VISDB Viral Integration Site DataBase

VIS ID

TVIS10011327

Fusion event

HBV-LRIG1 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

1686

Orient

-

Integrated sequence

TTCGCTTCACCTCTGCACGTCGCATGGAGACCACCGTGAACGCCCACCAAATATTGCCCAAGGTCTTACATAAGAGGACTCTTGGACTCTCAGCAATGTC| |AACGACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGT

Chromosome

chr3

Cytoband

p14.1

Reference genome

Start

End

66478431/66428007 (Hg38)

Orient

+

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-124-3p ; hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-98-5p ; hsa-mir-149-5p ; hsa-mir-92a-3p ; hsa-let-7b-5p ; hsa-mir-4753-5p ; hsa-mir-218-5p ; hsa-mir-3187-3p ; hsa-mir-4435 ; hsa-mir-588 ; hsa-mir-4701-5p ; hsa-mir-548s ; hsa-mir-4764-3p ; hsa-mir-3926 ; hsa-mir-3140-3p ; hsa-mir-4685-3p ; hsa-mir-4287 ; hsa-mir-5088-3p ; hsa-mir-4797-3p ; hsa-mir-545-5p ; hsa-mir-208b-5p ; hsa-mir-208a-5p ; hsa-mir-4652-3p ; hsa-mir-4743-3p ; hsa-mir-6888-3p ; hsa-mir-6749-3p ; hsa-mir-6792-3p ; hsa-mir-4691-5p ; hsa-mir-5193 ; hsa-mir-660-3p ; hsa-mir-361-3p ; hsa-mir-589-3p

Nearest miRNA

hsa-let-7g/Upstream/5810137; hsa-mir-12124/Downstream/797457;

Nearest TSS

Nearest CpG islands

None/Target, chr3-CpG: 148/Upstream/206715, chr3-CpG: 187/Downstream/71887

Nearest cancer related gene

LRIG1(TSG, No orient, 0)

Upstream sequence

ggtgtctgcacatcatgcagaaccatctgtgaaccatgcccttgtcttctcttcttctgtcaactgatcataggaaataccccatgaggccaccagtgca

Downstream sequence

atacagcaatttattttttctttctattgttgacggacattgagttatttccaattcaggctattgcaaaaatcacagctatgaacacggacttgtcttc