VISDB Viral Integration Site DataBase

VIS ID

TVIS10012201

Fusion event

HBV-RTN3 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

1828

Orient

+

Integrated sequence

AGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTTC| |ACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGAATT

Chromosome

chr11

Cytoband

q13.1

Reference genome

Start

End

63524812/63757340 (Hg38)

Orient

+

Location type

Intronic

Fragile sites / regions

Target gene

miRNAs that regulate target gene

hsa-mir-155-5p ; hsa-mir-760 ; hsa-mir-484 ; hsa-mir-378a-3p ; hsa-mir-106a-5p ; hsa-mir-17-5p ; hsa-mir-205-5p ; hsa-mir-6515-5p ; hsa-mir-4443 ; hsa-mir-4725-3p ; hsa-mir-6780b-5p ; hsa-mir-4271 ; hsa-mir-6797-5p ; hsa-mir-1249-5p ; hsa-mir-6783-5p ; hsa-mir-671-5p ; hsa-mir-4511 ; hsa-mir-33b-5p ; hsa-mir-33a-5p ; hsa-mir-4684-3p ; hsa-mir-4694-5p ; hsa-mir-367-5p ; hsa-mir-802 ; hsa-mir-522-3p ; hsa-mir-224-3p ; hsa-mir-4694-3p ; hsa-mir-335-3p ; hsa-mir-4775 ; hsa-mir-5692a ; hsa-mir-590-3p ; hsa-mir-6793-3p

Nearest miRNA

hsa-mir-129-2/Upstream/964569; hsa-let-7a-2/Downstream/584509;

Nearest TSS

Nearest CpG islands

None/Target, chr11-CpG: 30/Upstream/75426, chr11-CpG: 188/Downstream/5076

Upstream sequence

TTGACAAACATCTTTATGACTCCCTATATCAAAGAGTTGTTTTCTTCTTTTTACTTTTTTTCCCCATACCTAGAGGACAGTATTTTTTTTCTTTTTTCtt

Downstream sequence

ttttctttcttttttgttttgctttctagagacagggtctcactctgtcacccaggttgaagtgcagtggcacaagctgaaagctcactgcagccttgac