| Basic Information ▶ | |
| VISDB ID | TVIS20058707 |
|---|---|
| Fusion Name | HPV-SEL1L3 integration |
| Validated | No |
| Curated Way | Curated |
| Method | High-throughput Viral Integration Detection method |
| Wet Assay | Yes |
| Sample ID | - |
| Sample Name | S108 |
| 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 | chr4 |
| Cytogenetic Band | p15.2 |
| Human Strand | + |
| Human Integration Location Type | intronic |
| Hg19 Start | 25832313 |
| Hg19 End | 25832313 |
| Hg38 Start | 25830691 |
| Hg38 End | 25830691 |
| Junction Sequence | AGACTGTGCATCATCTCATCCACAAGACAAACAAAATGCCTCTTCCAGTTTTGTTACAGGAAAAATCACAGATCAATAAGAAAAGCTACACCCACCACCTCATCTACCTCTACAACTGCTAAACGCAAAAAACGTAAGCT |
| Target Gene ▶ | |
| Target Gene | SEL1L3 |
| 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 | 7090 |
| Virus Breakpoint2 | - |
| Virus Gene Name | HpV16gp8_L1 |
| Virus Region Type | - |
| Integrated Virus Sequence | - |
| ViMIC ID | - |
| Predicted VIS Effect ▶ | |
| Gene Id | ENSG00000091490.12 |
| Gene Name | SEL1L3 |
| Region | intron |
| Impact | intronic_insertion |
| Transcript | Transcript 1: ENST00000889110.1, Transcript 2: ENST00000929305.1, Transcript 3: ENST00000929304.1, Transcript 4: ENST00000929303.1, Transcript 5: ENST00000399878.8, Transcript 6: ENST00000929301.1, Transcript 7: ENST00000264868.9, Transcript 8: ENST00000960871.1, Transcript 9: ENST00000960872.1, Transcript 10: ENST00000960870.1, Transcript 11: ENST00000929302.1, Transcript 12: ENST00000502949.5, Transcript 13: ENST00000889112.1, Transcript 14: ENST00000889111.1 |
| SpliceAI Score | |
| Delta Scores | Acceptor Gain: 0.020 | Acceptor Loss: 0.030 | Donor Gain: 0.000 | Donor Loss: 0.050 |
| Delta Score Max | 0.050 |
| Delta Position at Max | -593 |
| Delta Score Flag | LOW |
| Gene | SEL1L3 |
| AlphaGenome Analysis | |
| Window | chr4:25765155-25896227 |
| RNA-seq Change (±2kb) | Mean: -0.0008393641328439116 | Peak: 0.46875 |
| ATAC Change (±2kb) | Mean: -8.478273957734928e-05 | Peak: 1.94482421875 |
| Interpretation | RNA-seq: minimal change -2.7% | Splice sites: no signal in region (REF≈0, ALT≈0) | ATAC: minimal change -0.4% |
| 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