VISDB - VIS Detail

Expression analysis of TCGA samples

Basic Information

VIS ID

TVIS10016449

Fusion event

HBV-NUDT7 integration

Validated

No

Detection method

WGS

Data source

Curated

Sample type

Tumor

Disease

Hepatocellular carcinoma (HCC)

Quality evaluation

Good

Reported year

2012

PubMed ID

22267523

Virus Sequence

Virus name

HBV

Reference genome

NC_003977

Start

809

End

844

Orient

-

Integrated sequence

TTTCTTTTGTCTTTGGGTATACATTTAAACCCTAAC

Host Sequence

Chromosome

chr16

Cytoband

q23.1

Reference genome

GRCh37/hg19

Start

77762443/77728546 (Hg38)

End

77762478/77728581 (Hg38)

Orient

+

Location type

Intronic

Target gene

NUDT7

miRNAs that regulate target gene

hsa-mir-6513-5p ; hsa-mir-887-5p ; hsa-mir-3913-5p ; hsa-mir-3122 ; hsa-mir-450a-1-3p ; hsa-mir-6780a-5p ; hsa-mir-6779-5p ; hsa-mir-3689c ; hsa-mir-3689b-3p ; hsa-mir-3689a-3p ; hsa-mir-30b-3p ; hsa-mir-1273h-5p ; hsa-mir-6788-5p ; hsa-mir-30c-2-3p ; hsa-mir-30c-1-3p ; hsa-mir-6514-3p ; hsa-mir-24-3p ; hsa-mir-4284 ; hsa-mir-6847-3p ; hsa-mir-6811-3p ; hsa-mir-214-5p ; hsa-mir-548s ; hsa-mir-3926 ; hsa-mir-4470 ; hsa-mir-4786-5p ; hsa-mir-3190-5p ; hsa-mir-6849-3p ; hsa-mir-942-3p ; hsa-mir-1273d ; hsa-mir-548as-3p ; hsa-mir-548z ; hsa-mir-548h-3p ; hsa-mir-548d-3p ; hsa-mir-548bb-3p ; hsa-mir-548ac ; hsa-mir-5006-3p ; hsa-mir-4755-5p ; hsa-mir-7641 ; hsa-mir-211-5p ; hsa-mir-204-5p ; hsa-mir-623 ; hsa-mir-6780b-3p ; hsa-mir-4780 ; hsa-mir-3938 ; hsa-mir-4748 ; hsa-mir-4464 ; hsa-mir-4762-3p ; hsa-mir-3192-3p ; hsa-mir-3171 ; hsa-mir-194-5p ; hsa-mir-4502 ; hsa-mir-627-3p ; hsa-mir-411-3p ; hsa-mir-379-3p ; hsa-mir-590-3p ; hsa-mir-1827 ; hsa-mir-4649-3p ; hsa-mir-4722-5p ; hsa-mir-4768-3p ; hsa-mir-4804-3p ; hsa-mir-6808-5p ; hsa-mir-6893-5p ; hsa-mir-7162-3p ; hsa-mir-940

Nearest miRNA

hsa-mir-1225/Upstream/859527; hsa-mir-11401/Downstream/3656437;

Nearest TSS

ENST00000527434/Upstream/6001; ENST00000564031/Downstream/8824;

Nearest CpG islands

None/Target, chr16-CpG: 29/Upstream/5762, chr16-CpG: 65/Downstream/59897

Upstream sequence

acgtgcctgtaatcccagctacttgggaggctgaggcaggagaatcacttgaacccaggaggcggagtttgcagtgagccgagattgtgccactgccctc

Downstream sequence

aaaatgggcctgaaaacagcgcctcatgtgcaaggttgttctgagcctgaaagagatctgtaaaacgcccagcacggctgctggcatgccatagtgctGC

Target sequence

gtaaatctcttaatcacctcggttttctcatccct

Reference

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