VISDB Viral Integration Site DataBase

VIS ID

TVIS10007142

Fusion event

HBV-ROCK1 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

2861

Orient

-

Integrated sequence

TGGAAGGCGGGTATATTATATAAGAGAGAAACAACACATAGCGCCTCATTTTGTGGGTCACCATATTCTTGGGAACAAGATCTACAGCATGGGGCAGAAT| |CTTTCCACCAGCAATCCTCTGGGATTCTTTCCCGACCACCAGTTGGATCCAGCCTTCAGAGCAAACACCGCAAATCCAGATTGGGACTTCAATCCCAACA

Chromosome

chr18

Cytoband

q11.1

Reference genome

Start

End

18577295/20997334 (Hg38)

Orient

+

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-146a-5p ; hsa-mir-584-5p ; hsa-mir-124-3p ; hsa-mir-1280 ; hsa-mir-148b-3p ; hsa-mir-335-5p ; hsa-mir-148a-3p ; hsa-mir-135a-5p ; hsa-mir-145-5p ; hsa-mir-340-5p ; hsa-mir-4662a-5p ; hsa-mir-4753-5p ; hsa-mir-6507-5p ; hsa-mir-6768-3p ; hsa-mir-548aw ; hsa-mir-5093 ; hsa-mir-1468-3p ; hsa-mir-548x-5p ; hsa-mir-548g-5p ; hsa-mir-548f-5p ; hsa-mir-548aj-5p ; hsa-mir-3688-3p ; hsa-mir-300 ; hsa-mir-506-3p ; hsa-mir-584-3p ; hsa-mir-126-3p ; hsa-mir-144-5p

Nearest miRNA

hsa-mir-3156-2/Upstream/6167092; hsa-mir-1-2/Downstream/686184;

Nearest TSS

Nearest CpG islands

None/Target, chr18-CpG: 67/Upstream/5666159, chr18-CpG: 113/Downstream/113645

Nearest cancer related gene

ROCK1(OG, No orient, 0)

Upstream sequence

ttcatgtataaaggtacacatagacatacacagaaaaaacaaggggatggaaacagatattccatgccaattaaaacaaaaacaaaaacaaaaaaagagc

Downstream sequence

agtagcagttatacttgtatcagacaaaatagatttcaagacaaaaactataaaaaggcacagaaaaggtcataatgtaatgataaaggggtcaattcag