VISDB Viral Integration Site DataBase

VIS ID

TVIS10015011

Fusion event

HBV-FN1 integration

Validated

Yes

Detection method

PCR and Sanger sequencing

Data source

Curated

Sample type

Disease

Hepatocellular carcinoma (HCC)

Quality evaluation

Good

Reported year

2012

PubMed ID

Virus name

HBV

Reference genome

Region type

HBVgp4 precore/core protein

Start

1880

End

2485

Orient

+

Integrated sequence

GTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGAATTTGGAGCTACTGTGGAGTTACTCTCGTTTTTGCCTTCTGACTTCTTTCCTTCAGTACGAGATCTTCTAGATACCGCCTCAGCTCTGTATCGGGAAGCCTTAGAGTCTCCTGAGCATTGTTCACCTCACCATACTGCACTCAGGCAAGCAATTCTTTGCTGGGGGGAACTAATGACTCTAGCTACCTGGGTGGGTGTTAATTTGGAAGA

Chromosome

chr2

Cytoband

q35

Reference genome

Start

End

216281670/215416947 (Hg38)

Orient

-

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-200c-3p ; hsa-mir-200b-3p ; hsa-mir-1-3p ; hsa-let-7g-5p ; hsa-mir-26b-5p ; hsa-mir-615-3p ; hsa-mir-218-5p ; hsa-mir-140-3p

Nearest miRNA

hsa-mir-10b/Upstream/1657425; hsa-mir-1244-1/Downstream/2483566;

Nearest TSS

Nearest CpG islands

None/Target, chr2-CpG: 135/Upstream/103175, chr2-CpG: 43/Downstream/18597

Upstream sequence

CAAAGGTAATAATTAAAGACCTAGTTTTATTTCTCATCAGTCTAAGCAGTCTATCAGTTTGGAAAAAACATCAAGTTTTATTTTTATTCAAGAAGTTTAC

Downstream sequence

CACCTTTAAAGGAAATGGACTGAACAGCATGGAATTTAGCATGTTTTTGTTCAGGAAGTAAAGAGACTTTGTGTCAGTTATTTCTTAGATCAATTAAATT

Target sequence

TCCCAAATCACACCATTGATCCATCAAATTATTAAGTGATTAAATTTATTTTTTTTCCAAAATCAGTTGTCAACAGAAATGACTTTATGAAGTGTATACTAAATTCAGTATTTCTACACCTTGATGTATATCACTGTTATCAACAAAATTTAAAGTATGGTTTTGGTTCTTTTGTTTAAAATAAAAGGAAAATAAGGGAAGTAGCATCAATTTCTAAGTAGTGTTAACTCCATTTAAGATAATAATGAAATAGCT