| Basic Information ▶ | |
| VISDB ID | TVIS20024522 |
|---|---|
| Fusion Name | HPV-PML integration |
| Validated | No |
| Curated Way | Curated |
| Method | EBV capture sequencing, followed by Viral Integration Pathway Analysis (VIPA) pipeline |
| Wet Assay | No |
| Sample ID | SRR1611037.17 |
| Sample Name | SRA189003 |
| Sample Type | Tumor |
| Age | - |
| Gender | - |
| Disease Information ▶ | |
| Disease Name | Cervical cancer |
| Disease Abbreviation | CC |
| Cancer | Yes |
| Literature ▶ | |
| PubMed ID | 35968887 |
| Journal | Clinical and Translational Medicine |
| Published Year | 2022 |
| Human Genome ▶ | |
| Human Genome Version Description | GRCh38/hg38 |
| Human Genome RefSeq Accession | GCF_000001405.40 |
| Human Chromosome | chr15 |
| Cytogenetic Band | q24.1 |
| Human Strand | + |
| Human Integration Location Type | intronic |
| Hg19 Start | - |
| Hg19 End | - |
| Hg38 Start | 74016290 |
| Hg38 End | 74016290 |
| Junction Sequence | gagattgccccactTTACTCCAGCCTGGTAACAGAGCGAGACTCCATCTCAAAATAAATAAATAATCCACTTAGTGATATTAGTGGATGTGTAGACAATAATATTAGTCCTAgattaaaa |
| Target Gene ▶ | |
| Target Gene | PML |
| Nearby Gene | - |
| Distance | - |
| Virus Information ▶ | |
| Virus Name | Human Papillomavirus |
| Virus Subtype Name | HPV16 |
| Virus Genome Accession | K02718 |
| TaxonomyID | 10566 |
| Virus Abbreviation | HPV |
| Virus Genome | Human papillomavirus type 16 (HPV16), complete genome |
| Virus Genome Length | 7,904 bp |
| Virus Breakpoint1 | 1142 |
| Virus Breakpoint2 | - |
| Virus Gene Name | E1 |
| Virus Region Type | - |
| Integrated Virus Sequence | - |
| ViMIC ID | - |
| Predicted VIS Effect ▶ | |
| Gene Id | ENSG00000140464.21 |
| Gene Name | PML |
| Region | intron |
| Impact | intronic_insertion |
| Transcript | Transcript 1: ENST00000395135.7, Transcript 2: ENST00000268058.8, Transcript 3: ENST00000395132.6, Transcript 4: ENST00000268059.10, Transcript 5: ENST00000354026.10, Transcript 6: ENST00000565898.5, Transcript 7: ENST00000569477.5, Transcript 8: ENST00000569965.5, Transcript 9: ENST00000567543.5, Transcript 10: ENST00000436891.7, Transcript 11: ENST00000435786.6, Transcript 12: ENST00000564428.5, Transcript 13: ENST00000359928.8, Transcript 14: ENST00000868523.1, Transcript 15: ENST00000563500.5, Transcript 16: ENST00000564725.1 |
| SpliceAI Score | |
| Delta Scores | Acceptor Gain: 0.000 | Acceptor Loss: 0.000 | Donor Gain: 0.000 | Donor Loss: 0.000 |
| Delta Score Max | 0.000 |
| Delta Position at Max | -581 |
| Delta Score Flag | LOW |
| Gene | PML |
| AlphaGenome Analysis | |
| Window | chr15:73950754-74081826 |
| RNA-seq Change (±2kb) | Mean: 5.6595501519041136e-05 | Peak: 0.1259765625 |
| ATAC Change (±2kb) | Mean: 0.00016875505389180034 | Peak: 1.0 |
| Interpretation | RNA-seq: no signal in region (REF≈0, ALT≈0) | Splice sites: no signal in region (REF≈0, ALT≈0) | ATAC: minimal change 0.8% |
| 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