VISDB Viral Integration Site DataBase

VIS ID

TVIS10020393

Fusion event

HBV-GLI2 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

1806

End

2902

Orient

+

Integrated sequence

CAGCACCATGCAACTTTTTCCCCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATTGACCCGTATAAAGAATTTGGAGCTTCTGTGGAGTTACTCTCTTTTTTGCCTTCTGACTTCTTTCCTTCTATTCGAGATCTCCTCGACACCGCCTCTGCTCTGTATCGGGAGGCCTTAGAGTCTCCGGAACATTGTTCACCTCACCATACAGC

Chromosome

chr2

Cytoband

q14.2

Reference genome

Start

End

121586378/120828803 (Hg38)

Orient

+

Location type

Intronic

Fragile sites / regions

Target gene

miRNAs that regulate target gene

hsa-mir-1-3p ; hsa-mir-26b-5p ; hsa-mir-31-5p ; hsa-mir-218-5p ; hsa-mir-574-5p ; hsa-mir-5572 ; hsa-mir-4260 ; hsa-mir-450a-2-3p ; hsa-mir-6855-5p ; hsa-mir-3170 ; hsa-mir-6819-5p ; hsa-mir-6812-5p ; hsa-mir-6737-5p ; hsa-mir-6740-5p ; hsa-mir-6867-5p ; hsa-mir-3650 ; hsa-mir-4455 ; hsa-mir-6747-5p ; hsa-mir-608 ; hsa-mir-4651 ; hsa-mir-4664-5p ; hsa-mir-342-5p ; hsa-mir-4748 ; hsa-mir-4464 ; hsa-mir-466 ; hsa-mir-6793-3p ; hsa-mir-4643 ; hsa-mir-4789-3p ; hsa-mir-95-5p ; hsa-mir-223-5p ; hsa-mir-541-3p ; hsa-mir-654-5p ; hsa-mir-6769a-5p ; hsa-mir-6769b-5p ; hsa-mir-92a-2-5p

Nearest miRNA

hsa-mir-1285-2/Upstream/7106387; hsa-mir-10b/Downstream/6594734;

Nearest TSS

Nearest CpG islands

None/Target, chr2-CpG: 135/Upstream/85753, chr2-CpG: 23/Downstream/38612

Nearest cancer related gene

GLI2(OG, No orient, 0)

Upstream sequence

GCACAAGCATGACAAATTGGTTCAACTTCAAATCCATAATCAAAATGTCAAAGCTTGGTAATCAAGTGAGTACACTTGTTAACTTACTCTGTTTTTATGC

Downstream sequence

ATTCCATTTCTCTTGTTACTAAAATGGATTCTCTGCTGAGGCCGTGACTTCCAACTCCAAAAAAAAAAAAAAAAGATCATCCACAGCCACTATTCCTCAC

Target sequence

gctaagtgaaataagtcagtcacaaaaggacatatactgttttattccacttatacgcggtccctagagtcgtcagaatcgtagagacagaaagcagagttgtgattgccaggggccggagggaggaaggagtgaggagttcatgttgaatgggtgcagaatttcaatttgggaagatgaaaaagctctggagatggatggtcgtgatggttgcggaacaacgtgaatgtactcaatgcctctgaattgtacact