VISDB Viral Integration Site DataBase

VIS ID

TVIS10012684

Fusion event

HBV-LIN52 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|

Start

1741

Orient

+

Integrated sequence

GCCCAAGGTCTTACATAAGAGGACTCTTGGACTCTCAGCAATGTCAACGACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAG| |TTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAAT

Chromosome

chr14

Cytoband

q24.3

Reference genome

Start

End

74567159/74100456 (Hg38)

Orient

+

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-let-7d-5p ; hsa-mir-202-3p ; hsa-mir-5585-3p ; hsa-mir-6744-5p ; hsa-mir-6131 ; hsa-mir-133a-5p ; hsa-mir-4299 ; hsa-mir-512-3p ; hsa-mir-1265 ; hsa-mir-2392 ; hsa-mir-323a-3p ; hsa-mir-519c-3p ; hsa-mir-519b-3p ; hsa-mir-519a-3p ; hsa-mir-583 ; hsa-mir-373-3p ; hsa-mir-302a-3p ; hsa-mir-372-3p ; hsa-mir-520e ; hsa-mir-520a-3p ; hsa-mir-302b-3p ; hsa-mir-520b ; hsa-mir-302c-3p ; hsa-mir-520c-3p ; hsa-mir-520d-3p ; hsa-mir-302d-3p ; hsa-mir-302e ; hsa-mir-138-5p ; hsa-mir-487a-3p ; hsa-mir-154-3p ; hsa-mir-676-5p ; hsa-mir-6515-3p ; hsa-mir-603 ; hsa-mir-8485 ; hsa-mir-3591-5p ; hsa-mir-4783-5p ; hsa-mir-5698 ; hsa-mir-143-5p ; hsa-mir-4430 ; hsa-mir-3652 ; hsa-mir-122-5p ; hsa-mir-504-3p ; hsa-mir-3135b ; hsa-mir-6499-3p ; hsa-mir-6741-3p ; hsa-mir-5693 ; hsa-mir-146a-5p ; hsa-mir-4251 ; hsa-mir-4303 ; hsa-mir-4329 ; hsa-mir-4524a-3p ; hsa-mir-4762-3p ; hsa-mir-6761-5p

Nearest miRNA

hsa-mir-208a/Upstream/341637; hsa-mir-1185-1/Downstream/379677;

Nearest TSS

Nearest CpG islands

None/Target, chr14-CpG: 35/Upstream/15453, chr14-CpG: 29/Downstream/117282

Upstream sequence

tagtgcagtggtgccatcatggctcactacagccttgacctcctggtgatcctcccatcccagcctcctgagtagctgggactacaggcatacaccacca

Downstream sequence

tacccagctaattttattttatttatattttttttttgagaaggaatctcactttgttgcctaggctggagtgcagtggtacaatctcagctgtctgcaa