VISDB - VIS Detail

Expression analysis of TCGA samples

Basic Information

VIS ID

TVIS10004361

Fusion event

HBV-RRAGD integration

Validated

No

Detection method

HIVID

Data source

Curated

Sample type

Nontumor

Disease

Hepatocellular carcinoma (HCC)

Quality evaluation

Normal

Reported year

2016

PubMed ID

27703150

Virus Sequence

Virus name

HBV

Reference genome

AF090842.1;AB033554.1;AB014381.1;M32138.1;AB032431.1;AB036910.1;AB064310;AY090454.1

Host Sequence

Chromosome

chr6

Cytoband

q15

Reference genome

GRCh37/hg19

Start

90114558/89404839 (Hg38)

End

90114558/89404839 (Hg38)

Location type

Intronic

Fragile sites / regions

FRA6G

Target gene

RRAGD

miRNAs that regulate target gene

hsa-mir-30b-5p ; hsa-mir-484 ; hsa-mir-23b-3p ; hsa-let-7c-3p ; hsa-mir-340-5p ; hsa-mir-377-5p ; hsa-mir-548aw ; hsa-mir-6783-3p ; hsa-mir-1343-3p ; hsa-mir-548au-3p ; hsa-mir-1468-3p ; hsa-mir-494-3p ; hsa-mir-6868-5p ; hsa-mir-8073 ; hsa-mir-221-5p ; hsa-mir-4277 ; hsa-mir-7849-3p ; hsa-mir-519c-3p ; hsa-mir-519b-3p ; hsa-mir-519a-3p ; hsa-mir-548t-5p ; hsa-mir-548az-5p ; hsa-mir-93-5p ; hsa-mir-519d-3p ; hsa-mir-20a-5p ; hsa-mir-17-5p ; hsa-mir-106a-5p ; hsa-mir-106b-5p ; hsa-mir-526b-3p ; hsa-mir-20b-5p ; hsa-mir-3666 ; hsa-mir-301b-3p ; hsa-mir-130b-3p ; hsa-mir-130a-3p ; hsa-mir-454-3p ; hsa-mir-4295 ; hsa-mir-301a-3p ; hsa-mir-19b-3p ; hsa-mir-19a-3p ; hsa-mir-34c-5p ; hsa-mir-449a ; hsa-mir-449b-5p ; hsa-mir-34a-5p ; hsa-mir-744-3p ; hsa-mir-4423-5p ; hsa-mir-6501-5p ; hsa-mir-566 ; hsa-mir-6789-3p ; hsa-mir-5693 ; hsa-mir-1253 ; hsa-mir-3163 ; hsa-mir-4311 ; hsa-mir-335-5p ; hsa-mir-1229-3p ; hsa-mir-548x-5p ; hsa-mir-548g-5p ; hsa-mir-548f-5p ; hsa-mir-548aj-5p ; hsa-mir-342-3p

Nearest miRNA

hsa-mir-10398/Upstream/10865530; hsa-mir-1202/Downstream/907903;

Nearest TSS

ENST00000381078/Upstream/51991; ENST00000520458/Downstream/6666;

Nearest CpG islands

None/Target, chr6-CpG: 120/Upstream/51672, chr6-CpG: 154/Downstream/6316

Upstream sequence

ctaattttttttatttttagtagagacagggtttcactgtattagccaggatggtctcgatctcctgacctcgtgatccacctgcctcagcctcccaaag

Downstream sequence

AATGGGAATTGAAAGCCAATGTTCACCTCCTTACACAGCTCTTAAGGTTGGCCCTGCCATCCTAAGCTCAAGGATCTCTACAGGAAGAATGAGATATCAT

Reference

Zhao, L. H., et al.Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nat Commun ,2016,7: 12992.