VISDB Viral Integration Site DataBase

VIS ID

TVIS20005059

Fusion event

HPV-USP9X integration

Validated

Yes

Detection method

RNA-Seq+RT-PCR

Data source

Curated

Sample type

Disease

Squamous-cell carcinoma (SCC)

Quality evaluation

Good

Reported year

2014

PubMed ID

Virus name

HPV

Subtype

HPV16

Reference genome

Chromosome

chrX

Cytoband

p11.4

Reference genome

Start

End

41082064/41222811 (Hg38)

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-16-5p ; hsa-mir-1180-3p ; hsa-mir-330-3p ; hsa-mir-186-5p ; hsa-mir-222-3p ; hsa-mir-92a-3p ; hsa-mir-26b-5p ; hsa-mir-640 ; hsa-mir-3160-3p ; hsa-mir-6817-5p ; hsa-mir-4769-3p ; hsa-mir-3151-3p ; hsa-mir-708-5p ; hsa-mir-3139 ; hsa-mir-28-5p ; hsa-mir-6818-3p ; hsa-mir-548s ; hsa-mir-4684-5p ; hsa-mir-593-3p ; hsa-mir-6895-3p ; hsa-mir-3926 ; hsa-mir-3190-5p ; hsa-mir-5699-3p ; hsa-mir-4421 ; hsa-mir-339-5p ; hsa-mir-6849-3p ; hsa-mir-10b-5p ; hsa-mir-10a-5p ; hsa-mir-6732-3p ; hsa-mir-1283 ; hsa-mir-4433a-3p ; hsa-mir-4459 ; hsa-mir-4768-3p ; hsa-mir-544b ; hsa-mir-7162-3p

Nearest miRNA

hsa-mir-1587/Upstream/1380933; hsa-let-7f-2/Downstream/4523346;

Nearest TSS

Nearest CpG islands

None/Target, chrX-CpG: 62/Upstream/131879, chrX-CpG: 34/Downstream/30754

Nearby gene

MED14 ; DDX3X(+) ;

Upstream sequence

TGAGCCCGGTGTGGATTATAAGAACACCCCTTGTTCAAGGGAGAGCAAAAAACCCTGATTGACAGTGCTACCAAAACTACCTGCCATGGAAGATTGGTTA

Downstream sequence

tcaggcaggagaattgcttgaacccgggaggcagaggttgcagtgagctgagatcatgctactgcactccatcctggcgagagagcgagactgtctcaaa

Target sequence

CAAGATGGGCCATGTCCTTCACCTTTTGCCTCTCCTGGACCTTCTAGTCAGGTAATTGCACAGCTTTCTTTCTAAATGATGAGATGTTTACAAATAAATTGTGTTTCCTGGAAGTCGAAGTCACAAGCATATGTGCATCCACTTGATATGTTTACCTAACAGAAACACACAATATGATGTCAGTGAGTTCCATTTAATATTACTGCATGGCAATGAATAGTAATTATTGGCTCTTTAAAAATGTAAGAGAATTTT