VISDB Viral Integration Site DataBase

VIS ID

TVIS10008520

Fusion event

HBV-CCDC88A integration

Validated

No

Detection method

NGS

Data source

Curated

Sample type

Disease

Hepatocellular carcinoma (HCC)

Quality evaluation

Normal

Reported year

2018

PubMed ID

Virus name

HBV

Reference genome

Region type

Polymerase|large S protein|

Start

3074

Orient

-

Integrated sequence

AGACGCCAACAAGGTAGGAGCTGGAGCATTCGGGCTGGGTTTCACCCCACCGCACGGAGGCCTTTTGGGGTGGAGCCCTCAGGCTCAGGGCATACTACAA| |ACTTTGCCAGCAAATCCGCCTCCTGCCTCCACCAATCGCCAGTCAGGAAGGCAGCCTACCCCGCTGTCTCCACCTTTGAGAAACACTCATCCTCAGGCCA

Chromosome

chr2

Cytoband

p16.1

Reference genome

Start

End

55560821/55333685 (Hg38)

Orient

-

Location type

Intronic

Fragile sites / regions

Target gene

miRNAs that regulate target gene

hsa-mir-375 ; hsa-mir-4448 ; hsa-mir-8085 ; hsa-mir-4644 ; hsa-mir-6731-5p ; hsa-mir-4306 ; hsa-mir-185-5p ; hsa-mir-6133 ; hsa-mir-6130 ; hsa-mir-6129 ; hsa-mir-6127 ; hsa-mir-4510 ; hsa-mir-4419a ; hsa-mir-6760-5p ; hsa-mir-6873-5p ; hsa-mir-583 ; hsa-mir-4311 ; hsa-mir-101-5p

Nearest miRNA

hsa-mir-1301/Upstream/1484480; hsa-mir-10b/Downstream/649282;

Nearest TSS

Nearest CpG islands

None/Target, chr2-CpG: 135/Upstream/51101, chr2-CpG: 54/Downstream/85800

Upstream sequence

aacctcagttttctcatctaaaaaatggatataatacttataaaggattagttgtaaagattatgtgcatgtatatatgtgtgtatatatatttgggtgt

Downstream sequence

gtgtgtatatattatttatgtatataCAACTTatatgaagtttttagcccagtacttggcacacagcactcaataaatagtagctATCATGCTTCTTTAT