| Basic Information ▶ | |
| VISDB ID | TVIS20024429 |
|---|---|
| Fusion Name | HPV-ENSG00000308088 integration |
| Validated | No |
| Curated Way | Curated |
| Method | EBV capture sequencing, followed by Viral Integration Pathway Analysis (VIPA) pipeline |
| Wet Assay | No |
| Sample ID | SRR1611014.2 |
| 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 | chr18 |
| Cytogenetic Band | q11.2 |
| Human Strand | + |
| Human Integration Location Type | intronic |
| Hg19 Start | - |
| Hg19 End | - |
| Hg38 Start | 26550780 |
| Hg38 End | 26550780 |
| Junction Sequence | tgcccgccgcacccgccCTGGACACGTGCAGAAAGGCGTGCTCGTTTCTCCGAGGCTGCGGTGAGCAGCTAAGTTAGTTGCTTTACATAGGCCAGCATTAACCTCTAGGCGTACTGGCATTAGGTACAGTAGAattggtaataaacaa |
| Target Gene ▶ | |
| Target Gene | ENSG00000308088, KCTD1 |
| 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 | 5091 |
| Virus Breakpoint2 | - |
| Virus Gene Name | L2 |
| Virus Region Type | - |
| Integrated Virus Sequence | - |
| ViMIC ID | - |
| Predicted VIS Effect ▶ | |
| Transcript | Transcript 1: ENST00000579973.5, Transcript 2: ENST00000417602.5, Transcript 3: ENST00000317932.11, Transcript 4: ENST00000408011.7, Transcript 5: ENST00000580191.5, Transcript 6: ENST00000580638.5, Transcript 7: ENST00000831011.1, Transcript 8: ENST00000831012.1 |
| Transcript 1 Gene Id | ENSG00000134504.15 |
| Transcript 1 Gene Name | KCTD1 |
| Transcript 1 Region | intron |
| Transcript 1 Impact | intronic_insertion |
| Transcript 2 Gene Id | ENSG00000134504.15 |
| Transcript 2 Gene Name | KCTD1 |
| Transcript 2 Region | promoter |
| Transcript 2 Impact | promoter_insertion |
| Transcript 3 Gene Id | ENSG00000134504.15 |
| Transcript 3 Gene Name | KCTD1 |
| Transcript 3 Region | intron |
| Transcript 3 Impact | intronic_insertion |
| Transcript 4 Gene Id | ENSG00000134504.15 |
| Transcript 4 Gene Name | KCTD1 |
| Transcript 4 Region | promoter |
| Transcript 4 Impact | promoter_insertion |
| Transcript 5 Gene Id | ENSG00000134504.15 |
| Transcript 5 Gene Name | KCTD1 |
| Transcript 5 Region | intron |
| Transcript 5 Impact | intronic_insertion |
| Transcript 6 Gene Id | ENSG00000134504.15 |
| Transcript 6 Gene Name | KCTD1 |
| Transcript 6 Region | promoter |
| Transcript 6 Impact | promoter_insertion |
| Transcript 7 Gene Id | ENSG00000308088.1 |
| Transcript 7 Gene Name | ENSG00000308088 |
| Transcript 7 Region | intron |
| Transcript 7 Impact | intronic_insertion |
| Transcript 8 Gene Id | ENSG00000308088.1 |
| Transcript 8 Gene Name | ENSG00000308088 |
| Transcript 8 Region | intron |
| Transcript 8 Impact | intronic_insertion |
| SpliceAI Score | |
| Delta Scores | Acceptor Gain: 0.010 | Acceptor Loss: 0.030 | Donor Gain: 0.110 | Donor Loss: 0.060 |
| Delta Score Max | 0.110 |
| Delta Position at Max | 143 |
| Delta Score Flag | LOW |
| Gene | KCTD1 |
| AlphaGenome Analysis | |
| Window | chr18:26485244-26616316 |
| RNA-seq Change (±2kb) | Mean: -0.0007182095432654023 | Peak: 0.060546875 |
| ATAC Change (±2kb) | Mean: 0.006225855089724064 | Peak: 9.306640625 |
| Interpretation | RNA-seq: no signal in region (REF≈0, ALT≈0) | Splice sites: no signal in region (REF≈0, ALT≈0) | ATAC: minimal change 2.7% |
| 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