Virus Integration Site Database Data Release 2.0

Details for VISDB ID: TVIS20037593

Genomic Region Visualization (IGV)

Basic Information ▶
VISDB IDTVIS20037593
Fusion NameHPV-RRP7A integration
ValidatedNo
Curated WayCurated
MethodHigh-throughput Viral Integration Detection method
Wet AssayYes
Sample ID-
Sample NameS096
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 Chromosomechr22
Cytogenetic Bandq13.2
Human Strand+
Human Integration Location Typeexonic
Hg19 Start42908814
Hg19 End42908814
Hg38 Start42512808
Hg38 End42512808
Junction SequenceGCATGTGCTGTCTCTGTTTCTGCCTGTGTTAAATAATCATTATCATTTACTATAAAATCTACCAAATCTTGGCCCAACCCTACTCAGCCACAGGCCTCCTCTGCTGACTCTGCCCAGCAGACCATGTTACTGAGAGGCAGA
Target Gene ▶
Target GeneRRP7A
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 Breakpoint11000
Virus Breakpoint2-
Virus Gene NameHpV16gp3_E1
Virus Region Type-
Integrated Virus Sequence-
ViMIC ID-
Predicted VIS Effect ▶
Gene IdENSG00000189306.13
Gene NameRRP7A
TranscriptTranscript 1: ENST00000718430.1, Transcript 2: ENST00000323013.7, Transcript 3: ENST00000915993.1, Transcript 4: ENST00000915992.1, Transcript 5: ENST00000915991.1, Transcript 6: ENST00000915990.1, Transcript 7: ENST00000871842.1, Transcript 8: ENST00000915994.1, Transcript 9: ENST00000950948.1, Transcript 10: ENST00000871844.1, Transcript 11: ENST00000915995.1, Transcript 12: ENST00000871843.1
Transcript 1 Regionintron
Transcript 1 Impactintronic_insertion
Transcript 2 Region3UTR
Transcript 2 Impactnoncoding_exon_insertion
Transcript 3 Region3UTR
Transcript 3 Impactnoncoding_exon_insertion
Transcript 4 Region3UTR
Transcript 4 Impactnoncoding_exon_insertion
Transcript 5 Region3UTR
Transcript 5 Impactnoncoding_exon_insertion
Transcript 6 Region3UTR
Transcript 6 Impactnoncoding_exon_insertion
Transcript 7 Region3UTR
Transcript 7 Impactnoncoding_exon_insertion
Transcript 8 Region3UTR
Transcript 8 Impactnoncoding_exon_insertion
Transcript 9 Region3UTR
Transcript 9 Impactnoncoding_exon_insertion
Transcript 10 Region3UTR
Transcript 10 Impactnoncoding_exon_insertion
Transcript 11 Region3UTR
Transcript 11 Impactnoncoding_exon_insertion
Transcript 12 Region3UTR
Transcript 12 Impactnoncoding_exon_insertion
SpliceAI Score
Delta ScoresAcceptor Gain: 0.040 | Acceptor Loss: 0.020 | Donor Gain: 0.000 | Donor Loss: 0.010
Delta Score Max0.040
Delta Position at Max-1916
Delta Score FlagLOW
GeneRRP7A
AlphaGenome Analysis
Windowchr22:42447272-42578344
RNA-seq Change (±2kb)Mean: -0.05178835988044739 | Peak: 11.318603515625
ATAC Change (±2kb)Mean: 0.0008706522639840841 | Peak: 5.2838134765625
InterpretationRNA-seq: DECREASED 12.3% (REF=0.42, ALT=0.37) | Splice sites: no signal in region (REF≈0, ALT≈0) | ATAC: minimal change 1.3%
Visualization
Related Links: VISDB1.0  |  UCSC  |  NCBI  |  Ensembl  |  OncoKB  |  ONGene  |  HumCFS  |  COSMIC  |  miRTarBase  |  NPInter  |  ATACdb  |  ENCODE  |  Cytoscape
UTHealth Logo

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

Copyright © 2025   Bioinformatics and Systems Medicine Lab.   All Rights Reserved.
Site Policies  |   Emergency Information  |   Campus Carry  |   CPH