| Basic Information ▶ | |
| VISDB ID | TVIS20057884 |
|---|---|
| Fusion Name | HPV-ATP13A3 integration |
| Validated | No |
| Curated Way | Curated |
| Method | High-throughput Viral Integration Detection method |
| Wet Assay | Yes |
| Sample ID | - |
| Sample Name | S110 |
| Sample Type | Tumor |
| Age | 57 = 59; >57 = 50 |
| Gender | - |
| Disease Information ▶ | |
| Disease Name | Oropharyngeal squamous cell carcinoma |
| Disease Abbreviation | OPSCC |
| Cancer | Yes |
| Literature ▶ | |
| PubMed ID | 38279874 |
| Journal | Clinical and Translational Medicine |
| Published Year | 2024 |
| Human Genome ▶ | |
| Human Genome Version Description | GRCh37/hg19 |
| Human Genome RefSeq Accession | GCF_000001405.13 |
| Human Chromosome | chr3 |
| Cytogenetic Band | q29 |
| Human Strand | + |
| Human Integration Location Type | intronic |
| Hg19 Start | 194148674 |
| Hg19 End | 194148674 |
| Hg38 Start | 194427945 |
| Hg38 End | 194427945 |
| Junction Sequence | CTTCCTGCTGCCTTCACGACTGCAGAAACTGGCATGCTTTGCTCCCGGCCTACTCGGCTGCCTCATTCCCTGCAAGCAGGCCTCATCCCCCACTTTTACTGACCCATCTGTATTGCAGCCTCCAACACCTGCAGAAACT |
| Target Gene ▶ | |
| Target Gene | ATP13A3 |
| Nearby Gene | - |
| Distance | - |
| Virus Information ▶ | |
| Virus Name | Human Papillomavirus |
| Virus Subtype Name | HPV16 |
| Virus Genome Accession | AF534061 |
| TaxonomyID | 10566 |
| Virus Abbreviation | HPV |
| Virus Genome | Human papillomavirus type 16 East Asian type, complete genome |
| Virus Genome Length | 7905 bp |
| Virus Breakpoint1 | 4715 |
| Virus Breakpoint2 | - |
| Virus Gene Name | HpV16gp7_L2 |
| Virus Region Type | - |
| Integrated Virus Sequence | - |
| ViMIC ID | - |
| Predicted VIS Effect ▶ | |
| Gene Id | ENSG00000133657.18 |
| Gene Name | ATP13A3 |
| Region | intron |
| Impact | intronic_insertion |
| Transcript | Transcript 1: ENST00000920214.1, Transcript 2: ENST00000856972.1, Transcript 3: ENST00000687055.1, Transcript 4: ENST00000645538.1, Transcript 5: ENST00000920215.1, Transcript 6: ENST00000920213.1, Transcript 7: ENST00000920212.1, Transcript 8: ENST00000690810.1, Transcript 9: ENST00000856975.1, Transcript 10: ENST00000920217.1, Transcript 11: ENST00000645319.2, Transcript 12: ENST00000920216.1, Transcript 13: ENST00000963861.1, Transcript 14: ENST00000856973.1, Transcript 15: ENST00000963862.1, Transcript 16: ENST00000963859.1, Transcript 17: ENST00000920218.1, Transcript 18: ENST00000963863.1, Transcript 19: ENST00000963858.1, Transcript 20: ENST00000429136.7, Transcript 21: ENST00000645621.1, Transcript 22: ENST00000685123.1, Transcript 23: ENST00000642744.2, Transcript 24: ENST00000963864.1, Transcript 25: ENST00000856974.1, Transcript 26: ENST00000856976.1, Transcript 27: ENST00000963860.1, Transcript 28: ENST00000439040.6 |
| SpliceAI Score | |
| Delta Scores | Acceptor Gain: 0.000 | Acceptor Loss: 0.020 | Donor Gain: 0.010 | Donor Loss: 0.040 |
| Delta Score Max | 0.040 |
| Delta Position at Max | -2603 |
| Delta Score Flag | LOW |
| Gene | ATP13A3 |
| AlphaGenome Analysis | |
| Window | chr3:194362409-194493481 |
| RNA-seq Change (±2kb) | Mean: 0.00033485848689451814 | Peak: 5.2623291015625 |
| ATAC Change (±2kb) | Mean: 0.0009512976976111531 | Peak: 0.9257763624191284 |
| Interpretation | RNA-seq: minimal change 0.4% | Splice sites: no signal in region (REF≈0, ALT≈0) | ATAC: minimal change 5.6% |
| Visualization | |
Center for Precision Health
McWilliams School of Biomedical Informatics at UTHealth Houston
7000 Fannin Street, Suite 600, Houston, TX 77030
Email: Zhongming Zhao, Ph.D