VISDB Viral Integration Site DataBase

VIS ID

TVIS10020586

Fusion event

HBV-LRFN1 integration

Validated

No

Detection method

VirusScan

Data source

Curated

Sample type

Disease

Hepatocellular carcinoma (HCC)

Quality evaluation

Good

Reported year

2016

PubMed ID

Virus name

HBV

Reference genome

Start

692

End

1740

Orient

-

Integrated sequence

TTCAGTGGTTCGTAGGGCTTTCCCCCACTGTTTGGCTTTCAGCTATATGGATGATGTGGTATTGGGGGCCAAGTCTGTACAACATCTTGAGTCCCTTTTTACCTCTATTACCAATTTTCTTTTGTCTTTGGGTATACATTTGAACCCTAATAAAACCAAACGTTGGGGCTACTCCCTTAACTTCATGGGATATGTAATTGGAAGTTGGGGTACTTTACCGCAGGAACATATTGTACAAAAACTCAAGCAATGTTT

Chromosome

chr19

Cytoband

q13.2

Reference genome

Start

End

39797667/39307027 (Hg38)

Orient

+

Location type

Intronic

Fragile sites / regions

Target gene

miRNAs that regulate target gene

hsa-mir-10a-5p ; hsa-mir-4313 ; hsa-mir-6884-5p ; hsa-mir-485-5p ; hsa-mir-324-3p ; hsa-mir-1913 ; hsa-mir-4532 ; hsa-mir-1247-3p ; hsa-mir-7108-3p ; hsa-mir-6887-3p ; hsa-mir-3186-3p ; hsa-mir-603 ; hsa-mir-8485 ; hsa-mir-361-3p ; hsa-mir-6793-3p ; hsa-mir-6879-3p ; hsa-mir-3620-3p ; hsa-mir-6865-3p

Nearest miRNA

hsa-mir-10395/Upstream/3960352; hsa-let-7e/Downstream/102596;

Nearest TSS

Nearest CpG islands

None/Target, chr19-CpG: 112/Upstream/40079, chr19-CpG: 157/Downstream/119

Upstream sequence

GTGCTTACTCCTCCTCCTCTTGGGGCTCCTGAAGCCCCTGAGCCAGAGCCTCCTCCTGCCGATGACTCTCCAGCTGAGCCTGAGCCTCGGGCAGTGGGCC

Downstream sequence

cgacaggacagagagaaaggagaggcaaatagggaaagacaggcactacagagagacgacaagagggcgggatagagacaaacgagggaaacagagaaag

Target sequence

gccttctgtcctctccctgacatttcattatctttaacaggaaaaaaagacagagaaatgtctacacctggacggactttgtcacaagaaattatctgtctgtcagtctcaaattccagagacatttacaagctaaattctatctcctggacccatttattttccccaaaatcatttattacccctcaaaattgccttcctttccccatctcccctcctgtgaagaaaggtatataagtatataaacctcactgg