VISDB Viral Integration Site DataBase

VIS ID

TVIS10007543

Fusion event

HBV-RPH3A 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|

Start

1958

Orient

+

Integrated sequence

CTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGAATTTGGAGCTACTGTGGAGTTACTCTCGTTTTT| |GCCTTCTGACTTCTTTCCTTCAGTACGAGATCTTCTAGATACCGCCTCAGCTCTGTATCGGGAAGCCTTAGAGTCTCCTGAGCATTGTTCACCTCACCAT

Chromosome

chr12

Cytoband

q24.13

Reference genome

Start

End

113063862/112626058 (Hg38)

Orient

+

Location type

Intronic

Fragile sites / regions

FRA12E ; FRA12D

Target gene

miRNAs that regulate target gene

hsa-mir-106a-5p ; hsa-mir-7106-5p ; hsa-mir-6739-5p ; hsa-mir-6733-5p ; hsa-mir-3153 ; hsa-mir-765 ; hsa-mir-6133 ; hsa-mir-6130 ; hsa-mir-6129 ; hsa-mir-6127 ; hsa-mir-4510 ; hsa-mir-4419a ; hsa-mir-4784 ; hsa-mir-3150b-3p ; hsa-mir-4739 ; hsa-mir-4756-5p ; hsa-mir-1321 ; hsa-mir-6873-5p ; hsa-mir-5197-3p ; hsa-mir-574-5p ; hsa-mir-493-5p ; hsa-mir-4666a-5p ; hsa-mir-6867-5p ; hsa-mir-3177-5p ; hsa-mir-124-5p ; hsa-mir-3650 ; hsa-mir-4455

Nearest miRNA

hsa-let-7i/Upstream/462737; hsa-mir-1178/Downstream/68976;

Nearest TSS

Nearest CpG islands

None/Target, chr12-CpG: 104/Upstream/50333, chr12-CpG: 37/Downstream/312322

Nearby gene

PTPN11(-116145) ; RPH3A(+165687) ;

Upstream sequence

aggattccctatttaataaatggtgctgggaaaactggctagccatatgtagaaagctgaaactggatcccttccttacaccttatacaaaaatcaattc

Downstream sequence

aagatggattaaagatttaaacgttagacctaaaaccataaaaaccctagaagaaaacctaggcattaccattcaggacataggcgtgggcaaggacttc