Virus Integration Site Database Data Release 2.0

Details for VISDB ID: TVIS20056523

Genomic Region Visualization (IGV)

Basic Information ▶
VISDB IDTVIS20056523
Fusion NameHPV-ACAD9 integration
ValidatedNo
Curated WayCurated
MethodHigh-throughput Viral Integration Detection method
Wet AssayYes
Sample ID-
Sample NameS029
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 Chromosomechr3
Cytogenetic Bandq21.3
Human Strand+
Human Integration Location Typeintronic
Hg19 Start128626690
Hg19 End128626690
Hg38 Start128907847
Hg38 End128907847
Junction SequenceCTAGAGAAAAGTGACACAAAGACTGTGCCCCTAGAACATAGGCTCTCCTTAGGGTACCACAAGGGTACAACGCATTATACAAACTGGAAACATATATATATTTGTGAAGAAGCATCAGTAACTGTGGTAGAGGGTCAAGTT
Target Gene ▶
Target GeneACAD9
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 Breakpoint13135
Virus Breakpoint2-
Virus Gene NameHpV16gp4_E2
Virus Region Type-
Integrated Virus Sequence-
ViMIC ID-
Predicted VIS Effect ▶
Gene IdENSG00000177646.21
Gene NameACAD9
TranscriptTranscript 1: ENST00000679613.1, Transcript 2: ENST00000681367.1, Transcript 3: ENST00000897729.1, Transcript 4: ENST00000681583.1, Transcript 5: ENST00000681784.1, Transcript 6: ENST00000681319.1, Transcript 7: ENST00000681585.1, Transcript 8: ENST00000511325.2, Transcript 9: ENST00000680636.1, Transcript 10: ENST00000897732.1, Transcript 11: ENST00000897730.1, Transcript 12: ENST00000308982.12, Transcript 13: ENST00000505192.5, Transcript 14: ENST00000511227.5, Transcript 15: ENST00000681552.1, Transcript 16: ENST00000897733.1, Transcript 17: ENST00000679399.1, Transcript 18: ENST00000926996.1, Transcript 19: ENST00000897734.1, Transcript 20: ENST00000679990.1, Transcript 21: ENST00000959716.1, Transcript 22: ENST00000959715.1, Transcript 23: ENST00000681886.1, Transcript 24: ENST00000679431.1, Transcript 25: ENST00000680764.1, Transcript 26: ENST00000505867.5, Transcript 27: ENST00000680744.1, Transcript 28: ENST00000679824.1, Transcript 29: ENST00000897731.1, Transcript 30: ENST00000926997.1, Transcript 31: ENST00000679715.1, Transcript 32: ENST00000511526.5, Transcript 33: ENST00000508971.1, Transcript 34: ENST00000680638.1
Transcript 1 Regionintron
Transcript 1 Impactintronic_insertion
Transcript 2 Regionintron
Transcript 2 Impactintronic_insertion
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Transcript 31 Impactintronic_insertion
Transcript 32 Regionintron
Transcript 32 Impactintronic_insertion
Transcript 33 Regionintron
Transcript 33 Impactintronic_insertion
Transcript 34 Regionpromoter
Transcript 34 Impactpromoter_insertion
SpliceAI Score
Delta ScoresAcceptor Gain: 0.030 | Acceptor Loss: 0.020 | Donor Gain: 0.000 | Donor Loss: 0.120
Delta Score Max0.120
Delta Position at Max94
Delta Score FlagLOW
GeneACAD9
AlphaGenome Analysis
Windowchr3:128842311-128973383
RNA-seq Change (±2kb)Mean: 0.0037422331515699625 | Peak: 7.8330078125
ATAC Change (±2kb)Mean: -0.000841860834043473 | Peak: 3.5859375
InterpretationRNA-seq: minimal change 2.7% | Splice sites: no signal in region (REF≈0, ALT≈0) | ATAC: minimal change -1.8%
Visualization
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