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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:MYC-PVT1 (FusionGDB2 ID:56238) |
Fusion Gene Summary for MYC-PVT1 |
 Fusion gene summary |
| Fusion gene information | Fusion gene name: MYC-PVT1 | Fusion gene ID: 56238 | Hgene | Tgene | Gene symbol | MYC | PVT1 | Gene ID | 4609 | 5820 |
| Gene name | MYC proto-oncogene, bHLH transcription factor | Pvt1 oncogene | |
| Synonyms | MRTL|MYCC|bHLHe39|c-Myc | LINC00079|MIR1204HG|NCRNA00079|onco-lncRNA-100 | |
| Cytomap | 8q24.21 | 8q24.21 | |
| Type of gene | protein-coding | ncRNA | |
| Description | myc proto-oncogene proteinavian myelocytomatosis viral oncogene homologclass E basic helix-loop-helix protein 39myc-related translation/localization regulatory factorproto-oncogene c-Myctranscription factor p64v-myc avian myelocytomatosis viral onco | CXCR4/PVT1 fusionHIST1H2BD/PVT1 fusionMIR1204, MIR1205, MIR1206 and MIR1207 hostOncogene PVT-1 (MYC activator)PVT1/CASC8 fusionPVT1/CCDC26 fusionPVT1/IFRD1 fusionPVT1/IRF2BP2 fusionPVT1/LINC00824 fusionPVT1/MYC fusionPVT1/NFIL3 fusionPVT1/NSMCE | |
| Modification date | 20200329 | 20200322 | |
| UniProtAcc | P01106 | . | |
| Ensembl transtripts involved in fusion gene | ENST00000377970, ENST00000524013, ENST00000259523, | ENST00000408388, | |
| Fusion gene scores | * DoF score | 18 X 21 X 3=1134 | 42 X 40 X 11=18480 |
| # samples | 22 | 54 | |
| ** MAII score | log2(22/1134*10)=-2.36584521141757 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | log2(54/18480*10)=-5.09686153925259 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | |
| Context | PubMed: MYC [Title/Abstract] AND PVT1 [Title/Abstract] AND fusion [Title/Abstract] | ||
| Most frequent breakpoint | PVT1(128806980)-MYC(128750494), # samples:2 PVT1(128903244)-MYC(128750494), # samples:2 PVT1(128903244)-MYC(128750497), # samples:2 PVT1(128806980)-MYC(128750497), # samples:2 PVT1(128806979)-MYC(128750493), # samples:2 MYC(128748869)-PVT1(129108764), # samples:1 MYC(128753382)-PVT1(128894556), # 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 |
| Hgene | MYC | GO:0000122 | negative regulation of transcription by RNA polymerase II | 9924025|19160485 |
| Hgene | MYC | GO:0006338 | chromatin remodeling | 21533051 |
| Hgene | MYC | GO:0006879 | cellular iron ion homeostasis | 9924025 |
| Hgene | MYC | GO:0006974 | cellular response to DNA damage stimulus | 17873522 |
| Hgene | MYC | GO:0007050 | cell cycle arrest | 10962037 |
| Hgene | MYC | GO:0008284 | positive regulation of cell proliferation | 15994933|19160485 |
| Hgene | MYC | GO:0010332 | response to gamma radiation | 19179467 |
| Hgene | MYC | GO:0010468 | regulation of gene expression | 21447833 |
| Hgene | MYC | GO:0010628 | positive regulation of gene expression | 15459207 |
| Hgene | MYC | GO:0032986 | protein-DNA complex disassembly | 19160485 |
| Hgene | MYC | GO:0035690 | cellular response to drug | 17873522|19179467 |
| Hgene | MYC | GO:0043280 | positive regulation of cysteine-type endopeptidase activity involved in apoptotic process | 19179467 |
| Hgene | MYC | GO:0045893 | positive regulation of transcription, DNA-templated | 10962037|17558397|18818310 |
| Hgene | MYC | GO:0045944 | positive regulation of transcription by RNA polymerase II | 10723141 |
| Hgene | MYC | GO:0048146 | positive regulation of fibroblast proliferation | 9924025|18987311 |
| Hgene | MYC | GO:0048147 | negative regulation of fibroblast proliferation | 10962037 |
| Hgene | MYC | GO:0050679 | positive regulation of epithelial cell proliferation | 18987311 |
| Hgene | MYC | GO:0051276 | chromosome organization | 10962037 |
| Hgene | MYC | GO:0051782 | negative regulation of cell division | 10962037 |
| Hgene | MYC | GO:0070371 | ERK1 and ERK2 cascade | 15459207 |
| Hgene | MYC | GO:0071456 | cellular response to hypoxia | 15459207 |
| Hgene | MYC | GO:2001022 | positive regulation of response to DNA damage stimulus | 19179467 |
| Fusion gene breakpoints across MYC (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 PVT1 (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 |
| ChimerDB4 | BRCA | TCGA-AR-A2LR-01A | MYC | chr8 | 128753382 | + | PVT1 | chr8 | 128894556 | + |
| ChimerDB4 | OV | TCGA-59-2351-01A | MYC | chr8 | 128748869 | + | PVT1 | chr8 | 129108764 | + |
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Fusion Gene ORF analysis for MYC-PVT1 |
| 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 |
| 3UTR-intron | ENST00000377970 | ENST00000408388 | MYC | chr8 | 128753382 | + | PVT1 | chr8 | 128894556 | + |
| 3UTR-intron | ENST00000524013 | ENST00000408388 | MYC | chr8 | 128753382 | + | PVT1 | chr8 | 128894556 | + |
| 5CDS-intron | ENST00000377970 | ENST00000408388 | MYC | chr8 | 128748869 | + | PVT1 | chr8 | 129108764 | + |
| 5CDS-intron | ENST00000524013 | ENST00000408388 | MYC | chr8 | 128748869 | + | PVT1 | chr8 | 129108764 | + |
| 5UTR-intron | ENST00000259523 | ENST00000408388 | MYC | chr8 | 128748869 | + | PVT1 | chr8 | 129108764 | + |
| intron-intron | ENST00000259523 | ENST00000408388 | MYC | chr8 | 128753382 | + | PVT1 | chr8 | 128894556 | + |
| 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 MYC-PVT1 |
| 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 MYC-PVT1 |
| Four levels of functional features of fusion genes Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/:128806980/:128750494) - 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 |
| MYC | . |
| FUNCTION: Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. Activates the transcription of growth-related genes. Binds to the VEGFA promoter, promoting VEGFA production and subsequent sprouting angiogenesis (PubMed:24940000). Regulator of somatic reprogramming, controls self-renewal of embryonic stem cells. Functions with TAF6L to activate target gene expression through RNA polymerase II pause release (By similarity). {ECO:0000250|UniProtKB:P01108, ECO:0000269|PubMed:24940000, ECO:0000269|PubMed:25956029}. | 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}. |
| 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 MYC-PVT1 |
| 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 MYC-PVT1 |
| 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 MYC-PVT1 |
| 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 MYC-PVT1 |
| Diseases associated with fusion partners. (DisGeNet 4.0) |
| Partner | Gene | Disease ID | Disease name | # pubmeds | Source |
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