VISDB Viral Integration Site DataBase

VIS ID

TVIS10008135

Fusion event

HBV-NCK2 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

X protein|

Start

1807

Orient

-

Integrated sequence

CTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCA| |CCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGA

Chromosome

chr2

Cytoband

q12.2

Reference genome

Start

End

106383315/105766858 (Hg38)

Orient

+

Location type

Intronic

Fragile sites / regions

Target gene

miRNAs that regulate target gene

hsa-mir-128-3p ; hsa-mir-877-3p ; hsa-mir-337-5p ; hsa-mir-495-3p ; hsa-mir-505-3p ; hsa-mir-3065-5p ; hsa-mir-4742-3p ; hsa-mir-3591-5p ; hsa-mir-5688 ; hsa-mir-7159-5p ; hsa-mir-190a-3p ; hsa-mir-1277-5p ; hsa-mir-5011-5p ; hsa-mir-5692c ; hsa-mir-5692b ; hsa-mir-548v ; hsa-mir-452-3p ; hsa-mir-496 ; hsa-mir-5683 ; hsa-mir-142-3p ; hsa-mir-574-5p ; hsa-mir-6867-5p ; hsa-mir-648 ; hsa-mir-4436a ; hsa-mir-4700-3p ; hsa-mir-5000-3p ; hsa-mir-505-5p ; hsa-mir-6827-5p

Nearest miRNA

hsa-mir-1285-2/Upstream/3334492; hsa-mir-10b/Downstream/3374632;

Nearest TSS

Nearest CpG islands

None/Target, chr2-CpG: 135/Upstream/21097, chr2-CpG: 78/Downstream/114473

Upstream sequence

CTTTACTCGGCTATCCCTCCATCTTGTGGGCATGCAGGATTTTCGTTCCCTCCAAACTATTTCCATCTGTAGTGAGTAGTGTTAGTTTGACTTACAAATT

Downstream sequence

AATATTTAAGCCATCAAATTAGTTTAGTAACTGGCTGGAGGCTTCTGGCTCCGTCTTCCTGCTGCCTGTGCAGTGTTGGTGAAACTCAGGAGTGAAGAGA