VISDB Viral Integration Site DataBase

VIS ID

TVIS10007507

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

precore/core protein|Core and e antigen|

Start

1958

Orient

+

Integrated sequence

CTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGAATTTGGAGCTACTGTGGAGTTACTCTCGTTTTT| |GCCTTCTGACTTCTTTCCTTCAGTACGAGATCTTCTAGATACCGCCTCAGCTCTGTATCGGGAAGCCTTAGAGTCTCCTGAGCATTGTTCACCTCACCAT

Chromosome

chr1

Cytoband

q25.1

Reference genome

Start

End

174203468/174234330 (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/2089686; hsa-mir-1182/Downstream/1734040;

Nearest TSS

Nearest CpG islands

None/Target, chr1-CpG: 111/Upstream/74421, chr1-CpG: 121/Downstream/765023

Upstream sequence

atggtagtttcttttgctgtgcagaagctctttagtttaattagatcccatttgtcaattttgtcttttgttgccattgcttttggtgttttggacatga

Downstream sequence

agtccttgcccacgcctatgtcctgaatggtaatgcctaggttttcttctagggtttttatggttttaggtctaacgtttaaatctttaatccatcttga