VISDB Viral Integration Site DataBase

VIS ID

TVIS10006894

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

Polymerase,Pre-S2/S, S

Start

92

Integrated sequence

CTCCACCACTTTCCACCAAACTCTTCAAGATCCCAGAGTCAGGGCCCTGTACTTTCCTGCTGGTGGCTCCAGTTCAGGAACAGTGAGCCCTG| |CTCAGAATACTGTCTCTGCCATATCGTCAATCTTATCGAAGACTGGGGACCCTGTACCGAACATGGAGAACATCGCATCAGGACTCCTAGGACCCCTGCT

Chromosome

chr15

Cytoband

q21.1

Reference genome

Start

End

45661997/45369799 (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/651906; hsa-mir-11181/Downstream/63251;

Nearest TSS

Nearest CpG islands

None/Target, chr15-CpG: 55/Upstream/170745, chr15-CpG: 114/Downstream/7973

Upstream sequence

tgttgaatgaaGAACTCTAAAACATCTTGATATTTTGAGGCCTTTTGCTCCTCCTGCCTGAGATCTCATGGCCAACCACTAACAGCATGTTTACCTTCAG

Downstream sequence

ACAGACTTGGAATCCTCTTGGCCAGTTTTTTTGCCATGCTTTGCAGACAAAACAGGACATAGCACTTCTATTAGAGAGCCTCAATAAAATGAAACAAGAG