Virus Integration Site Database Data Release 2.0

Details for VISDB ID: TVIS20046088

Genomic Region Visualization (IGV)

Basic Information ▶
VISDB IDTVIS20046088
Fusion NameHPV-ADAM19 integration
ValidatedNo
Curated WayCurated
MethodHigh-throughput Viral Integration Detection method
Wet AssayYes
Sample ID-
Sample NameS110
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 Chromosomechr5
Cytogenetic Bandq33.3
Human Strand+
Human Integration Location Typeintronic
Hg19 Start156934369
Hg19 End156934369
Hg38 Start157507361
Hg38 End157507361
Junction SequenceCACTACGTACTCGTAGTGGAAAATCTATAGGTGCTAAGGTACATTATTATTATGATTTCAGTACTATTGATCCTGCAGAAGAAATAGAATTACAAACTATAACACCTTTTACATATACTACCACTTCACCTCTGCTTCCCAAATAGCTGGGACTACAAGTGTGTGCCAC
Target Gene ▶
Target GeneADAM19
Nearby Gene-
Distance-
Virus Information ▶
Virus NameHuman Papillomavirus
Virus Subtype NameHPV16
Virus Genome AccessionAF534061
TaxonomyID10566
Virus AbbreviationHPV
Virus GenomeHuman papillomavirus type 16 East Asian type, complete genome
Virus Genome Length7905 bp
Virus Breakpoint15294
Virus Breakpoint2-
Virus Gene NameHpV16gp7_L2
Virus Region Type-
Integrated Virus Sequence-
ViMIC ID-
Predicted VIS Effect ▶
Gene IdENSG00000135074.17
Gene NameADAM19
Regionintron
Impactintronic_insertion
TranscriptTranscript 1: ENST00000517951.5, Transcript 2: ENST00000257527.9, Transcript 3: ENST00000929678.1, Transcript 4: ENST00000929677.1, Transcript 5: ENST00000957644.1, Transcript 6: ENST00000517905.1
SpliceAI Score
Delta ScoresAcceptor Gain: 0.030 | Acceptor Loss: 0.010 | Donor Gain: 0.010 | Donor Loss: 0.020
Delta Score Max0.030
Delta Position at Max-221
Delta Score FlagLOW
GeneADAM19
Altered Protein (FASTA)
AlphaGenome Analysis
Windowchr5:157441825-157572897
RNA-seq Change (±2kb)Mean: -0.010891295969486237 | Peak: 3.336090087890625
ATAC Change (±2kb)Mean: -0.004010395146906376 | Peak: 7.98974609375
InterpretationRNA-seq: DECREASED 16.6% (REF=0.07, ALT=0.06) | Splice sites: no signal in region (REF≈0, ALT≈0) | ATAC: minimal change -9.1%
Visualization
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Email: Zhongming Zhao, Ph.D

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