VISDB Viral Integration Site DataBase

VIS ID

TVIS10013996

Fusion event

HBV-ARHGEF12 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

2397

Orient

+

Integrated sequence

TAGACCACCAAATGCCCCTATCCTATCAACACTTCCGGAGACTACTGTTGTTAGACGACGAGGCAGGTCCCCTAGAAGAAGAACTCCCTCGCCTCGCAGA| |CGAAGGTCTCAATCGCCGCGTCGCAGAAGATCTCAATCTCGGGAATCTCAATGTTAGTATTCCTTGGACTCATAAGGTGGGGAACTTTACTGGGCTTTAT

Chromosome

chr11

Cytoband

q23.3

Reference genome

Start

End

120210371/120339662 (Hg38)

Orient

-

Location type

Intronic

Fragile sites / regions

Target gene

miRNAs that regulate target gene

hsa-mir-21-5p ; hsa-mir-1225-3p ; hsa-mir-30c-5p ; hsa-mir-6077 ; hsa-mir-7-5p ; hsa-mir-1250-3p ; hsa-mir-660-5p ; hsa-mir-362-3p ; hsa-mir-329-3p

Nearest miRNA

hsa-mir-10392/Upstream/1026650; hsa-let-7a-2/Downstream/1760095;

Nearest TSS

Nearest CpG islands

None/Target, chr11-CpG: 30/Upstream/2722, chr11-CpG: 126/Downstream/171506

Nearest cancer related gene

ARHGEF12(TSG, No orient, 0)

Upstream sequence

GTATGTGGTATGGCTTTGTTTCGTAGAGTGTGCAGAACCACCAGGCCAGCTGTGTGAGTTAGAGTTCTTTCATTGTGGTGCTTCTGACTACAGAGTCTGT

Downstream sequence

CTGTCCTCAGTTGAAATCAGACTAGCTGGTTTTGGGCGTTGTTCTGTTTTGCAGTTTGTGGCAGGCGACACATGGCTGAACAAGATAAGGGTTTTATTCT