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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:CBFA2T2-NCOA6 (FusionGDB2 ID:13345) |
Fusion Gene Summary for CBFA2T2-NCOA6 |
 Fusion gene summary |
| Fusion gene information | Fusion gene name: CBFA2T2-NCOA6 | Fusion gene ID: 13345 | Hgene | Tgene | Gene symbol | CBFA2T2 | NCOA6 | Gene ID | 9139 | 23054 |
| Gene name | CBFA2/RUNX1 partner transcriptional co-repressor 2 | nuclear receptor coactivator 6 | |
| Synonyms | EHT|MTGR1|ZMYND3|p85 | AIB3|ASC2|NRC|PRIP|RAP250|TRBP | |
| Cytomap | 20q11.21-q11.22 | 20q11.22 | |
| Type of gene | protein-coding | protein-coding | |
| Description | protein CBFA2T2CBFA2/RUNX1 translocation partner 2ETO homolog on chromosome 20ETO homologous on chromosome 20MTG8-like proteinMTG8-related protein 1core-binding factor, runt domain, alpha subunit 2; translocated to, 2myeloid translocation gene-rela | nuclear receptor coactivator 6NRC RAP250PPAR-interacting proteinactivating signal cointegrator-2amplified in breast cancer protein 3amplified in breast cancer-3 proteincancer-amplified transcriptional coactivator ASC-2nuclear receptor coactivator R | |
| Modification date | 20200313 | 20200313 | |
| UniProtAcc | O43439 | Q14686 | |
| Ensembl transtripts involved in fusion gene | ENST00000491618, ENST00000342704, ENST00000346541, ENST00000359606, ENST00000375279, ENST00000397800, ENST00000492345, ENST00000344201, ENST00000397798, ENST00000543126, | ENST00000359003, ENST00000374796, ENST00000593786, | |
| Fusion gene scores | * DoF score | 26 X 9 X 12=2808 | 14 X 13 X 8=1456 |
| # samples | 27 | 17 | |
| ** MAII score | log2(27/2808*10)=-3.37851162325373 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | log2(17/1456*10)=-3.098403704061 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | |
| Context | PubMed: CBFA2T2 [Title/Abstract] AND NCOA6 [Title/Abstract] AND fusion [Title/Abstract] | ||
| Most frequent breakpoint | CBFA2T2(32212823)-NCOA6(33370207), # 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 | CBFA2T2 | GO:0010976 | positive regulation of neuron projection development | 19026687 |
| Hgene | CBFA2T2 | GO:0045892 | negative regulation of transcription, DNA-templated | 23251453 |
| Tgene | NCOA6 | GO:0006352 | DNA-templated transcription, initiation | 10567404 |
| Tgene | NCOA6 | GO:0006974 | cellular response to DNA damage stimulus | 17500065 |
| Tgene | NCOA6 | GO:0030099 | myeloid cell differentiation | 11302752 |
| Tgene | NCOA6 | GO:0045944 | positive regulation of transcription by RNA polymerase II | 11443112 |
| Fusion gene breakpoints across CBFA2T2 (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 NCOA6 (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-A8-A081-01A | CBFA2T2 | chr20 | 32212823 | + | NCOA6 | chr20 | 33370207 | - |
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Fusion Gene ORF analysis for CBFA2T2-NCOA6 |
| 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-5UTR | ENST00000491618 | ENST00000359003 | CBFA2T2 | chr20 | 32212823 | + | NCOA6 | chr20 | 33370207 | - |
| 3UTR-5UTR | ENST00000491618 | ENST00000374796 | CBFA2T2 | chr20 | 32212823 | + | NCOA6 | chr20 | 33370207 | - |
| 3UTR-intron | ENST00000491618 | ENST00000593786 | CBFA2T2 | chr20 | 32212823 | + | NCOA6 | chr20 | 33370207 | - |
| 5CDS-5UTR | ENST00000342704 | ENST00000359003 | CBFA2T2 | chr20 | 32212823 | + | NCOA6 | chr20 | 33370207 | - |
| 5CDS-5UTR | ENST00000342704 | ENST00000374796 | CBFA2T2 | chr20 | 32212823 | + | NCOA6 | chr20 | 33370207 | - |
| 5CDS-5UTR | ENST00000346541 | ENST00000359003 | CBFA2T2 | chr20 | 32212823 | + | NCOA6 | chr20 | 33370207 | - |
| 5CDS-5UTR | ENST00000346541 | ENST00000374796 | CBFA2T2 | chr20 | 32212823 | + | NCOA6 | chr20 | 33370207 | - |
| 5CDS-5UTR | ENST00000359606 | ENST00000359003 | CBFA2T2 | chr20 | 32212823 | + | NCOA6 | chr20 | 33370207 | - |
| 5CDS-5UTR | ENST00000359606 | ENST00000374796 | CBFA2T2 | chr20 | 32212823 | + | NCOA6 | chr20 | 33370207 | - |
| 5CDS-5UTR | ENST00000375279 | ENST00000359003 | CBFA2T2 | chr20 | 32212823 | + | NCOA6 | chr20 | 33370207 | - |
| 5CDS-5UTR | ENST00000375279 | ENST00000374796 | CBFA2T2 | chr20 | 32212823 | + | NCOA6 | chr20 | 33370207 | - |
| 5CDS-5UTR | ENST00000397800 | ENST00000359003 | CBFA2T2 | chr20 | 32212823 | + | NCOA6 | chr20 | 33370207 | - |
| 5CDS-5UTR | ENST00000397800 | ENST00000374796 | CBFA2T2 | chr20 | 32212823 | + | NCOA6 | chr20 | 33370207 | - |
| 5CDS-5UTR | ENST00000492345 | ENST00000359003 | CBFA2T2 | chr20 | 32212823 | + | NCOA6 | chr20 | 33370207 | - |
| 5CDS-5UTR | ENST00000492345 | ENST00000374796 | CBFA2T2 | chr20 | 32212823 | + | NCOA6 | chr20 | 33370207 | - |
| 5CDS-intron | ENST00000342704 | ENST00000593786 | CBFA2T2 | chr20 | 32212823 | + | NCOA6 | chr20 | 33370207 | - |
| 5CDS-intron | ENST00000346541 | ENST00000593786 | CBFA2T2 | chr20 | 32212823 | + | NCOA6 | chr20 | 33370207 | - |
| 5CDS-intron | ENST00000359606 | ENST00000593786 | CBFA2T2 | chr20 | 32212823 | + | NCOA6 | chr20 | 33370207 | - |
| 5CDS-intron | ENST00000375279 | ENST00000593786 | CBFA2T2 | chr20 | 32212823 | + | NCOA6 | chr20 | 33370207 | - |
| 5CDS-intron | ENST00000397800 | ENST00000593786 | CBFA2T2 | chr20 | 32212823 | + | NCOA6 | chr20 | 33370207 | - |
| 5CDS-intron | ENST00000492345 | ENST00000593786 | CBFA2T2 | chr20 | 32212823 | + | NCOA6 | chr20 | 33370207 | - |
| intron-5UTR | ENST00000344201 | ENST00000359003 | CBFA2T2 | chr20 | 32212823 | + | NCOA6 | chr20 | 33370207 | - |
| intron-5UTR | ENST00000344201 | ENST00000374796 | CBFA2T2 | chr20 | 32212823 | + | NCOA6 | chr20 | 33370207 | - |
| intron-5UTR | ENST00000397798 | ENST00000359003 | CBFA2T2 | chr20 | 32212823 | + | NCOA6 | chr20 | 33370207 | - |
| intron-5UTR | ENST00000397798 | ENST00000374796 | CBFA2T2 | chr20 | 32212823 | + | NCOA6 | chr20 | 33370207 | - |
| intron-5UTR | ENST00000543126 | ENST00000359003 | CBFA2T2 | chr20 | 32212823 | + | NCOA6 | chr20 | 33370207 | - |
| intron-5UTR | ENST00000543126 | ENST00000374796 | CBFA2T2 | chr20 | 32212823 | + | NCOA6 | chr20 | 33370207 | - |
| intron-intron | ENST00000344201 | ENST00000593786 | CBFA2T2 | chr20 | 32212823 | + | NCOA6 | chr20 | 33370207 | - |
| intron-intron | ENST00000397798 | ENST00000593786 | CBFA2T2 | chr20 | 32212823 | + | NCOA6 | chr20 | 33370207 | - |
| intron-intron | ENST00000543126 | ENST00000593786 | CBFA2T2 | chr20 | 32212823 | + | NCOA6 | chr20 | 33370207 | - |
| 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 CBFA2T2-NCOA6 |
| 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 CBFA2T2-NCOA6 |
| Four levels of functional features of fusion genes Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/:32212823/:33370207) - 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 |
| CBFA2T2 | NCOA6 |
| FUNCTION: Transcriptional corepressor which facilitates transcriptional repression via its association with DNA-binding transcription factors and recruitment of other corepressors and histone-modifying enzymes (PubMed:12559562, PubMed:15203199). Via association with PRDM14 is involved in regulation of embryonic stem cell (ESC) pluripotency (PubMed:27281218). Involved in primordial germ cell (PCG) formation. Stabilizes PRDM14 and OCT4 on chromatin in a homooligomerization-dependent manner (By similarity). Can repress the expression of MMP7 in a ZBTB33-dependent manner (PubMed:23251453). May function as a complex with the chimeric protein RUNX1/AML1-CBFA2T1/MTG8 (AML1-MTG8/ETO fusion protein) which is produced in acute myeloid leukemia with the chromosomal translocation t(8;21). May thus be involved in the repression of AML1-dependent transcription and the induction of G-CSF/CSF3-dependent cell growth. May be a tumor suppressor gene candidate involved in myeloid tumors with the deletion of the 20q11 region. Through heteromerization with CBFA2T3/MTG16 may be involved in regulation of the proliferation and the differentiation of erythroid progenitors by repressing the expression of TAL1 target genes (By similarity). Required for the maintenance of the secretory cell lineage in the small intestine. Can inhibit Notch signaling probably by association with RBPJ and may be involved in GFI1-mediated Paneth cell differentiation (By similarity). {ECO:0000250|UniProtKB:O70374, ECO:0000269|PubMed:23251453, ECO:0000303|PubMed:12559562, ECO:0000303|PubMed:15203199}. | FUNCTION: Nuclear receptor coactivator that directly binds nuclear receptors and stimulates the transcriptional activities in a hormone-dependent fashion. Coactivates expression in an agonist- and AF2-dependent manner. Involved in the coactivation of different nuclear receptors, such as for steroids (GR and ERs), retinoids (RARs and RXRs), thyroid hormone (TRs), vitamin D3 (VDR) and prostanoids (PPARs). Probably functions as a general coactivator, rather than just a nuclear receptor coactivator. May also be involved in the coactivation of the NF-kappa-B pathway. May coactivate expression via a remodeling of chromatin and its interaction with histone acetyltransferase proteins. |
| 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 CBFA2T2-NCOA6 |
| 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 CBFA2T2-NCOA6 |
| 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 CBFA2T2-NCOA6 |
| 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 CBFA2T2-NCOA6 |
| Diseases associated with fusion partners. (DisGeNet 4.0) |
| Partner | Gene | Disease ID | Disease name | # pubmeds | Source |
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