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 | Fusion Gene Summary |
| Fusion Gene ORF analysis |
| Fusion Genomic Features |
| Fusion Protein Features |
| Fusion Gene Sequence |
| Fusion Gene PPI analysis |
| Related Drugs |
| Related Diseases |
Fusion gene:IL1RAP-GTF2F1 (FusionGDB2 ID:39466) |
Fusion Gene Summary for IL1RAP-GTF2F1 |
 Fusion gene summary |
| Fusion gene information | Fusion gene name: IL1RAP-GTF2F1 | Fusion gene ID: 39466 | Hgene | Tgene | Gene symbol | IL1RAP | GTF2F1 | Gene ID | 3556 | 2962 |
| Gene name | interleukin 1 receptor accessory protein | general transcription factor IIF subunit 1 | |
| Synonyms | C3orf13|IL-1RAcP|IL1R3 | BTF4|RAP74|TF2F1|TFIIF | |
| Cytomap | 3q28 | 19p13.3 | |
| Type of gene | protein-coding | protein-coding | |
| Description | interleukin-1 receptor accessory proteinIL-1 receptor accessory proteininterleukin-1 receptor 3interleukin-1 receptor accessory protein beta | general transcription factor IIF subunit 1TFIIF-alphageneral transcription factor IIF 74 kDa subunitgeneral transcription factor IIF, polypeptide 1, 74kDatranscription initiation factor IIF subunit alphatranscription initiation factor RAP74 | |
| Modification date | 20200313 | 20200313 | |
| UniProtAcc | Q9NPH3 | P35269 | |
| Ensembl transtripts involved in fusion gene | ENST00000072516, ENST00000317757, ENST00000412504, ENST00000422485, ENST00000422940, ENST00000434491, ENST00000439062, ENST00000443369, ENST00000447382, ENST00000465496, | ENST00000394456, ENST00000429701, | |
| Fusion gene scores | * DoF score | 7 X 5 X 4=140 | 5 X 4 X 4=80 |
| # samples | 10 | 5 | |
| ** MAII score | log2(10/140*10)=-0.485426827170242 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | log2(5/80*10)=-0.678071905112638 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | |
| Context | PubMed: IL1RAP [Title/Abstract] AND GTF2F1 [Title/Abstract] AND fusion [Title/Abstract] | ||
| Most frequent breakpoint | IL1RAP(189924450)-GTF2F1(6386423), # samples:1 | ||
| Anticipated loss of major functional domain due to fusion event. | |||
| * 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 |
| Fusion gene breakpoints across IL1RAP (5'-gene) * Click on the image to open the UCSC genome browser with custom track showing this image in a new window. |
| Fusion gene breakpoints across GTF2F1 (3'-gene) * Click on the image to open the UCSC genome browser with custom track showing this image in a new window. |
| 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. |
| Source | Disease | Sample | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand |
| ChiTaRS5.0 | N/A | BQ717652 | IL1RAP | chr3 | 189924450 | - | GTF2F1 | chr19 | 6386423 | + |
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Fusion Gene ORF analysis for IL1RAP-GTF2F1 |
| 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 |
| intron-intron | ENST00000072516 | ENST00000394456 | IL1RAP | chr3 | 189924450 | - | GTF2F1 | chr19 | 6386423 | + |
| intron-intron | ENST00000072516 | ENST00000429701 | IL1RAP | chr3 | 189924450 | - | GTF2F1 | chr19 | 6386423 | + |
| intron-intron | ENST00000317757 | ENST00000394456 | IL1RAP | chr3 | 189924450 | - | GTF2F1 | chr19 | 6386423 | + |
| intron-intron | ENST00000317757 | ENST00000429701 | IL1RAP | chr3 | 189924450 | - | GTF2F1 | chr19 | 6386423 | + |
| intron-intron | ENST00000412504 | ENST00000394456 | IL1RAP | chr3 | 189924450 | - | GTF2F1 | chr19 | 6386423 | + |
| intron-intron | ENST00000412504 | ENST00000429701 | IL1RAP | chr3 | 189924450 | - | GTF2F1 | chr19 | 6386423 | + |
| intron-intron | ENST00000422485 | ENST00000394456 | IL1RAP | chr3 | 189924450 | - | GTF2F1 | chr19 | 6386423 | + |
| intron-intron | ENST00000422485 | ENST00000429701 | IL1RAP | chr3 | 189924450 | - | GTF2F1 | chr19 | 6386423 | + |
| intron-intron | ENST00000422940 | ENST00000394456 | IL1RAP | chr3 | 189924450 | - | GTF2F1 | chr19 | 6386423 | + |
| intron-intron | ENST00000422940 | ENST00000429701 | IL1RAP | chr3 | 189924450 | - | GTF2F1 | chr19 | 6386423 | + |
| intron-intron | ENST00000434491 | ENST00000394456 | IL1RAP | chr3 | 189924450 | - | GTF2F1 | chr19 | 6386423 | + |
| intron-intron | ENST00000434491 | ENST00000429701 | IL1RAP | chr3 | 189924450 | - | GTF2F1 | chr19 | 6386423 | + |
| intron-intron | ENST00000439062 | ENST00000394456 | IL1RAP | chr3 | 189924450 | - | GTF2F1 | chr19 | 6386423 | + |
| intron-intron | ENST00000439062 | ENST00000429701 | IL1RAP | chr3 | 189924450 | - | GTF2F1 | chr19 | 6386423 | + |
| intron-intron | ENST00000443369 | ENST00000394456 | IL1RAP | chr3 | 189924450 | - | GTF2F1 | chr19 | 6386423 | + |
| intron-intron | ENST00000443369 | ENST00000429701 | IL1RAP | chr3 | 189924450 | - | GTF2F1 | chr19 | 6386423 | + |
| intron-intron | ENST00000447382 | ENST00000394456 | IL1RAP | chr3 | 189924450 | - | GTF2F1 | chr19 | 6386423 | + |
| intron-intron | ENST00000447382 | ENST00000429701 | IL1RAP | chr3 | 189924450 | - | GTF2F1 | chr19 | 6386423 | + |
| intron-intron | ENST00000465496 | ENST00000394456 | IL1RAP | chr3 | 189924450 | - | GTF2F1 | chr19 | 6386423 | + |
| intron-intron | ENST00000465496 | ENST00000429701 | IL1RAP | chr3 | 189924450 | - | GTF2F1 | chr19 | 6386423 | + |
| ORFfinder result based on the fusion transcript sequence of in-frame fusion genes. |
| 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) |
| 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 |
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Fusion Genomic Features for IL1RAP-GTF2F1 |
| FusionAI 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. |
| Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand | 1-p | p (fusion gene breakpoint) |
| Distribution 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. |
| Distribution 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 IL1RAP-GTF2F1 |
| Four levels of functional features of fusion genes Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/:189924450/:6386423) - 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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| Main function of each fusion partner protein. (from UniProt) |
| Hgene | Tgene |
| IL1RAP | GTF2F1 |
| FUNCTION: Coreceptor for IL1RL2 in the IL-36 signaling system (By similarity). Coreceptor with IL1R1 in the IL-1 signaling system. Associates with IL1R1 bound to IL1B to form the high affinity interleukin-1 receptor complex which mediates interleukin-1-dependent activation of NF-kappa-B and other pathways. Signaling involves the recruitment of adapter molecules such as TOLLIP, MYD88, and IRAK1 or IRAK2 via the respective TIR domains of the receptor/coreceptor subunits. Recruits TOLLIP to the signaling complex. Does not bind to interleukin-1 alone; binding of IL1RN to IL1R1, prevents its association with IL1R1 to form a signaling complex. The cellular response is modulated through a non-signaling association with the membrane IL1R2 decoy receptor. Coreceptor for IL1RL1 in the IL-33 signaling system. Can bidirectionally induce pre- and postsynaptic differentiation of neurons by trans-synaptically binding to PTPRD (By similarity). May play a role in IL1B-mediated costimulation of IFNG production from T-helper 1 (Th1) cells (Probable). {ECO:0000250|UniProtKB:Q61730, ECO:0000269|PubMed:10799889, ECO:0000269|PubMed:9371760, ECO:0000305|PubMed:10653850, ECO:0000305|PubMed:19836339}.; FUNCTION: [Isoform 2]: Associates with secreted ligand-bound IL1R2 and increases the affinity of secreted IL1R2 for IL1B; this complex formation may be the dominant mechanism for neutralization of IL1B by secreted/soluble receptors (PubMed:12530978). Enhances the ability of secreted IL1R1 to inhibit IL-33 signaling (By similarity). {ECO:0000250|UniProtKB:Q61730, ECO:0000269|PubMed:12530978}.; FUNCTION: [Isoform 4]: Unable to mediate canonical IL-1 signaling (PubMed:19481478). Required for Src phosphorylation by IL1B. May be involved in IL1B-potentiated NMDA-induced calcium influx in neurons (By similarity). {ECO:0000250|UniProtKB:Q61730, ECO:0000269|PubMed:19481478}. | FUNCTION: TFIIF is a general transcription initiation factor that binds to RNA polymerase II and helps to recruit it to the initiation complex in collaboration with TFIIB. It promotes transcription elongation. {ECO:0000269|PubMed:10428810}. |
| 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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Fusion Gene Sequence for IL1RAP-GTF2F1 |
| 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 IL1RAP-GTF2F1 |
| 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 |
| - 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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Related Drugs for IL1RAP-GTF2F1 |
| Drugs targeting genes involved in this fusion gene. (DrugBank Version 5.1.8 2021-05-08) |
| Partner | Gene | UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
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Related Diseases for IL1RAP-GTF2F1 |
| Diseases associated with fusion partners. (DisGeNet 4.0) |
| Partner | Gene | Disease ID | Disease name | # pubmeds | Source |
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