Virus Integration Site Database Data Release 2.0

Details for VISDB ID: TVIS20049040

Genomic Region Visualization (IGV)

Basic Information ▶
VISDB IDTVIS20049040
Fusion NameHPV-WAPL integration
ValidatedNo
Curated WayCurated
MethodHigh-throughput Viral Integration Detection method
Wet AssayYes
Sample ID-
Sample NameS106
Sample TypeTumor
Age57 = 59; >57 = 50
Gender-
Disease Information ▶
Disease NameOropharyngeal squamous cell carcinoma
Disease AbbreviationOPSCC
CancerYes
Literature ▶
PubMed ID38279874
JournalClinical and Translational Medicine
Published Year2024
Human Genome ▶
Human Genome Version DescriptionGRCh37/hg19
Human Genome RefSeq AccessionGCF_000001405.13
Human Chromosomechr10
Cytogenetic Bandq23.2
Human Strand+
Human Integration Location Typeintronic
Hg19 Start88204963
Hg19 End88204963
Hg38 Start86445206
Hg38 End86445206
Junction SequenceTCATGGTCCTTACCCTAAAGGGGTGTTGGGGGAAGTCGGAAGATGAAATGAACAATTGTAGCACACGGTGGTTGCAGTCAGTACAGTAGTGGAAGTGGGGGAGAGGGTGTTAGTGAAAGACACACTACATGCCAAACACCAA
Target Gene ▶
Target GeneWAPL
Nearby Gene-
Distance-
Virus Information ▶
Virus NameHuman Papillomavirus
Virus Subtype NameHPV16
Virus Genome AccessionAF125673
TaxonomyID10566
Virus AbbreviationHPV
Virus GenomeHuman papillomavirus type 16 isolate 16W12E, complete genome
Virus Genome Length7904 bp
Virus Breakpoint11359
Virus Breakpoint2-
Virus Gene NameHpV16gp3_E1
Virus Region Type-
Integrated Virus Sequence-
ViMIC ID-
Predicted VIS Effect ▶
Gene IdENSG00000062650.21
Gene NameWAPL
TranscriptTranscript 1: ENST00000484070.1, Transcript 2: ENST00000298767.10, Transcript 3: ENST00000910170.1, Transcript 4: ENST00000960551.1, Transcript 5: ENST00000910175.1, Transcript 6: ENST00000910172.1, Transcript 7: ENST00000910169.1, Transcript 8: ENST00000920312.1, Transcript 9: ENST00000910174.1, Transcript 10: ENST00000910173.1, Transcript 11: ENST00000910171.1, Transcript 12: ENST00000960550.1, Transcript 13: ENST00000372075.2, Transcript 14: ENST00000920314.1, Transcript 15: ENST00000920315.1, Transcript 16: ENST00000920313.1, Transcript 17: ENST00000960552.1, Transcript 18: ENST00000910179.1, Transcript 19: ENST00000910178.1, Transcript 20: ENST00000910177.1, Transcript 21: ENST00000910176.1
Transcript 1 Regionpromoter
Transcript 1 Impactpromoter_insertion
Transcript 2 Regionintron
Transcript 2 Impactintronic_insertion
Transcript 3 Regionintron
Transcript 3 Impactintronic_insertion
Transcript 4 Regionintron
Transcript 4 Impactintronic_insertion
Transcript 5 Regionintron
Transcript 5 Impactintronic_insertion
Transcript 6 Regionintron
Transcript 6 Impactintronic_insertion
Transcript 7 Regionintron
Transcript 7 Impactintronic_insertion
Transcript 8 Regionintron
Transcript 8 Impactintronic_insertion
Transcript 9 Regionintron
Transcript 9 Impactintronic_insertion
Transcript 10 Regionintron
Transcript 10 Impactintronic_insertion
Transcript 11 Regionintron
Transcript 11 Impactintronic_insertion
Transcript 12 Regionintron
Transcript 12 Impactintronic_insertion
Transcript 13 Regionintron
Transcript 13 Impactintronic_insertion
Transcript 14 Regionintron
Transcript 14 Impactintronic_insertion
Transcript 15 Regionintron
Transcript 15 Impactintronic_insertion
Transcript 16 Regionintron
Transcript 16 Impactintronic_insertion
Transcript 17 Regionintron
Transcript 17 Impactintronic_insertion
Transcript 18 Regionintron
Transcript 18 Impactintronic_insertion
Transcript 19 Regionintron
Transcript 19 Impactintronic_insertion
Transcript 20 Regionintron
Transcript 20 Impactintronic_insertion
Transcript 21 Regionintron
Transcript 21 Impactintronic_insertion
SpliceAI Score
Delta ScoresAcceptor Gain: 0.100 | Acceptor Loss: 0.060 | Donor Gain: 0.130 | Donor Loss: 0.010
Delta Score Max0.130
Delta Position at Max0
Delta Score FlagLOW
GeneWAPL
AlphaGenome Analysis
Windowchr10:86379670-86510742
RNA-seq Change (±2kb)Mean: 0.0025435257703065872 | Peak: 5.72802734375
ATAC Change (±2kb)Mean: 0.016845541074872017 | Peak: 24.3580322265625
InterpretationRNA-seq: minimal change 2.4% | Splice sites: no signal in region (REF≈0, ALT≈0) | ATAC: INCREASED 48.0% (REF=0.04, ALT=0.05)
Visualization
Related Links: VISDB1.0  |  UCSC  |  NCBI  |  Ensembl  |  OncoKB  |  ONGene  |  HumCFS  |  COSMIC  |  miRTarBase  |  NPInter  |  ATACdb  |  ENCODE  |  Cytoscape
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