VISDB Viral Integration Site DataBase

VIS ID

TVIS20004422

Fusion event

HPV-PNRC1 integration

Validated

Yes

Detection method

APOT-PCR

Data source

Curated

Sample type

Disease

Oropharyngeal squamous cell carcinoma (OSCC)

Quality evaluation

Normal

Reported year

2014

PubMed ID

Virus name

HPV

Subtype

HPV16

Reference genome

Chromosome

chr6

Cytoband

q15

Reference genome

Start

End

89790877/89081158 (Hg38)

Orient

+

Location type

Intron1

Fragile sites / regions

Target gene

miRNAs that regulate target gene

hsa-mir-335-5p ; hsa-mir-98-5p ; hsa-mir-1250-5p ; hsa-mir-423-5p ; hsa-mir-100-5p ; hsa-let-7a-5p ; hsa-mir-19a-3p ; hsa-mir-19b-3p ; hsa-mir-199a-3p ; hsa-mir-199b-3p ; hsa-mir-222-5p ; hsa-mir-130a-3p ; hsa-mir-301a-3p ; hsa-mir-130b-3p ; hsa-mir-454-3p ; hsa-mir-301b-3p ; hsa-mir-936 ; hsa-mir-3129-5p ; hsa-mir-4295 ; hsa-mir-3666 ; hsa-mir-4671-3p ; hsa-mir-26a-5p ; hsa-mir-26b-5p ; hsa-mir-106a-3p ; hsa-mir-513c-5p ; hsa-mir-466 ; hsa-mir-514b-5p ; hsa-mir-3941 ; hsa-mir-4672 ; hsa-mir-6750-3p ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-603 ; hsa-mir-8485 ; hsa-mir-3148 ; hsa-mir-3201 ; hsa-mir-4668-5p ; hsa-mir-4791 ; hsa-mir-548g-3p ; hsa-mir-548av-3p ; hsa-mir-4307 ; hsa-mir-6739-5p ; hsa-mir-6733-5p ; hsa-mir-3153 ; hsa-mir-6837-5p ; hsa-mir-4685-5p ; hsa-mir-7113-5p ; hsa-mir-6871-5p ; hsa-mir-4425 ; hsa-mir-5089-5p ; hsa-mir-5589-5p ; hsa-mir-4731-5p ; hsa-mir-6506-5p ; hsa-mir-619-5p ; hsa-mir-150-5p ; hsa-mir-186-3p ; hsa-mir-6849-3p ; hsa-mir-1226-3p ; hsa-mir-520h ; hsa-mir-520g-3p ; hsa-mir-512-3p ; hsa-mir-520e ; hsa-mir-520d-3p ; hsa-mir-520c-3p ; hsa-mir-520b ; hsa-mir-520a-3p ; hsa-mir-373-3p ; hsa-mir-372-3p ; hsa-mir-302e ; hsa-mir-302d-3p ; hsa-mir-302c-3p ; hsa-mir-302b-3p ; hsa-mir-302a-3p ; hsa-mir-93-5p ; hsa-mir-526b-3p ; hsa-mir-519d-3p ; hsa-mir-20b-5p ; hsa-mir-20a-5p ; hsa-mir-17-5p ; hsa-mir-106b-5p ; hsa-mir-106a-5p ; hsa-mir-578 ; hsa-mir-211-5p ; hsa-mir-204-5p ; hsa-mir-3667-3p ; hsa-mir-5582-3p ; hsa-mir-5088-3p ; hsa-mir-548x-3p ; hsa-mir-548j-3p ; hsa-mir-548aq-3p ; hsa-mir-548am-3p ; hsa-mir-548aj-3p ; hsa-mir-548ah-3p ; hsa-mir-548ae-3p ; hsa-mir-548z ; hsa-mir-548h-3p ; hsa-mir-548d-3p ; hsa-mir-548bb-3p ; hsa-mir-548ac ; hsa-mir-335-3p ; hsa-mir-664b-3p ; hsa-mir-579-3p ; hsa-mir-5696 ; hsa-mir-1250-3p ; hsa-mir-6807-5p ; hsa-mir-1304-3p ; hsa-mir-6872-3p ; hsa-mir-4267 ; hsa-mir-3680-5p ; hsa-mir-5591-3p ; hsa-mir-6735-3p ; hsa-mir-122-5p ; hsa-mir-3151-3p ; hsa-mir-3677-5p ; hsa-mir-6854-5p ; hsa-mir-4482-5p ; hsa-mir-3130-5p ; hsa-mir-1912 ; hsa-mir-1295b-5p ; hsa-mir-129-5p ; hsa-mir-489-3p

Nearest miRNA

hsa-mir-10398/Upstream/10541849; hsa-mir-1202/Downstream/1231584;

Nearest TSS

Nearest CpG islands

chr6-CpG: 149/Target, None/Upstream, None/Downstream

Upstream sequence

CTTTTCCTCCCGAGGTTACTTTGGGGCCCTCCCGATGGTGACCACGGCTCCGCCTCCTTTACCCCGGATCCCGGACCCCCGGGCACTGCCCCCGACCCTC

Downstream sequence

ACTCCTCGGGCAGCGCCGAAGAAGCGGCGAAAGAAGAAGGTGCGGGCCAGCCCCGCAGGGCAGCTGCCCAGCCGCTTCCACCAGTACCAGCAGCACCGGC

Target sequence

TTCCTCCCTCATTTCCTAGGGGGAGATGGCCCGTGTCTGACCCCCCAGCCTCGCGCTCCAGCAGCTCTGCCCAACCGCAGCCTCGCCGTGGCGGGAGGC