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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:METTL16-KDM6B (FusionGDB2 ID:53064) |
Fusion Gene Summary for METTL16-KDM6B |
 Fusion gene summary |
| Fusion gene information | Fusion gene name: METTL16-KDM6B | Fusion gene ID: 53064 | Hgene | Tgene | Gene symbol | METTL16 | KDM6B | Gene ID | 79066 | 23135 |
| Gene name | methyltransferase like 16 | lysine demethylase 6B | |
| Synonyms | METT10D | JMJD3|NEDCFSA | |
| Cytomap | 17p13.3 | 17p13.1 | |
| Type of gene | protein-coding | protein-coding | |
| Description | RNA N6-adenosine-methyltransferase METTL16N6-adenosine-methyltransferase METTL16U6 small nuclear RNA (adenine-(43)-N(6))-methyltransferaseU6 snRNA methyltransferasemethyltransferase 10 domain containingmethyltransferase 10 domain-containing proteinm | lysine-specific demethylase 6BjmjC domain-containing protein 3jumonji domain containing 3, histone lysine demethylasejumonji domain-containing protein 3lysine (K)-specific demethylase 6B | |
| Modification date | 20200320 | 20200313 | |
| UniProtAcc | Q86W50 | O15054 | |
| Ensembl transtripts involved in fusion gene | ENST00000263092, ENST00000538844, ENST00000571669, | ENST00000572030, ENST00000254846, ENST00000448097, | |
| Fusion gene scores | * DoF score | 10 X 12 X 7=840 | 5 X 5 X 4=100 |
| # samples | 12 | 5 | |
| ** MAII score | log2(12/840*10)=-2.8073549220576 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | log2(5/100*10)=-1 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | |
| Context | PubMed: METTL16 [Title/Abstract] AND KDM6B [Title/Abstract] AND fusion [Title/Abstract] | ||
| Most frequent breakpoint | METTL16(2367502)-KDM6B(7749190), # samples:2 | ||
| Anticipated loss of major functional domain due to fusion event. | METTL16-KDM6B seems lost the major protein functional domain in Hgene partner, which is a essential gene due to the frame-shifted ORF. METTL16-KDM6B seems lost the major protein functional domain in Tgene partner, which is a epigenetic factor due to the frame-shifted ORF. METTL16-KDM6B seems lost the major protein functional domain in Tgene partner, which is a essential gene due to the frame-shifted ORF. METTL16-KDM6B seems lost the major protein functional domain in Tgene partner, which is a IUPHAR drug target 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 | METTL16 | GO:0006556 | S-adenosylmethionine biosynthetic process | 28525753|30197297 |
| Hgene | METTL16 | GO:0010608 | posttranscriptional regulation of gene expression | 28525753 |
| Hgene | METTL16 | GO:0048024 | regulation of mRNA splicing, via spliceosome | 28525753 |
| Hgene | METTL16 | GO:0080009 | mRNA methylation | 30197297|30197299 |
| Hgene | METTL16 | GO:0120049 | snRNA (adenine-N6)-methylation | 28525753|29051200 |
| Hgene | METTL16 | GO:1905869 | negative regulation of 3'-UTR-mediated mRNA stabilization | 28525753 |
| Fusion gene breakpoints across METTL16 (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 KDM6B (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-A08G-01A | METTL16 | chr17 | 2367502 | - | KDM6B | chr17 | 7749190 | + |
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Fusion Gene ORF analysis for METTL16-KDM6B |
| 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 |
| 5CDS-intron | ENST00000263092 | ENST00000572030 | METTL16 | chr17 | 2367502 | - | KDM6B | chr17 | 7749190 | + |
| 5CDS-intron | ENST00000538844 | ENST00000572030 | METTL16 | chr17 | 2367502 | - | KDM6B | chr17 | 7749190 | + |
| 5UTR-3CDS | ENST00000571669 | ENST00000254846 | METTL16 | chr17 | 2367502 | - | KDM6B | chr17 | 7749190 | + |
| 5UTR-3CDS | ENST00000571669 | ENST00000448097 | METTL16 | chr17 | 2367502 | - | KDM6B | chr17 | 7749190 | + |
| 5UTR-intron | ENST00000571669 | ENST00000572030 | METTL16 | chr17 | 2367502 | - | KDM6B | chr17 | 7749190 | + |
| Frame-shift | ENST00000263092 | ENST00000254846 | METTL16 | chr17 | 2367502 | - | KDM6B | chr17 | 7749190 | + |
| Frame-shift | ENST00000263092 | ENST00000448097 | METTL16 | chr17 | 2367502 | - | KDM6B | chr17 | 7749190 | + |
| Frame-shift | ENST00000538844 | ENST00000254846 | METTL16 | chr17 | 2367502 | - | KDM6B | chr17 | 7749190 | + |
| Frame-shift | ENST00000538844 | ENST00000448097 | METTL16 | chr17 | 2367502 | - | KDM6B | chr17 | 7749190 | + |
| 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 METTL16-KDM6B |
| 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 METTL16-KDM6B |
| Four levels of functional features of fusion genes Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/:2367502/:7749190) - 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 |
| METTL16 | KDM6B |
| FUNCTION: RNA N6-methyltransferase that methylates adenosine residues at the N(6) position of a subset of RNAs and is involved in S-adenosyl-L-methionine homeostasis by regulating expression of MAT2A transcripts (PubMed:28525753, PubMed:30197299, PubMed:30197297). Able to N6-methylate a subset of mRNAs and U6 small nuclear RNAs (U6 snRNAs) (PubMed:28525753). In contrast to the METTL3-METTL14 heterodimer, only able to methylate a limited number of RNAs: requires both a 5'UACAGAGAA-3' nonamer sequence and a specific RNA structure (PubMed:28525753, PubMed:30197299, PubMed:30197297). Plays a key role in S-adenosyl-L-methionine homeostasis by mediating N6-methylation of MAT2A mRNAs, altering splicing and/or stability of MAT2A transcripts: in presence of S-adenosyl-L-methionine, binds the 3'-UTR region of MAT2A mRNA and specifically N6-methylates the first hairpin of MAT2A mRNA, impairing MAT2A expression (PubMed:28525753). In S-adenosyl-L-methionine-limiting conditions, binds the 3'-UTR region of MAT2A mRNA but stalls due to the lack of a methyl donor, preventing N6-methylation and promoting expression of MAT2A (PubMed:28525753). In addition to mRNAs, also able to mediate N6-methylation of U6 small nuclear RNA (U6 snRNA): specifically N6-methylates adenine in position 43 of U6 snRNAs (PubMed:28525753, PubMed:29051200, PubMed:32266935). Also able to bind various lncRNAs, such as 7SK snRNA (7SK RNA) or 7SL RNA (PubMed:29051200). Specifically binds the 3'-end of the MALAT1 long non-coding RNA (PubMed:27872311). {ECO:0000269|PubMed:27872311, ECO:0000269|PubMed:28525753, ECO:0000269|PubMed:29051200, ECO:0000269|PubMed:30197297, ECO:0000269|PubMed:30197299, ECO:0000269|PubMed:32266935}. | FUNCTION: Histone demethylase that specifically demethylates 'Lys-27' of histone H3, thereby playing a central role in histone code (PubMed:17825402, PubMed:17851529, PubMed:17713478, PubMed:18003914). Demethylates trimethylated and dimethylated H3 'Lys-27' (PubMed:17825402, PubMed:17851529, PubMed:17713478, PubMed:18003914). Plays a central role in regulation of posterior development, by regulating HOX gene expression (PubMed:17851529). Involved in inflammatory response by participating in macrophage differentiation in case of inflammation by regulating gene expression and macrophage differentiation (PubMed:17825402). Plays a demethylase-independent role in chromatin remodeling to regulate T-box family member-dependent gene expression by acting as a link between T-box factors and the SMARCA4-containing SWI/SNF remodeling complex (By similarity). {ECO:0000250|UniProtKB:Q5NCY0, ECO:0000269|PubMed:17713478, ECO:0000269|PubMed:17825402, ECO:0000269|PubMed:17851529, ECO:0000269|PubMed:18003914, ECO:0000269|PubMed:28262558}. |
| 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 METTL16-KDM6B |
| 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 METTL16-KDM6B |
| 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 METTL16-KDM6B |
| 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 METTL16-KDM6B |
| Diseases associated with fusion partners. (DisGeNet 4.0) |
| Partner | Gene | Disease ID | Disease name | # pubmeds | Source |
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