VISDB Viral Integration Site DataBase

VIS ID

TVIS20000034

Fusion event

HPV-HDAC4 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

E2/E4

Start

3575

Integrated sequence

AGGTTGAAGGCAAAACTATTGCTGATCAAATATTACAATATGGAAGTATGGGTGTATTTTTTGGTGGGTTAGGAATTGGAACAGGGTCGGGTACAGGCGG| |ACGCACTGGGTATATTCCATTGGGAACAAGGCCTCCCACAGCTACAGATACACTTGCTCCTGTAAGACCCCCTTTAACAGTAGATCCTGTGGGCCCTTCT

Chromosome

chr2

Cytoband

q37.3

Reference genome

Start

End

240309623/239387928 (Hg38)

Location type

Intronic

Fragile sites / regions

Target gene

miRNAs that regulate target gene

hsa-mir-29b-3p ; hsa-mir-140-5p ; hsa-mir-1-3p ; hsa-mir-22-3p ; hsa-mir-30c-5p ; hsa-mir-302b-3p ; hsa-mir-9-5p ; hsa-mir-206 ; hsa-mir-3149 ; hsa-mir-587 ; hsa-mir-4686 ; hsa-mir-513c-3p ; hsa-mir-513a-3p ; hsa-mir-3606-3p ; hsa-mir-4282 ; hsa-mir-19b-3p ; hsa-mir-19a-3p ; hsa-mir-381-3p ; hsa-mir-125a-5p ; hsa-mir-675-5p

Nearest miRNA

hsa-mir-10b/Upstream/36124; hsa-mir-149/Downstream/555087;

Nearest TSS

Nearest CpG islands

None/Target, chr2-CpG: 135/Upstream/112627, chr2-CpG: 263/Downstream/12155

Upstream sequence

aaatcacttatttccaccacTGATAATATGTTTGTGAATTTACAATCCTTTTATTTCCTCAGCTCTGCCGTTCCCCCTCTAGTTGTAGTATATAAACAAC

Downstream sequence

CCCCACCCCACCGCTCTCGCTTGGGGCCGCAGTGGCCACAGGTATCAGACGGGAGGACGGGTATCCACGCCACAGGTGTGCAGGGACTAACGGACCACAC