VISDB - VIS Detail

Expression analysis of TCGA samples

Basic Information

VIS ID

TVIS10015984

Fusion event

HBV-IMPDH2 integration

Validated

Yes

Detection method

LM PCR

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

1801

Orient

-

Host Sequence

Chromosome

chr3

Cytoband

p21.31

Reference genome

GRCh37/hg19

Start

49065770/49028337 (Hg38)

End

49065770/49028337 (Hg38)

Orient

+

Location type

Intron

Target gene

IMPDH2

miRNAs that regulate target gene

hsa-mir-34a-5p ; hsa-mir-16-5p ; hsa-let-7b-5p ; hsa-mir-33b-5p ; hsa-mir-615-3p ; hsa-mir-324-3p ; hsa-mir-378a-5p ; hsa-mir-30b-5p ; hsa-mir-23b-3p ; hsa-mir-23a-3p ; hsa-mir-17-3p ; hsa-mir-218-5p

Nearest miRNA

hsa-mir-12127/Upstream/7628; hsa-let-7g/Downstream/71517;

Nearest TSS

ENST00000440867/Upstream/195; ENST00000607245/Downstream/136;

Nearest CpG islands

None/Target, chr3-CpG: 148/Upstream/5784, chr3-CpG: 46/Downstream/803

Upstream sequence

CGTCTTTCTCCATAATAAGACAATTATCACTTTATTGGATGTTCAGCAGTTTAAAAAATCCTCATTGCATATTTCACAAACATTTGAAATAACATTAGTA

Downstream sequence

AGACTACTACTAAGTGACAAGAAGCAGGACTGAATGCCTTTGGGGAAAGGCGATGGAGTCCTTGCTCCTTCCCCCACACCCCATGGGGCTCACCGCCATT

Reference

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