VISDB Viral Integration Site DataBase

VIS ID

TVIS10006879

Fusion event

HBV-GATM integration

Validated

Yes

Detection method

Alu PCR and sequencing

Data source

Curated

Sample type

Disease

Hepatocellular carcinoma (HCC)

Quality evaluation

Normal

Reported year

2015

PubMed ID

Virus name

HBV

Subtype

B2

Reference genome

Region type

X protein

Start

1798

Integrated sequence

AGGCATACTTCAAAGACTGTGTGTTTAATGAGTGGGAGGAGTTGGGGGAGGAGGTTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGT| |GTGTTCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGG

Chromosome

chr15

Cytoband

q21.1

Reference genome

Start

End

45663260/45371062 (Hg38)

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-155-5p ; hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-6809-3p ; hsa-mir-6833-3p ; hsa-mir-4768-5p ; hsa-mir-4263 ; hsa-mir-297 ; hsa-mir-6873-3p ; hsa-mir-6830-3p ; hsa-mir-567 ; hsa-mir-6845-3p ; hsa-mir-1264 ; hsa-mir-3184-3p ; hsa-let-7a-5p ; hsa-let-7b-5p ; hsa-let-7c-5p ; hsa-let-7d-5p ; hsa-let-7e-5p ; hsa-let-7f-5p ; hsa-let-7g-5p ; hsa-let-7i-5p ; hsa-mir-126-5p ; hsa-mir-3677-5p ; hsa-mir-3926 ; hsa-mir-3927-3p ; hsa-mir-4257 ; hsa-mir-4458 ; hsa-mir-4460 ; hsa-mir-4480 ; hsa-mir-4500 ; hsa-mir-4727-3p ; hsa-mir-548ac ; hsa-mir-548ae-3p ; hsa-mir-548ah-3p ; hsa-mir-548aj-3p ; hsa-mir-548am-3p ; hsa-mir-548aq-3p ; hsa-mir-548bb-3p ; hsa-mir-548d-3p ; hsa-mir-548h-3p ; hsa-mir-548j-3p ; hsa-mir-548s ; hsa-mir-548x-3p ; hsa-mir-548z ; hsa-mir-6831-5p ; hsa-mir-8069 ; hsa-mir-944 ; hsa-mir-98-5p

Nearest miRNA

hsa-mir-10393/Upstream/653169; hsa-mir-11181/Downstream/61988;

Nearest TSS

Nearest CpG islands

None/Target, chr15-CpG: 55/Upstream/172008, chr15-CpG: 114/Downstream/6710

Upstream sequence

cagggtttcaccatgttggccaggctggtctcaatctcctgacctcgtgatccacccgcgtcggccccccaaagggctgggattataggtgtgagccacc

Downstream sequence

atgcccggccaaaatattggttttcaaaaatgtaaaaatctagacagattctgcattcagattgttttccaaatgtctaagttcttagtcaatttctcaa