VISDB - VIS Detail

Expression analysis of TCGA samples

Basic Information

VIS ID

TVIS10002621

Fusion event

HBV-ELP2 integration

Validated

No

Detection method

HIVID

Data source

Curated

Sample type

Tumor

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

chr18

Cytoband

q12.2

Reference genome

GRCh37/hg19

Start

33737367/36157404 (Hg38)

End

33737367/36157404 (Hg38)

Location type

Intronic

Fragile sites / regions

FRA18A

Target gene

ELP2

miRNAs that regulate target gene

hsa-mir-124-3p ; hsa-mir-17-5p ; hsa-mir-3180-5p ; hsa-mir-6858-5p ; hsa-mir-1273e ; hsa-mir-4689 ; hsa-mir-1224-5p ; hsa-mir-3915 ; hsa-mir-525-5p ; hsa-mir-520a-5p ; hsa-mir-4751 ; hsa-mir-5004-5p ; hsa-mir-6847-5p ; hsa-mir-6859-5p ; hsa-mir-3916 ; hsa-mir-3125 ; hsa-mir-4693-5p ; hsa-mir-1257 ; hsa-mir-892a ; hsa-mir-4318 ; hsa-mir-7153-5p ; hsa-mir-146b-5p ; hsa-mir-146a-5p ; hsa-mir-302a-5p ; hsa-mir-335-5p ; hsa-mir-3925-5p ; hsa-mir-497-3p ; hsa-mir-1238-3p ; hsa-mir-670-3p ; hsa-mir-5006-3p ; hsa-mir-4755-5p ; hsa-mir-211-5p ; hsa-mir-204-5p ; hsa-mir-6734-3p ; hsa-mir-623 ; hsa-mir-6832-3p ; hsa-mir-5088-3p ; hsa-mir-4673 ; hsa-mir-4645-5p ; hsa-mir-129-5p ; hsa-mir-8055 ; hsa-mir-744-3p ; hsa-mir-4309 ; hsa-mir-3198 ; hsa-mir-6794-3p ; hsa-mir-4423-5p ; hsa-mir-6501-5p ; hsa-mir-4294 ; hsa-mir-1289 ; hsa-mir-8082 ; hsa-mir-4534 ; hsa-mir-1273f ; hsa-mir-4708-5p ; hsa-mir-6088 ; hsa-mir-4770 ; hsa-mir-143-3p ; hsa-mir-367-5p ; hsa-mir-1267 ; hsa-mir-1304-3p ; hsa-mir-4639-3p ; hsa-mir-6514-5p ; hsa-mir-3664-5p ; hsa-mir-7977 ; hsa-mir-3178 ; hsa-mir-5787 ; hsa-mir-4505 ; hsa-mir-24-3p ; hsa-mir-4284 ; hsa-mir-4486 ; hsa-mir-5693 ; hsa-mir-484 ; hsa-mir-3155b ; hsa-mir-3155a ; hsa-mir-510-5p ; hsa-mir-383-3p ; hsa-mir-6881-3p ; hsa-mir-6780a-3p ; hsa-mir-7111-3p ; hsa-mir-3925-3p ; hsa-mir-766-3p

Nearest miRNA

hsa-mir-1-2/Upstream/223262; hsa-mir-122/Downstream/1499731;

Nearest TSS

ENST00000575820/Upstream/2473; ENST00000543861/Downstream/1099;

Nearest CpG islands

None/Target, chr18-CpG: 67/Upstream/27131, chr18-CpG: 141/Downstream/29024

Upstream sequence

AGTCCTTCACTTAGAGTTGAGTCACGAATTTGGTTCTGAGCTCAAAAAGGATAAGTACCCTTTTGATAGGCAAAAAGAAGGGgagagagagggagagagc

Downstream sequence

aaagggaagagagagagagCAAAGGGGAGGCCAGAGCTATTGTGGTACCTGTTGGACTGAAGACTGGATAGAAGTGGGGAGAATGGGGAAAGTCCATGGT

Reference

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