VISDB Viral Integration Site DataBase

VIS ID

TVIS20003814

Fusion event

HPV-TP63 integration

Validated

Yes

Detection method

APOT and sequencing

Data source

Curated

Sample type

Disease

Head and neck squamous cell carcinoma (HNSCC)

Quality evaluation

Normal

Reported year

2015

PubMed ID

Virus name

HPV

Subtype

HPV16

Reference genome

Gene

E1

Start

1299

Integrated sequence

AATTGTAAAGGATTGTGCAACAATGTGTAGACATTATAAACGAGCAGAAAAAAAACAAATGAGTATGAGTCAATGGATAAAATATAGATGTGATAGGGTA| |GATGATGGAGGTGATTGGAAGCAAATTGTTATGTTTTTAAGGTATCAAGGTGTAGAGTTTATGTCATTTTTAACTGCATTAAAAAGATTTTTGCAAGGCA

Chromosome

chr3

Cytoband

q28

Reference genome

Start

End

189567310/189849521 (Hg38)

Orient

+

Location type

Intron4

Target gene

miRNAs that regulate target gene

hsa-mir-203a-3p ; hsa-mir-92a-3p ; hsa-mir-21-5p ; hsa-mir-124-3p ; hsa-mir-301b-3p ; hsa-mir-129-5p ; hsa-mir-6885-3p ; hsa-mir-4477b ; hsa-mir-1178-3p ; hsa-mir-6891-5p ; hsa-mir-3173-3p ; hsa-mir-4428

Nearest miRNA

hsa-let-7g/Upstream/19512; hsa-mir-3137/Downstream/5284985;

Nearest TSS

Nearest CpG islands

None/Target, chr3-CpG: 148/Upstream/901758, chr3-CpG: 99/Downstream/270770

Nearest cancer related gene

TP63(TSG, No orient, 0)

Upstream sequence

CAGAAGTTCCAGAGGTCTGGATTTGCTCCTGGTTGTGTGTGGAGTCTTGGGAACTGAGTCTTCAACCTGTGCGATATGACAGATCTCCGGGTAGACAGTG

Downstream sequence

TGATTGTTGCTGTGGTAATGTGAGAGGAGAGGAAAAAACACAGTTTGAGCATTTCCCAAAACATCCTCCAAGCTAAATAGACCCCCATGTTTTACCTTCT

Target sequence

TCACAGTTGAATTGGAGGACACCCAGCTTGGTGTCTGCTGCTTGGTGAGTGGTGAAAAACTCCCACACATTTGGCCACAGAAGTCATCTTCTGTGTTGA