VISDB - VIS Detail

Expression analysis of TCGA samples

Basic Information

VIS ID

TVIS10005093

Fusion event

HBV-NAV2 integration

Validated

No

Detection method

PCR and Ultra-deep sequencing

Data source

Curated

Sample type

Nontumor

Disease

Hepatocellular carcinoma (HCC)

Quality evaluation

Normal

Reported year

2018

PubMed ID

29861854

Virus Sequence

Virus name

HBV

Reference genome

AP011098

Start

1843

Orient

-

Integrated sequence

GGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGTTCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATC| |TCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATTGACCCGTATAAAGAATTTGGAGCTTCTGTGGAGT

Host Sequence

Chromosome

chr11

Cytoband

p15.1

Reference genome

GRCh37/hg19

Start

19932043/19910497 (Hg38)

End

19932043/19910497 (Hg38)

Orient

+

Location type

Intron

Fragile sites / regions

FRA11C ; FRA11I

Target gene

NAV2

miRNAs that regulate target gene

hsa-mir-663a ; hsa-mir-98-5p ; hsa-mir-16-5p ; hsa-mir-6825-5p ; hsa-mir-7106-5p ; hsa-mir-765 ; hsa-mir-766-5p ; hsa-mir-3202 ; hsa-mir-3179 ; hsa-mir-6876-5p ; hsa-mir-4779 ; hsa-mir-4476 ; hsa-mir-6856-5p ; hsa-mir-6758-5p ; hsa-mir-6883-5p ; hsa-mir-6785-5p ; hsa-mir-4728-5p ; hsa-mir-149-3p ; hsa-mir-6797-5p ; hsa-mir-1249-5p ; hsa-mir-6133 ; hsa-mir-6130 ; hsa-mir-6129 ; hsa-mir-6127 ; hsa-mir-4510 ; hsa-mir-4419a ; hsa-mir-4756-5p ; hsa-mir-4739 ; hsa-mir-1321 ; hsa-mir-6835-3p ; hsa-mir-4668-5p ; hsa-mir-1298-5p ; hsa-mir-664a-3p ; hsa-mir-548z ; hsa-mir-548h-3p ; hsa-mir-548d-3p ; hsa-mir-548bb-3p ; hsa-mir-548ac ; hsa-mir-6809-3p ; hsa-mir-6833-3p ; hsa-mir-4768-5p ; hsa-mir-6759-5p ; hsa-mir-4753-3p ; hsa-mir-6873-3p ; hsa-mir-2117 ; hsa-mir-6793-5p ; hsa-mir-6748-5p ; hsa-mir-597-3p ; hsa-mir-23b-5p ; hsa-mir-23a-5p ; hsa-mir-130b-5p ; hsa-mir-6817-3p ; hsa-mir-7110-3p ; hsa-mir-299-3p ; hsa-mir-6818-3p ; hsa-mir-6888-3p ; hsa-mir-593-3p ; hsa-mir-6895-3p ; hsa-mir-3120-5p ; hsa-mir-335-3p ; hsa-mir-664b-3p ; hsa-mir-5696 ; hsa-mir-579-3p ; hsa-mir-627-3p

Nearest miRNA

hsa-mir-210/Upstream/150414; hsa-let-7a-2/Downstream/3508608;

Nearest TSS

ENST00000527297/Upstream/132695; ENST00000528008/Downstream/21268;

Nearest CpG islands

None/Target, chr11-CpG: 30/Upstream/133094, chr11-CpG: 96/Downstream/245565

Junction sequence

ATGC

* Color: Human Sequence / Virus Sequence / Overlapped sequence / Unknown sequence

Reference

Tu, T., et al. Hepatitis B Virus DNA Integration Occurs Early in the Viral Life Cycle in an In Vitro Infection Model via Sodium Taurocholate Cotransporting Polypeptide-Dependent Uptake of Enveloped Virus Particles. J Virol ,2018,92(11).