VISDB Viral Integration Site DataBase

VIS ID

TVIS10014216

Fusion event

HBV-RABGAP1L 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

Polymerase|large S protein|middle S protein|

Start

11

Orient

+

Integrated sequence

AATTCCACAAC| |CTTCCACCAAACTCTGCAAGATCCCAGAGTGAGAGGCCTGTATTTCCCTGCTGGTGGCTCCAGTTCAGGAACAGTAAACCCTGTTCTGACTACTGCCTCT

Chromosome

chr1

Cytoband

q25.1

Reference genome

Start

End

174350107/174380969 (Hg38)

Orient

-

Location type

Intronic

Fragile sites / regions

Target gene

miRNAs that regulate target gene

hsa-mir-1-3p ; hsa-mir-4504 ; hsa-mir-4778-3p ; hsa-mir-676-5p ; hsa-mir-4714-3p ; hsa-mir-34c-3p ; hsa-mir-7161-3p ; hsa-mir-3156-5p ; hsa-mir-6848-3p ; hsa-mir-6843-3p ; hsa-mir-3187-3p ; hsa-mir-4435 ; hsa-mir-588 ; hsa-mir-4701-5p ; hsa-mir-548s ; hsa-mir-378a-5p ; hsa-mir-6802-5p ; hsa-mir-6800-5p ; hsa-mir-6131 ; hsa-mir-4755-3p ; hsa-mir-6759-3p ; hsa-mir-3663-5p ; hsa-mir-3653-5p ; hsa-mir-372-5p ; hsa-mir-371a-5p ; hsa-mir-616-5p ; hsa-mir-373-5p ; hsa-mir-371b-5p ; hsa-mir-4781-3p ; hsa-mir-5089-5p ; hsa-mir-6807-5p ; hsa-mir-5589-5p ; hsa-mir-4731-5p ; hsa-mir-6778-3p ; hsa-mir-6506-5p ; hsa-mir-619-5p ; hsa-mir-150-5p ; hsa-mir-1224-3p ; hsa-mir-186-3p ; hsa-mir-520h ; hsa-mir-520g-3p ; hsa-mir-6504-3p ; hsa-mir-512-3p ; hsa-mir-576-3p ; hsa-mir-520e ; hsa-mir-520d-3p ; hsa-mir-520c-3p ; hsa-mir-520b ; hsa-mir-520a-3p ; hsa-mir-373-3p ; hsa-mir-372-3p ; hsa-mir-302e ; hsa-mir-302d-3p ; hsa-mir-302c-3p ; hsa-mir-302b-3p ; hsa-mir-302a-3p ; hsa-mir-93-5p ; hsa-mir-526b-3p ; hsa-mir-519d-3p ; hsa-mir-20b-5p ; hsa-mir-20a-5p ; hsa-mir-17-5p ; hsa-mir-106b-5p ; hsa-mir-106a-5p ; hsa-mir-1297 ; hsa-mir-1343-3p ; hsa-mir-1976 ; hsa-mir-23a-5p ; hsa-mir-23b-5p ; hsa-mir-26a-5p ; hsa-mir-26b-5p ; hsa-mir-4279 ; hsa-mir-4465 ; hsa-mir-4722-3p ; hsa-mir-4740-3p ; hsa-mir-6513-3p ; hsa-mir-660-3p ; hsa-mir-6727-3p ; hsa-mir-6742-3p ; hsa-mir-6747-3p ; hsa-mir-6783-3p ; hsa-mir-6791-3p ; hsa-mir-6829-3p ; hsa-mir-6836-3p ; hsa-mir-6852-5p ; hsa-mir-8062 ; hsa-mir-939-3p

Nearest miRNA

hsa-mir-101-1/Upstream/2236325; hsa-mir-1182/Downstream/1587401;

Nearest TSS

Nearest CpG islands

None/Target, chr1-CpG: 111/Upstream/221060, chr1-CpG: 121/Downstream/618384

Upstream sequence

attgtgatgttagggtgtcaattttggatctctcctgctttctcttgtgggcatttagtgctataaatttccctctacacactgctttgaatgcgtccca

Downstream sequence

gagattctggtatgtggtgtctttgttctcgttggtttcaaagaacatctttatttctgccttcatttcgttatgtacccagtagtcattcaggagcagg