VISDB Viral Integration Site DataBase

VIS ID

TVIS10017435

Fusion event

AAV2-CCNA2 integration

Validated

No

Detection method

RNA-Seq

Data source

Curated

Sample type

Disease

Hepatocellular carcinoma (HCC)

Quality evaluation

Normal

Reported year

2018

PubMed ID

Virus name

AAV2

Reference genome

Start

3412

Integrated sequence

ATGGTGCCACAGTATGGATACCTCACCCTGAACAACGGGAGTCAGGCAGTAGGACGCTCTTCATTTTACTGCCTGGAGTACTTTCCTTCTCAGATGCTGC| |GTACCGGAAACAACTTTACCTTCAGCTACACTTTTGAGGACGTTCCTTTCCACAGCAGCTACGCTCACAGCCAGAGTCTGGACCGTCTCATGAATCCTCT

Chromosome

chr4

Cytoband

q27

Reference genome

Start

End

122742400/121821245 (Hg38)

Location type

Intron

Target gene

miRNAs that regulate target gene

hsa-mir-24-3p ; hsa-let-7b-5p ; hsa-mir-146a-5p ; hsa-mir-193b-3p ; hsa-mir-132-3p ; hsa-mir-212-3p ; hsa-mir-98-5p ; hsa-mir-197-3p ; hsa-mir-10b-3p ; hsa-mir-130b-3p ; hsa-mir-27b-3p ; hsa-mir-548aw ; hsa-mir-1468-3p ; hsa-mir-548x-5p ; hsa-mir-548g-5p ; hsa-mir-548f-5p ; hsa-mir-548aj-5p ; hsa-mir-1825 ; hsa-mir-4676-5p ; hsa-mir-575 ; hsa-mir-548e-5p ; hsa-mir-148a-3p ; hsa-mir-152-3p ; hsa-mir-148b-3p ; hsa-mir-4295 ; hsa-mir-130a-3p ; hsa-mir-301b-3p ; hsa-mir-3666 ; hsa-mir-454-3p ; hsa-mir-301a-3p ; hsa-mir-19a-3p ; hsa-mir-19b-3p ; hsa-mir-6835-3p ; hsa-mir-29c-3p ; hsa-mir-29a-3p ; hsa-mir-29b-3p ; hsa-mir-22-3p

Nearest miRNA

hsa-mir-12113/Upstream/7164391; hsa-mir-1305/Downstream/3686014;

Nearest TSS

Nearest CpG islands

None/Target, chr4-CpG: 46/Upstream/19642, chr4-CpG: 71/Downstream/2157

Upstream sequence

AAGATTTACCACGGGAAGGGAATTCAGCTATCCCAGGGTGATGAGAACTGGATTCCTTTGTATTTGTGAAGATGCCAGATTCTGAGCCCCTAGACTCAGT

Downstream sequence

CCCTAGTCTCAGTATCTCTGTACATAGAACTTTGGAATGATTTTAGTTAATGAGGGAAAAAAAAAAAAACATATTGGTAGGCCCCTAACAGGAAAATGAG