VISDB - VIS Detail

Expression analysis of TCGA samples

Basic Information

VIS ID

TVIS10006236

Fusion event

HBV-DLC1 integration

Validated

No

Detection method

PCR and Ultra-deep sequencing

Data source

Curated

Sample type

Tumor

Disease

Hepatocellular carcinoma (HCC)

Quality evaluation

Normal

Reported year

2018

PubMed ID

29861854

Virus Sequence

Virus name

HBV

Reference genome

AP011098

Start

1082

Orient

+

Integrated sequence

AAGTATGTCAAAGAATTGTGGGTCTTTTGGGCTTTGCTGCCCCTTTTACACAATGTGGCTATCCTGCCTTGATGCCTTTATATGCATGTATACAATCTAA| |GCAGGCTTTCACTTTCTCGCCAACTTACAAGGCCTTTCTGTGTAAACAATATCTGCACCTTTACCCCGTTGCCCGGCAACGGTCAGGTCTCTGCCAAGTG

Host Sequence

Chromosome

chr8

Cytoband

p22

Reference genome

GRCh37/hg19

Start

13387493/13529984 (Hg38)

End

13387493/13529984 (Hg38)

Orient

+

Location type

Intronic

Target gene

DLC1

miRNAs that regulate target gene

hsa-let-7b-5p ; hsa-mir-186-5p ; hsa-mir-16-5p ; hsa-let-7d-5p ; hsa-mir-877-3p ; hsa-mir-30c-5p ; hsa-mir-20a-5p ; hsa-mir-200a-3p ; hsa-mir-200b-3p ; hsa-mir-200c-3p ; hsa-let-7a-2-3p ; hsa-let-7g-3p ; hsa-mir-5683 ; hsa-mir-1273e ; hsa-mir-4668-5p ; hsa-mir-3148 ; hsa-mir-548t-5p ; hsa-mir-548az-5p ; hsa-mir-6828-5p ; hsa-mir-5688 ; hsa-mir-646 ; hsa-mir-495-3p ; hsa-mir-548c-3p ; hsa-mir-8065 ; hsa-mir-203a-3p ; hsa-mir-3163 ; hsa-mir-4496 ; hsa-mir-5680 ; hsa-mir-641 ; hsa-mir-3617-5p ; hsa-mir-340-5p ; hsa-mir-4450 ; hsa-mir-6722-3p ; hsa-mir-1909-3p ; hsa-mir-6836-5p ; hsa-mir-6132 ; hsa-mir-1205 ; hsa-mir-511-3p ; hsa-mir-5590-3p ; hsa-mir-142-5p ; hsa-mir-576-3p ; hsa-mir-4325 ; hsa-mir-374b-5p ; hsa-mir-374a-5p ; hsa-mir-4671-3p ; hsa-mir-633 ; hsa-mir-3976 ; hsa-mir-2278 ; hsa-mir-301a-3p ; hsa-mir-454-3p ; hsa-mir-301b-3p ; hsa-mir-130b-3p ; hsa-mir-3666 ; hsa-mir-130a-3p ; hsa-mir-4295 ; hsa-mir-7152-5p ; hsa-mir-3074-5p ; hsa-mir-6754-3p ; hsa-mir-197-3p ; hsa-mir-412-3p ; hsa-mir-1266-3p ; hsa-mir-3140-5p ; hsa-mir-6823-5p ; hsa-mir-4733-3p ; hsa-mir-1226-3p ; hsa-mir-6753-5p ; hsa-mir-578 ; hsa-mir-4659b-3p ; hsa-mir-4659a-3p ; hsa-mir-6875-3p ; hsa-mir-744-3p ; hsa-mir-29b-2-5p ; hsa-mir-6839-3p ; hsa-mir-4507 ; hsa-mir-3940-5p ; hsa-mir-6740-5p ; hsa-mir-5087 ; hsa-mir-4778-3p ; hsa-mir-483-3p ; hsa-mir-429

Nearest miRNA

hsa-mir-124-1/Upstream/802680; hsa-mir-10400/Downstream/1323454;

Nearest TSS

ENST00000518652/Upstream/14326; ENST00000297324/Downstream/36859;

Nearest CpG islands

None/Target, chr8-CpG: 109/Upstream/253193, chr8-CpG: 87/Downstream/1706744

Nearest cancer related gene

DLC1(TSG, No orient, 0)

Junction sequence

CTGT

* 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).