Virus Integration Site Database Data Release 2.0

Details for VISDB ID: TVIS20039069

Genomic Region Visualization (IGV)

Basic Information ▶
VISDB IDTVIS20039069
Fusion NameHPV-PPP1R21 integration
ValidatedNo
Curated WayCurated
MethodHigh-throughput Viral Integration Detection method
Wet AssayYes
Sample ID-
Sample NameS100
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 Chromosomechr2
Cytogenetic Bandp16.3
Human Strand+
Human Integration Location Typeintronic
Hg19 Start48690755
Hg19 End48690755
Hg38 Start48463616
Hg38 End48463616
Junction SequenceGTTACTACTGTTACTACACATAATAATCCCACTTTTACTGACCCATCTGTATTGCAGCCTCCAACACCTGCACTTAATACAATTGCAATTATCAAAACCTATTGCAATTAAGTGATGATGCATGTCTATCTTCTTTAATT
Target Gene ▶
Target GenePPP1R21
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 Breakpoint14759
Virus Breakpoint2-
Virus Gene NameHpV16gp7_L2
Virus Region Type-
Integrated Virus Sequence-
ViMIC ID-
Predicted VIS Effect ▶
Gene IdENSG00000162869.17
Gene NamePPP1R21
TranscriptTranscript 1: ENST00000431614.5, Transcript 2: ENST00000294952.13, Transcript 3: ENST00000416913.5, Transcript 4: ENST00000281394.8, Transcript 5: ENST00000449090.6, Transcript 6: ENST00000892709.1, Transcript 7: ENST00000892711.1, Transcript 8: ENST00000892710.1, Transcript 9: ENST00000892712.1, Transcript 10: ENST00000892713.1, Transcript 11: ENST00000942808.1, Transcript 12: ENST00000942810.1, Transcript 13: ENST00000942809.1, Transcript 14: ENST00000942811.1, Transcript 15: ENST00000942812.1, Transcript 16: ENST00000942813.1, Transcript 17: ENST00000460299.1
Transcript 1 Regionintron
Transcript 1 Impactintronic_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 Regionpromoter
Transcript 17 Impactpromoter_insertion
SpliceAI Score
Delta ScoresAcceptor Gain: 0.060 | Acceptor Loss: 0.040 | Donor Gain: 0.010 | Donor Loss: 0.060
Delta Score Max0.060
Delta Position at Max5
Delta Score FlagLOW
GenePPP1R21
AlphaGenome Analysis
Windowchr2:48398080-48529152
RNA-seq Change (±2kb)Mean: -0.017172999680042267 | Peak: 2.6089839935302734
ATAC Change (±2kb)Mean: -0.0003029833023902029 | Peak: 1.35687255859375
InterpretationRNA-seq: DECREASED 41.7% (REF=0.04, ALT=0.02) | Splice sites: no signal in region (REF≈0, ALT≈0) | ATAC: minimal change -1.1%
Visualization
Related Links: VISDB1.0  |  UCSC  |  NCBI  |  Ensembl  |  OncoKB  |  ONGene  |  HumCFS  |  COSMIC  |  miRTarBase  |  NPInter  |  ATACdb  |  ENCODE  |  Cytoscape
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