VISDB Viral Integration Site DataBase

VIS ID

TVIS10008237

Fusion event

HBV-RAPH1 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

X protein|precore/core protein|

Start

1827

Orient

-

Integrated sequence

AAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTT| |CACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGAAT

Chromosome

chr2

Cytoband

q33.2

Reference genome

Start

End

204324856/203460133 (Hg38)

Orient

-

Location type

Intronic

Fragile sites / regions

Target gene

miRNAs that regulate target gene

hsa-mir-374b-5p ; hsa-mir-148b-3p ; hsa-mir-21-5p ; hsa-mir-324-5p ; hsa-mir-186-5p ; hsa-mir-185-5p ; hsa-mir-155-5p ; hsa-mir-203a-3p ; hsa-mir-770-5p ; hsa-mir-432-5p ; hsa-mir-382-5p ; hsa-mir-1277-5p ; hsa-mir-190a-3p ; hsa-mir-1251-3p ; hsa-mir-7705 ; hsa-mir-208b-5p ; hsa-mir-208a-5p ; hsa-mir-557 ; hsa-mir-507 ; hsa-mir-4524b-5p ; hsa-mir-4524a-5p ; hsa-mir-545-3p ; hsa-mir-646 ; hsa-mir-503-5p ; hsa-mir-6838-5p ; hsa-mir-497-5p ; hsa-mir-424-5p ; hsa-mir-195-5p ; hsa-mir-16-5p ; hsa-mir-15b-5p ; hsa-mir-15a-5p ; hsa-mir-5582-3p ; hsa-mir-548f-3p ; hsa-mir-548e-3p ; hsa-mir-548az-3p ; hsa-mir-548ar-3p ; hsa-mir-548a-3p ; hsa-mir-3613-3p ; hsa-mir-548z ; hsa-mir-548h-3p ; hsa-mir-548d-3p ; hsa-mir-548bb-3p ; hsa-mir-548ac ; hsa-let-7g-3p ; hsa-let-7a-2-3p ; hsa-mir-4789-5p ; hsa-mir-3941 ; hsa-mir-5011-5p ; hsa-mir-5580-3p ; hsa-mir-603 ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-8485

Nearest miRNA

hsa-mir-10b/Upstream/14327022; hsa-mir-1244-1/Downstream/3323101;

Nearest TSS

Nearest CpG islands

None/Target, chr2-CpG: 135/Upstream/131472, chr2-CpG: 65/Downstream/74634

Upstream sequence

CCAAAATAAAATATCCGTATTTTGTTAGTATTCATTAGAGTTGCATGAAAGACATGAAACTTTGTGAAGTAGTTAACCTCAGAACCACATAATCTTAACC

Downstream sequence

GACATTTTAGCAcctaaaaattatctggtattccctaatttttcaaacaaagaaatatgccttaattatgttaatgacataaccaaggtcacacagctga