Virus Integration Site Database Data Release 2.0

Details for VISDB ID: TVIS20004412

Genomic Region Visualization (IGV)

Basic Information
VISDB IDTVIS20004412
Fusion NameHPV-chr13:q21.31 integration
ValidatedYes
Curated WayVISDB1.0
MethodDetection of integrated papilloma sequences & PCR (DIPS-PCR)
Wet AssayYes
Sample ID15
Sample Name15
Sample TypeTumor
Age-
Gender-
Disease Information
Disease NameOropharyngeal squamous cell carcinoma
Disease AbbreviationOPSCC
CancerYes
Literature
PubMed ID24586376
Journal PLoS One
Published Year2014
Human Genome
Human Genome Version DescriptionGRCh37.p5
Human Genome RefSeq AccessionGCF_000001405.17
Human Chromosomechr13
Cytogenetic Bandq21.31
Human Strand+
Human Integration Location TypeIntergenic
Hg19 Start65063287
Hg19 End65063287
Hg38 Start64489155
Hg38 End64489155
Junction SequenceATGAATTAATATTTCTAGGACTAAGATATGTAGAGTTTGGAAGTTGTAAGTACCAAGATTAGTAAGAAGGGAAATGTCTACTACCACCTCAATCAGAGG
Target Gene
Target Gene-
Nearby Gene-
Distance-
Virus Information
Virus NameHuman Papillomavirus
Virus Subtype NameHPV16
Virus Genome AccessionNC_001526.1
TaxonomyID10566
Virus AbbreviationHPV
Virus GenomeHuman papillomavirus type 16, complete genome
Virus Genome Length7904
Virus Breakpoint13283
Virus Breakpoint2-
Virus Gene NameE2
Virus Region Type-
Integrated Virus SequenceTCAGTAACTGTGGTAGAGGGTCAAGTTGACTATTATGGTTTATATTATGTTCATGAAGGAATACGAACATATTTTGTGCAGTTTAAAGATGATGCAGAAA| |AATATAGTAAAAATAAAGTATGGGAAGTTCATGCGGGTGGTCAGGTAATATTATGTCCTACATCTGTGTTTAGCAGCAACGAAGTATCCTCTCCTGAAAT
ViMIC ID-