VISDB Viral Integration Site DataBase

VIS ID

TVIS10010691

Fusion event

HBV-RTTN 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

1679

Orient

+

Integrated sequence

TGTGCACTTCGCTTCACCTCTGCACGTCGCATGGAGACCACCGTGAACGCCCACCAAATATTGCCCAAGGTCTTACATAAGAGGACTCTTGGACTCTCAG| |CAATGTCAACGACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGG

Chromosome

chr18

Cytoband

q22.2

Reference genome

Start

End

67836759/70169523 (Hg38)

Orient

+

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-17-5p ; hsa-mir-628-5p ; hsa-mir-6739-5p ; hsa-mir-6733-5p ; hsa-mir-3153 ; hsa-mir-4668-5p ; hsa-mir-4766-5p ; hsa-mir-8062 ; hsa-mir-1278 ; hsa-mir-495-5p ; hsa-mir-548ah-5p ; hsa-mir-3609 ; hsa-mir-6836-3p ; hsa-mir-6829-3p ; hsa-mir-6791-3p ; hsa-mir-6778-3p ; hsa-mir-4695-3p ; hsa-mir-4772-3p ; hsa-mir-7113-3p ; hsa-mir-6787-3p ; hsa-mir-1304-3p ; hsa-mir-6747-3p ; hsa-mir-6752-3p ; hsa-mir-6736-3p ; hsa-mir-6890-3p ; hsa-mir-7641 ; hsa-mir-3622b-5p ; hsa-mir-4726-3p ; hsa-mir-6764-5p ; hsa-mir-1915-3p ; hsa-mir-6840-3p ; hsa-mir-8055 ; hsa-mir-129-5p ; hsa-mir-6864-3p ; hsa-mir-3672 ; hsa-mir-431-5p ; hsa-mir-6879-3p ; hsa-mir-1251-3p ; hsa-mir-924 ; hsa-mir-4524a-3p ; hsa-mir-500b-3p ; hsa-mir-5007-5p ; hsa-mir-4797-5p ; hsa-mir-153-5p ; hsa-mir-1976 ; hsa-mir-20a-3p ; hsa-mir-4326 ; hsa-mir-4691-5p ; hsa-mir-5193 ; hsa-mir-660-3p ; hsa-mir-6749-3p ; hsa-mir-6792-3p

Nearest miRNA

hsa-mir-1-2/Upstream/3087837; hsa-mir-548av/Downstream/2683798;

Nearest TSS

Nearest CpG islands

None/Target, chr18-CpG: 67/Upstream/699511, chr18-CpG: 80/Downstream/35762

Upstream sequence

TACATGTACGCAAATCTCCCCAATAACCTGATAAACTGAAGACAAGAACACTTCCCCATCCCATAGCTGAACATGACAGAGCTTATTAATGACATATTAA

Downstream sequence

TAACACGAAATCAAGTATAGCTATAGATTGATTTGAACAGAAACGAATTTTTTTCTTTGGTTTTGTCTTTTAGAGGGGATAGTGGAAATCCAATATAATA