VISDB Viral Integration Site DataBase

VIS ID

TVIS20004229

Fusion event

HPV-RAD51B 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

E4

Start

3434

Integrated sequence

TTATGTCCTACATCTGTGTTTAGCAGCAACGAAGTATCCTCTCCTGAAATTATTAGGCAGCACTTGGCCAACCACCCCGCCGCGACCCATACCAAAGCCG| |TCGCCTTGGGCACCGAAGAAACACAGACGACTATCCAGCGACCAAGATCAGAGCCAGACACCGGAAACCCCTGCCACACCACTAAGTTGTTGCACAGAGA

Chromosome

chr14

Cytoband

q24.1

Reference genome

Start

End

68741700/68274983 (Hg38)

Location type

Intronic

Fragile sites / regions

Target gene

miRNAs that regulate target gene

hsa-mir-484 ; hsa-mir-4668-5p ; hsa-mir-2053 ; hsa-mir-6780a-5p ; hsa-mir-6779-5p ; hsa-mir-3689c ; hsa-mir-3689b-3p ; hsa-mir-30b-3p ; hsa-mir-3689a-3p ; hsa-mir-1273h-5p ; hsa-mir-569 ; hsa-mir-6799-5p ; hsa-mir-6883-5p ; hsa-mir-6785-5p ; hsa-mir-4728-5p ; hsa-mir-149-3p ; hsa-mir-7106-5p ; hsa-mir-766-5p ; hsa-mir-6871-5p ; hsa-mir-4496 ; hsa-mir-4506

Nearest miRNA

hsa-mir-208a/Upstream/833053; hsa-mir-1185-1/Downstream/4241837;

Nearest TSS

Nearest CpG islands

None/Target, chr14-CpG: 35/Upstream/599818, chr14-CpG: 40/Downstream/353315

Junction sequence