VISDB Viral Integration Site DataBase

VIS ID

TVIS10016544

Fusion event

HBV-GATM integration

Validated

No

Detection method

WGS

Data source

Curated

Sample type

Disease

Hepatocellular carcinoma (HCC)

Quality evaluation

Normal

Reported year

2012

PubMed ID

Virus name

HBV

Reference genome

Start

2709

Orient

+

Integrated sequence

TGGTACAGCAACAGGAGGGATACATAGAGGTTCCTTGAGCAGTAGTCATGCAGGTCCGGCATGGTCCCGTGCTGGTTGTTGAGGATCCTGGAATTAGAGG| |ACAAACGGGCAACATACCTTGATAGTCCAGAAGAACCAACAAGAAGATGAGGCATAGCAGCAGGATGAAGAGGAAGATGATAAAACGCCGCAGACACATC

Chromosome

chr15

Cytoband

q21.1

Reference genome

Start

End

45666202/45374004 (Hg38)

Orient

+

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/656111; hsa-mir-11181/Downstream/59046;

Nearest TSS

Nearest CpG islands

None/Target, chr15-CpG: 55/Upstream/174950, chr15-CpG: 114/Downstream/3768

Nearby gene

SLC28A2(-98070) ; LOC145663(+4695) ;

Upstream sequence

TTTCCCCACCTCAGCCCTTTCTATTTTTATCAGGAGAGTGAGAGGGGGTTGCCAGGCGGGGCCACGGCGCTGTTTATGTCTGAAATTTAAAAAGATGCAC

Downstream sequence

CCATACAACTATAATAAGTTGTTGTGTTGTCCTTTAAAATACTTAACATGTAACCTTTTATCTTTAGAttaatccttaatcctgttaggtagatagcaaa