VISDB Viral Integration Site DataBase

VIS ID

TVIS10014898

Fusion event

HBV-chrX 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

HBVgp4 precore/core protein

Start

2062

Orient

+

Integrated sequence

TCTGACTTCTTTCCTTCAGTACGAGATCTTCTAGATACCGCCTCAGCTCTGTATCGGGAAGCCTTAGAGTCTCCTGAGCATTGTTCACCTCACCATACTG| |CACTCAGGCAAGCAATTCTTTGCTGGGGGGAACTAATGACTCTAGCTACCTGGGTGGGTGTTAATTTGGAAGATCCAGCGTCTAGAGACCTAGTAGTCAG

Chromosome

chrX

Reference genome

Start

End

14603891/14603891 (Hg38)

Orient

-

Location type

Intronic

Target gene

GLRA2 ; GLRA3

miRNAs that regulate target gene

hsa-mir-335-5p ; hsa-mir-4662a-5p ; hsa-mir-6767-3p ; hsa-mir-330-3p ; hsa-mir-3651 ; hsa-mir-6733-5p ; hsa-mir-6739-5p ; hsa-mir-3153 ; hsa-mir-6077 ; hsa-mir-6088 ; hsa-mir-4770 ; hsa-mir-143-3p ; hsa-mir-5681a ; hsa-mir-9500 ; hsa-mir-5584-5p ; hsa-mir-6873-5p ; hsa-mir-6758-5p ; hsa-mir-6856-5p ; hsa-mir-574-5p ; hsa-mir-6867-5p ; hsa-mir-223-5p ; hsa-mir-7705 ; hsa-mir-574-5p ; hsa-mir-6818-5p ; hsa-mir-6867-5p ; hsa-mir-4311 ; hsa-mir-147a ; hsa-mir-3616-5p ; hsa-mir-4670-3p ; hsa-mir-5010-3p ; hsa-mir-573 ; hsa-mir-6818-5p

Nearest miRNA

hsa-mir-3690-1/Upstream/1013545; hsa-let-7f-2/Downstream/2023121;

Nearest CpG islands

None/Target, chrX-CpG: 62/Upstream/573701, chrX-CpG: 76/Downstream/268978

Upstream sequence

GAAAGATCTTTCAGCAATTTCATTCTCTTGGGATAAGTGAGTCACTTTCAGAACAGTGTGTGTTGTAGAATTTTTTGGTTGTGGCTGCTCTACTCAGATT

Downstream sequence

TGAAGAAAGGTTGGGAAAGATACAAGGAAGGGGCTAGAAGTACCAAATAAAAACCCTAAAACTGTCTCCACATACACAGTAAATACTTAAGCAATTATTT