcription factor activity | 19043560|21887730 |
| Tgene | ARHGEF2 | GO:0055059 | asymmetric neuroblast division | 28453519 |
| Tgene | ARHGEF2 | GO:0071225 | cellular response to muramyl dipeptide | 21887730 |
| Four levels of functional features of fusion genes Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/chr1:154427057/chr1:155917806) - 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. |
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| Retention analysis results 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, are available here. |
| Fusion gene breakpoints across IL6R (5'-gene) * Click on the image to open the UCSC genome browser with custom track showing this image in a new window. |
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| Fusion gene breakpoints across ARHGEF2 (3'-gene) * Click on the image to open the UCSC genome browser with custom track showing this image in a new window. |
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Fusion Amino Acid Sequences |
| Fusion information from ORFfinder translation from full-length transcript sequence from FusionPDB. |
| Henst | Tenst | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand | Seq length (transcript) | BP loci (transcript) | Predicted start (transcript) | Predicted stop (transcript) | Seq length (amino acids) |
| ENST00000368485 | IL6R | chr1 | 154427057 | + | ENST00000368315 | ARHGEF2 | chr1 | 155917806 | - | 2774 | 1597 | 311 | 1717 | 468 |
| ENST00000368485 | IL6R | chr1 | 154427057 | + | ENST00000361247 | ARHGEF2 | chr1 | 155917806 | - | 2759 | 1597 | 311 | 1717 | 468 |
| DeepORF 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. |
| Henst | Tenst | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand | No-coding score | Coding score |
| ENST00000368485 | ENST00000368315 | IL6R | chr1 | 154427057 | + | ARHGEF2 | chr1 | 155917806 | - | 0.1250279 | 0.8749721 |
| ENST00000368485 | ENST00000361247 | IL6R | chr1 | 154427057 | + | ARHGEF2 | chr1 | 155917806 | - | 0.13224728 | 0.86775273 |
| Predicted full-length fusion amino acid sequences. For individual full-length fusion transcript sequence from FusionPDB, we ran ORFfinder and chose the longest ORF among all the predicted ones. |
Get the fusion protein sequences from here. |
| Fusion protein sequence information is available in the fasta format. >FusionGDB ID_FusionGDB isoform ID_FGname_Hgene_Hchr_Hbp_Henst_Tgene_Tchr_Tbp_Tenst_length(fusion AA) seq_BP |
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Fusion Protein Breakpoint Sequences for IL6R-ARHGEF2 |
| +/-13 AA sequence from the breakpoints of the fusion protein sequences. |
| Hgene | Hchr | Hbp | Tgene | Tchr | Tbp | Length(fusion protein) | BP in fusion protein | Peptide |
| IL6R | chr1 | 154427057 | ARHGEF2 | chr1 | 155917806 | 1597 | 428 | LAFGTLLCIAIVLRLYQNAGHPGGDG |
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Potential FusionNeoAntigen Information of IL6R-ARHGEF2 in HLA I |
| Multiple sequence alignments of the potential FusionNeoAntigens per fusion breakpoints. If the MSA is empty, then it means that there were predicted fusion neoantigens in this fusion breakpoint, but those predicted fusion neoantigens were not across the breakpoint, which is not fusion-specific. |
| IL6R-ARHGEF2_154427057_155917806.msa |
| Potential FusionNeoAntigen Information * We used NetMHCpan v4.1 (%rank<0.5) and deepHLApan v1.1 (immunogenic score>0.5) |
| Fusion gene | Hchr | Hbp | Tgene | Tchr | Tbp | HLA I | FusionNeoAntigen peptide | Binding score | Immunogenic score | Neoantigen start (at BP 13) | Neoantigen end (at BP 13) |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | HLA-C12:04 | IAIVLRLY | 0.9619 | 0.9951 | 8 | 16 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | HLA-C03:02 | IAIVLRLY | 0.9969 | 0.9509 | 8 | 16 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | HLA-C16:04 | IAIVLRLY | 0.9781 | 0.9803 | 8 | 16 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | HLA-C16:01 | IAIVLRLY | 0.9614 | 0.9508 | 8 | 16 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | HLA-C12:03 | IAIVLRLY | 0.9592 | 0.9764 | 8 | 16 |
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Potential FusionNeoAntigen Information of IL6R-ARHGEF2 in HLA II |
| Multiple sequence alignments of the potential FusionNeoAntigens per fusion breakpoints. If the MSA is empty, then it means that there were predicted fusion neoantigens in this fusion breakpoint, but those predicted fusion neoantigens were not across the breakpoint, which is not fusion-specific. |
| IL6R-ARHGEF2_154427057_155917806.msa |
| Potential FusionNeoAntigen Information * We used NetMHCIIpan v4.1 (%rank<0.5). |
| Fusion gene | Hchr | Hbp | Tgene | Tchr | Tbp | HLA II | FusionNeoAntigen peptide | Neoantigen start (at BP 13) | Neoantigen end (at BP 13) |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-0465 | AIVLRLYQNAGHPGG | 9 | 24 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-0473 | AIVLRLYQNAGHPGG | 9 | 24 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-0473 | IAIVLRLYQNAGHPG | 8 | 23 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1457 | AIVLRLYQNAGHPGG | 9 | 24 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1501 | AIVLRLYQNAGHPGG | 9 | 24 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1501 | IAIVLRLYQNAGHPG | 8 | 23 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1502 | AIVLRLYQNAGHPGG | 9 | 24 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1504 | AIVLRLYQNAGHPGG | 9 | 24 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1504 | IAIVLRLYQNAGHPG | 8 | 23 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1505 | AIVLRLYQNAGHPGG | 9 | 24 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1505 | IAIVLRLYQNAGHPG | 8 | 23 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1506 | AIVLRLYQNAGHPGG | 9 | 24 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1506 | IAIVLRLYQNAGHPG | 8 | 23 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1507 | AIVLRLYQNAGHPGG | 9 | 24 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1507 | IAIVLRLYQNAGHPG | 8 | 23 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1508 | AIVLRLYQNAGHPGG | 9 | 24 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1509 | AIVLRLYQNAGHPGG | 9 | 24 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1509 | IAIVLRLYQNAGHPG | 8 | 23 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1510 | AIVLRLYQNAGHPGG | 9 | 24 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1511 | AIVLRLYQNAGHPGG | 9 | 24 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1512 | AIVLRLYQNAGHPGG | 9 | 24 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1512 | IAIVLRLYQNAGHPG | 8 | 23 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1513 | AIVLRLYQNAGHPGG | 9 | 24 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1513 | IAIVLRLYQNAGHPG | 8 | 23 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1514 | AIVLRLYQNAGHPGG | 9 | 24 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1516 | AIVLRLYQNAGHPGG | 9 | 24 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1516 | IAIVLRLYQNAGHPG | 8 | 23 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1518 | AIVLRLYQNAGHPGG | 9 | 24 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1518 | IAIVLRLYQNAGHPG | 8 | 23 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1519 | AIVLRLYQNAGHPGG | 9 | 24 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1520 | AIVLRLYQNAGHPGG | 9 | 24 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1520 | IAIVLRLYQNAGHPG | 8 | 23 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1521 | AIVLRLYQNAGHPGG | 9 | 24 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1522 | AIVLRLYQNAGHPGG | 9 | 24 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1522 | IAIVLRLYQNAGHPG | 8 | 23 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1524 | AIVLRLYQNAGHPGG | 9 | 24 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1524 | IAIVLRLYQNAGHPG | 8 | 23 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1526 | AIVLRLYQNAGHPGG | 9 | 24 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1528 | AIVLRLYQNAGHPGG | 9 | 24 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1528 | IAIVLRLYQNAGHPG | 8 | 23 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1530 | AIVLRLYQNAGHPGG | 9 | 24 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1531 | AIVLRLYQNAGHPGG | 9 | 24 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1532 | AIVLRLYQNAGHPGG | 9 | 24 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1532 | IAIVLRLYQNAGHPG | 8 | 23 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1533 | AIVLRLYQNAGHPGG | 9 | 24 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1533 | IAIVLRLYQNAGHPG | 8 | 23 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1535 | AIVLRLYQNAGHPGG | 9 | 24 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1535 | IAIVLRLYQNAGHPG | 8 | 23 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1536 | AIVLRLYQNAGHPGG | 9 | 24 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1536 | IAIVLRLYQNAGHPG | 8 | 23 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1537 | AIVLRLYQNAGHPGG | 9 | 24 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1537 | IAIVLRLYQNAGHPG | 8 | 23 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1538 | AIVLRLYQNAGHPGG | 9 | 24 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1539 | AIVLRLYQNAGHPGG | 9 | 24 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1540 | AIVLRLYQNAGHPGG | 9 | 24 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1540 | IAIVLRLYQNAGHPG | 8 | 23 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1541 | AIVLRLYQNAGHPGG | 9 | 24 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1541 | IAIVLRLYQNAGHPG | 8 | 23 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1542 | AIVLRLYQNAGHPGG | 9 | 24 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1542 | IAIVLRLYQNAGHPG | 8 | 23 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1543 | AIVLRLYQNAGHPGG | 9 | 24 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1543 | IAIVLRLYQNAGHPG | 8 | 23 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1544 | AIVLRLYQNAGHPGG | 9 | 24 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1545 | AIVLRLYQNAGHPGG | 9 | 24 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1545 | IAIVLRLYQNAGHPG | 8 | 23 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1546 | AIVLRLYQNAGHPGG | 9 | 24 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1546 | IAIVLRLYQNAGHPG | 8 | 23 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1547 | AIVLRLYQNAGHPGG | 9 | 24 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1548 | AIVLRLYQNAGHPGG | 9 | 24 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1548 | IAIVLRLYQNAGHPG | 8 | 23 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1549 | AIVLRLYQNAGHPGG | 9 | 24 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB1-1549 | IAIVLRLYQNAGHPG | 8 | 23 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB3-0201 | VLRLYQNAGHPGGDG | 11 | 26 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB3-0201 | IVLRLYQNAGHPGGD | 10 | 25 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB3-0212 | VLRLYQNAGHPGGDG | 11 | 26 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB3-0214 | VLRLYQNAGHPGGDG | 11 | 26 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB3-0214 | IVLRLYQNAGHPGGD | 10 | 25 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB3-0217 | VLRLYQNAGHPGGDG | 11 | 26 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB3-0224 | VLRLYQNAGHPGGDG | 11 | 26 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB3-0224 | IVLRLYQNAGHPGGD | 10 | 25 |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 | DRB5-0204 | AIVLRLYQNAGHPGG | 9 | 24 |
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Fusion breakpoint peptide structures of IL6R-ARHGEF2 |
| 3D structures of the fusion breakpoint peptide of 14AA sequence that have potential fusion neoantigens * The minimum length of the amino acid sequence in RoseTTAFold is 14AA. Here, we predicted the 14AA fusion protein breakpoint sequence not the fusion neoantigen peptide, which is shorter than 14 AA. |
| File name | BPseq | Hgene | Tgene | Hchr | Hbp | Tchr | Tbp | AAlen |
| 4814 | LCIAIVLRLYQNAG | IL6R | ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 1597 |
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Filtering FusionNeoAntigens Through Checking the Interaction with HLAs in 3D of IL6R-ARHGEF2 |
| Virtual screening between 25 HLAs (from PDB) and FusionNeoAntigens * We used Glide to predict the interaction between HLAs and neoantigens. |
| HLA allele | PDB ID | File name | BPseq | Docking score | Glide score |
| HLA-B14:02 | 3BVN | 4814 | LCIAIVLRLYQNAG | -7.9962 | -8.1096 |
| HLA-B14:02 | 3BVN | 4814 | LCIAIVLRLYQNAG | -5.70842 | -6.74372 |
| HLA-B52:01 | 3W39 | 4814 | LCIAIVLRLYQNAG | -6.83737 | -6.95077 |
| HLA-B52:01 | 3W39 | 4814 | LCIAIVLRLYQNAG | -4.4836 | -5.5189 |
| HLA-A11:01 | 4UQ2 | 4814 | LCIAIVLRLYQNAG | -10.0067 | -10.1201 |
| HLA-A11:01 | 4UQ2 | 4814 | LCIAIVLRLYQNAG | -9.03915 | -10.0745 |
| HLA-A24:02 | 5HGA | 4814 | LCIAIVLRLYQNAG | -6.56204 | -6.67544 |
| HLA-A24:02 | 5HGA | 4814 | LCIAIVLRLYQNAG | -5.42271 | -6.45801 |
| HLA-B44:05 | 3DX8 | 4814 | LCIAIVLRLYQNAG | -7.85648 | -8.89178 |
| HLA-B44:05 | 3DX8 | 4814 | LCIAIVLRLYQNAG | -5.3978 | -5.5112 |
| HLA-A02:01 | 6TDR | 4814 | LCIAIVLRLYQNAG | -3.37154 | -4.40684 |
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Vaccine Design for the FusionNeoAntigens of IL6R-ARHGEF2 |
| mRNA and peptide sequences of FusionNeoAntigens that have potential interaction with HLA-Is. |
| Fusion gene | Hchr | Hbp | Tchr | Tbp | Start in +/-13AA | End in +/-13AA | FusionNeoAntigen peptide sequence | FusionNeoAntigen RNA sequence |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 8 | 16 | IAIVLRLY | TGCCATTGTTCTGAGACTTTACCA |
| mRNA and peptide sequences of FusionNeoAntigens that have potential interaction with HLA-IIs. |
| Fusion gene | Hchr | Hbp | Tchr | Tbp | Start in +/-13AA | End in +/-13AA | FusionNeoAntigen peptide | FusionNEoAntigen RNA sequence |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 10 | 25 | IVLRLYQNAGHPGGD | TGTTCTGAGACTTTACCAGAATGCAGGACATCCCGGAGGAGACGG |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 11 | 26 | VLRLYQNAGHPGGDG | TCTGAGACTTTACCAGAATGCAGGACATCCCGGAGGAGACGGAGA |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 8 | 23 | IAIVLRLYQNAGHPG | TGCCATTGTTCTGAGACTTTACCAGAATGCAGGACATCCCGGAGG |
| IL6R-ARHGEF2 | chr1 | 154427057 | chr1 | 155917806 | 9 | 24 | AIVLRLYQNAGHPGG | CATTGTTCTGAGACTTTACCAGAATGCAGGACATCCCGGAGGAGA |
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Information of the samples that have these potential fusion neoantigens of IL6R-ARHGEF2 |
| These samples were reported as having these fusion breakpoints. For individual breakpoints, we checked the open reading frames considering multiple gene isoforms and chose the in-frame fusion genes only. Then, we made fusion protein sequences and predicted the fusion neoantigens. These fusion-positive samples may have these potential fusion neoantigens. |
| Cancer type | Fusion gene | Hchr | Hbp | Henst | Tchr | Tbp | Tenst | Sample |
| BRCA | IL6R-ARHGEF2 | chr1 | 154427057 | ENST00000368485 | chr1 | 155917806 | ENST00000361247 | TCGA-AN-A0XV-01A |
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Potential target of CAR-T therapy development for IL6R-ARHGEF2 |
| Predicted 3D structure. We used RoseTTAFold. |
| 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, to provide the retention of the transmembrane domain, we only show the protein feature retention information of those transmembrane features * Minus value of BPloci means that the break point is located before the CDS. |
| - In-frame and retained 'Transmembrane'. |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Protein feature | Protein feature note |
| Hgene | IL6R | chr1:154427057 | chr1:155917806 | ENST00000368485 | + | 9 | 10 | 366_386 | 386 | 469.0 | Transmembrane | Helical |
| Subcellular localization prediction of the transmembrane domain retained fusion proteins * We used DeepLoc 1.0. The order of the X-axis of the barplot is as follows: Entry_ID, Localization, Type, Nucleus, Cytoplasm, Extracellular, Mitochondrion, Cell_membrane, Endoplasmic_reticulum, Plastid, Golgi.apparatus, Lysosome.Vacuole, Peroxisome. Y-axis is the output score of DeepLoc. Clicking the image will open a new tab with a large image. |
| Hgene | Hchr | Hbp | Henst | Tgene | Tchr | Tbp | Tenst | DeepLoc result |
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Related Drugs to IL6R-ARHGEF2 |
| Drugs used for this fusion-positive patient. (Manual curation of PubMed, 04-30-2022 + MyCancerGenome) |
| Hgene | Tgene | Drug | Source | PMID |
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Related Diseases to IL6R-ARHGEF2 |
| Diseases that have this fusion gene. (Manual curation of PubMed, 04-30-2022 + MyCancerGenome) |
| Hgene | Tgene | Disease | Source | PMID |
| Diseases associated with fusion partners. (DisGeNet 4.0) |
| Partner | Gene | Disease ID | Disease name | # pubmeds | Source |
| Hgene | IL6R | C0003873 | Rheumatoid Arthritis | 2 | CTD_human |
| Hgene | IL6R | C0001787 | Osteoporosis, Age-Related | 1 | CTD_human |
| Hgene | IL6R | C0004096 | Asthma | 1 | CTD_human |
| Hgene | IL6R | C0007131 | Non-Small Cell Lung Carcinoma | 1 | CTD_human |
| Hgene | IL6R | C0007134 | Renal Cell Carcinoma | 1 | CTD_human |
| Hgene | IL6R | C0011570 | Mental Depression | 1 | PSYGENET |
| Hgene | IL6R | C0011581 | Depressive disorder | 1 | PSYGENET |
| Hgene | IL6R | C0013595 | Eczema | 1 | GENOMICS_ENGLAND |
| Hgene | IL6R | C0024623 | Malignant neoplasm of stomach | 1 | CTD_human |
| Hgene | IL6R | C0029456 | Osteoporosis | 1 | CTD_human |
| Hgene | IL6R | C0029459 | Osteoporosis, Senile | 1 | CTD_human |
| Hgene | IL6R | C0036341 | Schizophrenia | 1 | CTD_human |
| Hgene | IL6R | C0038356 | Stomach Neoplasms | 1 | CTD_human |
| Hgene | IL6R | C0239998 | Recurrent infections | 1 | GENOMICS_ENGLAND |
| Hgene | IL6R | C0279702 | Conventional (Clear Cell) Renal Cell Carcinoma | 1 | CTD_human |
| Hgene | IL6R | C0751406 | Post-Traumatic Osteoporosis | 1 | CTD_human |
| Hgene | IL6R | C1266042 | Chromophobe Renal Cell Carcinoma | 1 | CTD_human |
| Hgene | IL6R | C1266043 | Sarcomatoid Renal Cell Carcinoma | 1 | CTD_human |
| Hgene | IL6R | C1266044 | Collecting Duct Carcinoma of the Kidney | 1 | CTD_human |
| Hgene | IL6R | C1306837 | Papillary Renal Cell Carcinoma | 1 | CTD_human |
| Hgene | IL6R | C1708349 | Hereditary Diffuse Gastric Cancer | 1 | CTD_human |
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