VISDB Viral Integration Site DataBase

VIS ID

TVIS10020180

Fusion event

HBV-NF1 integration

Validated

No

Detection method

VirusScan

Data source

Curated

Sample type

Disease

Hepatocellular carcinoma (HCC)

Quality evaluation

Good

Reported year

2016

PubMed ID

Virus name

HBV

Reference genome

Start

260

End

1356

Orient

+

Integrated sequence

GGACTTCTCTCAATTTTCTAGGGGGAGCACCCACGTGTCCTGGCCAAAATTCGCAGTCCCCAACCTCCAATCACTCACCAACCTCTTGTCCTCCAACTTGTCCTGGCTATCGCTGGATGTGTCTGCGGCGTTTTATCATATTCCTCTTCATCCTGCTGCTATGCCTCATCTTCTTGTTGGTTCTTCTGGACTACCAAGGTATGTTGCCCGTTTGTCCTCTACTTCCAGGAACATCAACTACCAGCACGGGACCAT

Chromosome

chr17

Cytoband

q11.2

Reference genome

Start

End

29549747/31222729 (Hg38)

Orient

+

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-10b-5p ; hsa-mir-370-3p ; hsa-mir-20a-3p ; hsa-mir-193b-3p ; hsa-let-7e-5p ; hsa-mir-9-5p ; hsa-mir-19a-3p ; hsa-mir-19b-3p ; hsa-mir-193a-3p ; hsa-mir-374a-5p ; hsa-mir-27b-3p ; hsa-mir-27a-3p ; hsa-mir-107 ; hsa-mir-514a-5p

Nearest miRNA

hsa-mir-1180/Upstream/127256; hsa-mir-10226/Downstream/312154;

Nearest TSS

Nearest CpG islands

None/Target, chr17-CpG: 26/Upstream/126221, chr17-CpG: 29/Downstream/122588

Nearest cancer related gene

NF1(TSG, No orient, 0)

Upstream sequence

ttgaggaaaagaccaaaacatgatgaaaaaatgggaaaaaaataaacagacaactcacaaaaaagattaaaatggccttgaaacattttgaaacatgttc

Downstream sequence

tcattctcttttttttaataaagtcttcaaactttggtgtgtcttttatacttacagcacatctcaatttgaacaagccacacttaaagtgctcaatagc

Target sequence

GTTTGTGTTCACCAGAGTTTCTCTCTTTTTACCTTTTACTATATATTGAAACTACAAATGAAAGAGCTCAATTTCTTAGCATTTATAAAATAAGTACTCCAGTGTTATGTTTACCAAAAATGTTTGAGTGAGTCTTCTCTTTGTCTTTCTCTTTTTTAAAAAATTCAGGCTCTGCTGGTTCTTCATCAGTTAGATAGCATTGATTTGTGGAATCCTGATGCTCCTGTAGAAACATTTTGGGAGATTAGGTATATG