VISDB Viral Integration Site DataBase

VIS ID

TVIS10015235

Fusion event

HBV-RALGAPA1 integration

Validated

No

Detection method

WGS

Data source

Curated

Sample type

Disease

Hepatocellular carcinoma (HCC)

Quality evaluation

Normal

Reported year

2012

PubMed ID

Virus name

HBV

Reference genome

Region type

HBVgp3 X protein;HBVgp4 precore/core protein

Start

1820

Orient

-

Integrated sequence

TTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCA| |ACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTAT

Chromosome

chr14

Cytoband

q13.2

Reference genome

Start

End

36016828/35547622 (Hg38)

Orient

+

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-17-5p ; hsa-mir-4659b-3p ; hsa-mir-4659a-3p ; hsa-mir-6875-3p ; hsa-mir-6868-3p ; hsa-mir-2355-5p ; hsa-mir-361-5p ; hsa-mir-627-3p ; hsa-mir-4778-3p ; hsa-mir-1248 ; hsa-mir-1237-3p ; hsa-mir-2115-3p ; hsa-mir-3074-3p ; hsa-mir-4282

Nearest miRNA

hsa-mir-208a/Upstream/4532880; hsa-mir-1185-1/Downstream/1404687;

Nearest TSS

Nearest CpG islands

None/Target, chr14-CpG: 35/Upstream/11815, chr14-CpG: 62/Downstream/260950

Upstream sequence

CTTGACTATAGGATACACAAGTGTTATTCATATCTCTTTTAATATAATCTGACATTTTATCGGACATTCTCCATTATTAAACAAGAAAATTGCCAGATAT

Downstream sequence

ACTTAATTAGTTATTTTGCTGTTCATTAATTTAATATTTCTCTTTTACCATCTTTTTTAATGCCAAACTGGGTAATTTTGGATAGTGTCAATCCATTAAA