| Basic Information ▶ | |
| VISDB ID | TVIS10052385 |
|---|---|
| Fusion Name | HBV-RALGAPA2 integration |
| Validated | No |
| Curated Way | Curated |
| Method | EBV capture sequencing, followed by Viral Integration Pathway Analysis (VIPA) pipeline |
| Wet Assay | No |
| Sample ID | SRR3105122.14 |
| Sample Name | SRA335342 |
| Sample Type | Tumor |
| Age | - |
| Gender | - |
| Disease Information ▶ | |
| Disease Name | Hepatocellular carcinoma |
| Disease Abbreviation | HCC |
| 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 | chr20 |
| Cytogenetic Band | p11.23 |
| Human Strand | + |
| Human Integration Location Type | intronic |
| Hg19 Start | - |
| Hg19 End | - |
| Hg38 Start | 20460757 |
| Hg38 End | 20460757 |
| Junction Sequence | GTGGGCGTTCACGGTGGTCTCCATGCGACGTGCAGAGGTGAAGCGAAGTGCACACATATGGGCATACCAGCTCTGACAGCACACAGCAGCTCTGGAACTCc |
| Target Gene ▶ | |
| Target Gene | RALGAPA2 |
| Nearby Gene | - |
| Distance | - |
| Virus Information ▶ | |
| Virus Name | Hepatitis B virus |
| Virus Subtype Name | - |
| Virus Genome Accession | AB014381 |
| TaxonomyID | 10407 |
| Virus Abbreviation | HBV |
| Virus Genome | Hepatitis B virus 22Y04HCC genomic DNA, complete sequence |
| Virus Genome Length | 3215 bp |
| Virus Breakpoint1 | 1577 |
| Virus Breakpoint2 | - |
| Virus Gene Name | X,P |
| Virus Region Type | - |
| Integrated Virus Sequence | - |
| ViMIC ID | - |
| Predicted VIS Effect ▶ | |
| Gene Id | ENSG00000188559.17 |
| Gene Name | RALGAPA2 |
| Region | intron |
| Impact | intronic_insertion |
| Transcript | Transcript 1: ENST00000202677.12, Transcript 2: ENST00000430436.5, Transcript 3: ENST00000934890.1, Transcript 4: ENST00000909985.1 |
| SpliceAI Score | |
| Delta Scores | Acceptor Gain: 0.010 | Acceptor Loss: 0.020 | Donor Gain: 0.030 | Donor Loss: 0.010 |
| Delta Score Max | 0.030 |
| Delta Position at Max | -27 |
| Delta Score Flag | LOW |
| Gene | RALGAPA2 |
| AlphaGenome Analysis | |
| Window | chr20:20395221-20526293 |
| RNA-seq Change (±2kb) | Mean: 2.1829362594871782e-05 | Peak: 0.10546875 |
| ATAC Change (±2kb) | Mean: -0.0018768011359497905 | Peak: 5.64453125 |
| Interpretation | RNA-seq: no signal in region (REF≈0, ALT≈0) | Splice sites: no signal in region (REF≈0, ALT≈0) | ATAC: minimal change -4.6% |
| 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