VISDB Viral Integration Site DataBase

VIS ID

TVIS10014800

Fusion event

HBV-NR1D2 integration

Validated

No

Detection method

WGS

Data source

Curated

Sample type

Disease

Hepatocellular carcinoma (HCC)

Quality evaluation

Normal

Reported year

2016

PubMed ID

Virus name

HBV

Reference genome

Start

2479

Orient

+

Integrated sequence

TCCCTCGCCTCGCAGACGAAGGTCTCAATCGCCGCGTCGCAGAAGATCTCAATCTCGGGAATCTCAATGTTAGTATCCCTTGGACTCATAAGGTGGGAAA| |CTTTACTGGGCTTTATTCTTCTACTGTACCTGTCTTTAATCCTGAGTGGCAAACTCCCTCCTTTCCTAACATTCATTTACAGGAGGACATTATTAATAGA

Chromosome

chr3

Cytoband

p24.2

Reference genome

Start

End

24001495/23960004 (Hg38)

Orient

+

Location type

Intronic

Fragile sites / regions

Target gene

miRNAs that regulate target gene

hsa-mir-125a-5p ; hsa-mir-132-3p ; hsa-mir-10a-5p ; hsa-mir-744-5p ; hsa-mir-27a-3p ; hsa-mir-216a-3p ; hsa-mir-27b-3p ; hsa-mir-128-3p ; hsa-mir-513a-5p ; hsa-mir-3611 ; hsa-mir-3681-3p ; hsa-mir-509-3p ; hsa-mir-145-5p ; hsa-mir-766-3p ; hsa-mir-3925-3p ; hsa-mir-5195-3p ; hsa-mir-6848-3p ; hsa-mir-6843-3p ; hsa-mir-519e-5p ; hsa-mir-515-5p ; hsa-mir-601 ; hsa-mir-3683 ; hsa-mir-1273c ; hsa-mir-520e ; hsa-mir-520d-3p ; hsa-mir-520c-3p ; hsa-mir-520b ; hsa-mir-520a-3p ; hsa-mir-373-3p ; hsa-mir-372-3p ; hsa-mir-302e ; hsa-mir-302d-3p ; hsa-mir-302c-3p ; hsa-mir-302b-3p ; hsa-mir-302a-3p ; hsa-mir-519c-3p ; hsa-mir-519b-3p ; hsa-mir-519a-3p ; hsa-mir-3185 ; hsa-mir-6837-3p ; hsa-mir-6754-3p ; hsa-mir-412-3p

Nearest miRNA

hsa-mir-12127/Upstream/3822363; hsa-let-7g/Downstream/1704869;

Nearest TSS

Nearest CpG islands

None/Target, chr3-CpG: 148/Upstream/13474, chr3-CpG: 135/Downstream/534349

Upstream sequence

CTTCATAACTCACTGCTAATTGCTAAGGTCCTGAAAATATTAGCTTCCTTCACTGGCAATCCATAATAACTGACTTGCTTTCCCAATTTATCTTCTAAAC

Downstream sequence

CAGTTTTTGGCTAAACTTCTGTTGTTGTTGCTTCTTCTAAAAAGAGCCATTTTTTTTCTGTGCAATTTGATTACTTTTTATTTTTTCCTAAAACCAATGG