VISDB - VIS Detail

Expression analysis of TCGA samples

Basic Information

VIS ID

TVIS10015973

Fusion event

HBV-CUL4A integration

Validated

Yes

Detection method

Alu PCR and sequencing

Data source

Curated

Sample type

Nontumor

Disease

Hepatocellular carcinoma (HCC)

Quality evaluation

Normal

Reported year

2012

PubMed ID

22962577

Virus Sequence

Virus name

HBV

Reference genome

Not given

Start

1822

Orient

-

Host Sequence

Chromosome

chr13

Cytoband

q34

Reference genome

GRCh37/hg19

Start

113920105/113265791 (Hg38)

End

113920105/113265791 (Hg38)

Orient

-

Location type

Intronic

Target gene

CUL4A

miRNAs that regulate target gene

hsa-mir-103a-3p ; hsa-mir-16-5p ; hsa-mir-615-3p ; hsa-mir-193b-3p ; hsa-mir-23b-3p ; hsa-mir-106a-5p ; hsa-mir-18a-5p ; hsa-mir-6501-3p ; hsa-mir-196a-3p ; hsa-mir-4696 ; hsa-mir-6774-5p ; hsa-mir-635 ; hsa-mir-4538 ; hsa-mir-4453 ; hsa-mir-451b ; hsa-mir-4432 ; hsa-mir-9-5p ; hsa-mir-137

Nearest miRNA

hsa-mir-1267/Upstream/2792; hsa-mir-4502/Downstream/978714;

Nearest TSS

ENST00000623511/Upstream/19835; ENST00000471046/Downstream/31450;

Nearest CpG islands

None/Target, chr13-CpG: 551/Upstream/2617, chr13-CpG: 96/Downstream/30990

Nearby gene

CUL4A

Nearest cancer related gene

CUL4A(OG, No orient, 0)

Upstream sequence

CGCTTGTGTCCCCATACCTACAATGGAGATGCTTTCTGAAGATGGTCAGAACATTCCGATTGTCAGATTTTATGGACAacccccagtggggtggctaaag

Downstream sequence

tgaaaaagactgacactaccaagtgttgacaaagatgtggaagaatctgaactcaaacactgctggtgggaatgtaaaatggtagcttcactttgaaaaa

Reference

Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.