VISDB Viral Integration Site DataBase

VIS ID

TVIS20004245

Fusion event

HPV-NR4A2 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

E5-L2

Start

4194

Integrated sequence

TACATAATGTATATGTACATAATGTAATTGTTACATATAATTGTTGTATACCATAACTTACTATTTTTTCTTTTTTATTTTCATATATAATTTTTTTTTT| |TGTTTGTTTGTTTGGTTTTTAATAAACTGTTATCACTTACCAATGCGACACAAACGTTCTGCAAAACGCACAAAACGTGCATCGGCTACCCAACTTTATA

Chromosome

chr2

Cytoband

q24.1

Reference genome

Start

End

157181011/156324499 (Hg38)

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-217 ; hsa-mir-19a-3p ; hsa-mir-302d-3p ; hsa-mir-372-3p ; hsa-mir-335-5p ; hsa-mir-133a-3p ; hsa-mir-520f-5p ; hsa-mir-7157-5p ; hsa-mir-4310 ; hsa-mir-3675-3p ; hsa-mir-3617-3p ; hsa-mir-34a-3p ; hsa-mir-548c-3p ; hsa-mir-129-5p ; hsa-mir-206 ; hsa-mir-34a-5p

Nearest miRNA

hsa-mir-128-1/Upstream/4956088; hsa-mir-10b/Downstream/2862336;

Nearest TSS

Nearest CpG islands

None/Target, chr2-CpG: 135/Upstream/3665, chr2-CpG: 19/Downstream/3378

Junction sequence