VISDB Viral Integration Site DataBase

VIS ID

TVIS20000096

Fusion event

HPV-chr20:p12.1 integration

Validated

Yes

Detection method

PCR and Sanger sequencing

Data source

Curated

Sample type

Disease

Cervical carcinoma (CC)

Quality evaluation

Normal

Reported year

2016

PubMed ID

Virus name

HPV

Subtype

HPV16

Reference genome

Region type

E1

Start

1987

Integrated sequence

AACGATGGAGACTCTTTGCCAACGTTTAAATGTGTGTCAGGACAAAATACTAACACATTATGAAAATGATAGTACAGACCTACGTGACCATATAGACTAT| |TGGAAACACATGCGCCTAGAATGTGCTATTTATTACAAGGCCAGAGAAATGGGATTTAAACATATTAACCACCAGGTGGTGCCAACACTGGCTGTATCAA

Chromosome

chr20

Cytoband

p12.1

Reference genome

Start

End

14872325/14891679 (Hg38)

Location type

Intronic

Target gene

MACROD2 ; MACROD2-AS1

miRNAs that regulate target gene

hsa-mir-1238-3p ; hsa-mir-670-3p ; hsa-mir-4469 ; hsa-mir-486-5p ; hsa-mir-660-3p ; hsa-mir-4667-3p ; hsa-mir-1470 ; hsa-mir-618 ; hsa-mir-502-5p ; hsa-mir-4786-3p ; hsa-mir-1915-5p ; hsa-mir-6841-3p ; hsa-mir-153-5p ; hsa-mir-6808-3p ; hsa-mir-7973 ; hsa-mir-486-3p ; hsa-mir-4252 ; hsa-mir-4725-5p ; hsa-mir-6852-5p ; hsa-mir-6791-5p ; hsa-mir-4292 ; hsa-mir-504-5p

Nearest miRNA

hsa-mir-103a-2/Upstream/4241984; hsa-mir-1-1/Downstream/3578936;

Nearest TSS

Nearest CpG islands

None/Target, chr20-CpG: 39/Upstream/895257, chr20-CpG: 50/Downstream/1681512

Upstream sequence

AAGGATTATAttaggttggtgcaaaagtaatcacagtttttgtttttgccattacttttaatggcaaaaactgtgattacttttgcaccaacctaaTAGA

Downstream sequence

ACTGCTAGAACTTGTAGGCTTTGAAGACTTTACAATTTTGTTAGGAAGAGAATAGAGATGTATTTGAGAAATTCAGTAGCAAAAAAAGAACCATATATAG