VISDB Viral Integration Site DataBase

VIS ID

TVIS10013845

Fusion event

HBV-GRIK4 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|Polymerase|

Start

2434

Orient

+

Integrated sequence

GAGACTACTGTTGTTAGACGACGAGGCAGGTCCCCTAGAAGAAGAACTCCCTCGCCTCGCAGACGAAGGTCTCAATCGCCGCGTCGCAGAAGATCTCAAT| |CTCGGGAATCTCAATGTTAGTATTCCTTGGACTCATAAGGTGGGGAACTTTACTGGGCTTTATTCTTCTACTGTACCTGTCTTTAATCCTCATTGGAAAA

Chromosome

chr11

Cytoband

q23.3

Reference genome

Start

End

120545085/120674376 (Hg38)

Orient

-

Location type

Intronic

Fragile sites / regions

Target gene

miRNAs that regulate target gene

hsa-mir-335-5p ; hsa-mir-196a-5p ; hsa-mir-4652-3p ; hsa-mir-4743-3p ; hsa-mir-3686 ; hsa-mir-670-5p ; hsa-mir-4775 ; hsa-mir-3607-3p ; hsa-mir-339-5p ; hsa-mir-590-3p ; hsa-mir-4511 ; hsa-mir-548b-3p ; hsa-mir-5582-3p ; hsa-mir-548x-3p ; hsa-mir-548j-3p ; hsa-mir-548aq-3p ; hsa-mir-548am-3p ; hsa-mir-548aj-3p ; hsa-mir-548ah-3p ; hsa-mir-548ae-3p

Nearest miRNA

hsa-mir-10392/Upstream/1361364; hsa-let-7a-2/Downstream/1425381;

Nearest TSS

Nearest CpG islands

None/Target, chr11-CpG: 30/Upstream/109145, chr11-CpG: 47/Downstream/311640

Upstream sequence

CTGCTCCAGCCTGGTGGGGATCTGGCCTCTAGGTTCAGAGCCCCTTGTTGAACCCATTCCCACCCAGCCCTGGCTGTCCAGTCTTTGGGTTAAAGAGAGC

Downstream sequence

CAATCTAGATCTCGACACGTGCCTATAAAACACATCCCCCTGCCCTGGCTCTTCATAGGTTGGGCTTTGCTTTCAGTAGCCAGAAGCAAGGCTGCTCTTT