VISDB Viral Integration Site DataBase

VIS ID

TVIS20004264

Fusion event

HPV-PLGRKT integration

Validated

Yes

Detection method

WGS, RNA-seq, Whole-Exome sequencing, PCR

Data source

Curated

Sample type

Disease

Head and neck squamous cell carcinoma (HNSCC)

Quality evaluation

Perfect

Reported year

2014

PubMed ID

Virus name

HPV

Subtype

HPV16

Reference genome

Gene

E1

Start

1572

Integrated sequence

AAAGGCAGCAATGTTAGCAAAATTTAAAGAGTTATACGGGGTGAGTTTTTCAGAATTAGTAAGACCATTTAAAAGTAATAAATCAACGTGTTGCGATTGG| |TGTATTGCTGCATTTGGACTTACACCCAGTATAGCTGACAGTATAAAAACACTATTACAACAATATTGTTTATATTTACACATTCAAAGTTTAGCATGTT

Chromosome

chr9

Cytoband

p24.1

Reference genome

Start

End

5388156/5388156 (Hg38)

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-1-3p ; hsa-mir-26b-5p ; hsa-mir-4659b-3p ; hsa-mir-4659a-3p ; hsa-mir-6749-3p ; hsa-mir-6792-3p ; hsa-mir-4691-5p ; hsa-mir-4326 ; hsa-mir-3682-5p ; hsa-mir-4778-3p ; hsa-mir-199b-5p ; hsa-mir-199a-5p ; hsa-mir-770-5p ; hsa-mir-4712-5p ; hsa-mir-4255 ; hsa-mir-607 ; hsa-mir-4659b-5p ; hsa-mir-4659a-5p ; hsa-mir-3671 ; hsa-mir-6879-3p ; hsa-mir-4264 ; hsa-mir-4797-3p ; hsa-mir-6872-3p ; hsa-mir-4277 ; hsa-mir-584-3p ; hsa-mir-1306-5p ; hsa-mir-7853-5p ; hsa-mir-105-5p ; hsa-mir-513b-3p

Nearest miRNA

hsa-mir-101-2/Upstream/537781; hsa-let-7a-1/Downstream/619670;

Nearest TSS

Nearest CpG islands

None/Target, chr9-CpG: 64/Upstream/48478, chr9-CpG: 43/Downstream/49410

Junction sequence