VISDB Viral Integration Site DataBase

VIS ID

TVIS10014154

Fusion event

HBV-GRAMD1C 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

precore/core protein|Core and e antigen|

Start

2211

Orient

-

Integrated sequence

CTGGGTGGGTGTTAATTTGGAAGATCCAGCGTCTAGAGACCTAGTAGTCAGTTATGTCAACACTAATATGGGCCTAAAGTTCAGGCAACTCTTGTGGTTT| |CACATTTCTTGTCTCACTTTTGGAAGAGAAACAGTTATAGAGTATTTGGTGTCTTTCGGAGTGTGGATTCGCACTCCTCCAGCTTATAGACCACCAAATG

Chromosome

chr3

Cytoband

q13.31

Reference genome

Start

End

113585966/113867119 (Hg38)

Orient

+

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-4682 ; hsa-mir-4424 ; hsa-mir-5582-3p ; hsa-mir-3200-5p ; hsa-mir-548f-3p ; hsa-mir-548e-3p ; hsa-mir-548az-3p ; hsa-mir-548ar-3p ; hsa-mir-548a-3p

Nearest miRNA

hsa-let-7g/Upstream/272177; hsa-mir-12124/Downstream/449356;

Nearest TSS

Nearest CpG islands

None/Target, chr3-CpG: 148/Upstream/28166, chr3-CpG: 34/Downstream/17897

Upstream sequence

tccctctacacactgctttgaatgcgtcccagagattctggtatgttgtgtctttgttctcgttggtttcaaagaacatctttatttctgccttcatttc

Downstream sequence

tgcctggcccacccttatgtcttttaaagatattaagagagaaatgagaaaatagatttatgtagtcttttaaaaatacccatgtatttatatttctggc