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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:ATG4D-UHRF1 (FusionGDB2 ID:7581) |
Fusion Gene Summary for ATG4D-UHRF1 |
 Fusion gene summary |
| Fusion gene information | Fusion gene name: ATG4D-UHRF1 | Fusion gene ID: 7581 | Hgene | Tgene | Gene symbol | ATG4D | UHRF1 | Gene ID | 84971 | 29128 |
| Gene name | autophagy related 4D cysteine peptidase | ubiquitin like with PHD and ring finger domains 1 | |
| Synonyms | APG4-D|APG4D|AUTL4 | ICBP90|Np95|RNF106|TDRD22|hNP95|hUHRF1|huNp95 | |
| Cytomap | 19p13.2 | 19p13.3 | |
| Type of gene | protein-coding | protein-coding | |
| Description | cysteine protease ATG4DAPG4 autophagy 4 homolog DATG4 autophagy related 4 homolog DAUT-like 4 cysteine endopeptidaseautophagin-4autophagy-related cysteine endopeptidase 4autophagy-related protein 4 homolog Dcysteine protease involved in autophagy | E3 ubiquitin-protein ligase UHRF1RING finger protein 106RING-type E3 ubiquitin transferase UHRF1inverted CCAAT box-binding protein of 90 kDanuclear phosphoprotein 95nuclear protein 95nuclear zinc finger protein Np95transcription factor ICBP90ubiqu | |
| Modification date | 20200313 | 20200322 | |
| UniProtAcc | Q86TL0 | UHRF1BP1L | |
| Ensembl transtripts involved in fusion gene | ENST00000309469, ENST00000540862, | ENST00000592666, | |
| Fusion gene scores | * DoF score | 3 X 3 X 3=27 | 9 X 7 X 6=378 |
| # samples | 4 | 12 | |
| ** MAII score | log2(4/27*10)=0.567040592723894 effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs). DoF>8 and MAII>0 | log2(12/378*10)=-1.65535182861255 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | |
| Context | PubMed: ATG4D [Title/Abstract] AND UHRF1 [Title/Abstract] AND fusion [Title/Abstract] | ||
| Most frequent breakpoint | ATG4D(10655001)-UHRF1(4929233), # samples:1 ATG4D(10655001)-UHRF1(4929234), # 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 |
| Tgene | UHRF1 | GO:0000122 | negative regulation of transcription by RNA polymerase II | 21777816 |
| Tgene | UHRF1 | GO:0006511 | ubiquitin-dependent protein catabolic process | 22945642 |
| Tgene | UHRF1 | GO:0016574 | histone ubiquitination | 17967883 |
| Tgene | UHRF1 | GO:0032270 | positive regulation of cellular protein metabolic process | 10646863 |
| Tgene | UHRF1 | GO:0051865 | protein autoubiquitination | 17967883|21745816 |
| Fusion gene breakpoints across ATG4D (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 UHRF1 (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 | OV | TCGA-13-1407-01A | ATG4D | chr19 | 10655001 | - | UHRF1 | chr19 | 4929234 | + |
| ChimerDB4 | OV | TCGA-13-1407 | ATG4D | chr19 | 10655001 | + | UHRF1 | chr19 | 4929233 | + |
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Fusion Gene ORF analysis for ATG4D-UHRF1 |
| 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-3UTR | ENST00000309469 | ENST00000592666 | ATG4D | chr19 | 10655001 | - | UHRF1 | chr19 | 4929234 | + |
| 5CDS-3UTR | ENST00000309469 | ENST00000592666 | ATG4D | chr19 | 10655001 | + | UHRF1 | chr19 | 4929233 | + |
| intron-3UTR | ENST00000540862 | ENST00000592666 | ATG4D | chr19 | 10655001 | - | UHRF1 | chr19 | 4929234 | + |
| intron-3UTR | ENST00000540862 | ENST00000592666 | ATG4D | chr19 | 10655001 | + | UHRF1 | chr19 | 4929233 | + |
| 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 ATG4D-UHRF1 |
| 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) |
| ATG4D | chr19 | 10655001 | + | UHRF1 | chr19 | 4929233 | + | 3.11E-17 | 1 |
| ATG4D | chr19 | 10655001 | + | UHRF1 | chr19 | 4929233 | + | 3.11E-17 | 1 |
| 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 ATG4D-UHRF1 |
| Four levels of functional features of fusion genes Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/:10655001/:4929233) - 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 |
| ATG4D | UHRF1 |
| FUNCTION: [Cysteine protease ATG4D]: Cysteine protease required for the cytoplasm to vacuole transport (Cvt) and autophagy. Cleaves the C-terminal amino acid of ATG8 family proteins MAP1LC3 and GABARAPL2, to reveal a C-terminal glycine. Exposure of the glycine at the C-terminus is essential for ATG8 proteins conjugation to phosphatidylethanolamine (PE) and insertion to membranes, which is necessary for autophagy. Has also an activity of delipidating enzyme for the PE-conjugated forms.; FUNCTION: [Cysteine protease ATG4D, mitochondrial]: Plays a role as an autophagy regulator that links mitochondrial dysfunction with apoptosis. The mitochondrial import of ATG4D during cellular stress and differentiation may play important roles in the regulation of mitochondrial physiology, ROS, mitophagy and cell viability. | 1464 |
| 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 ATG4D-UHRF1 |
| 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 ATG4D-UHRF1 |
| 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 ATG4D-UHRF1 |
| 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 ATG4D-UHRF1 |
| Diseases associated with fusion partners. (DisGeNet 4.0) |
| Partner | Gene | Disease ID | Disease name | # pubmeds | Source |
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