VISDB Viral Integration Site DataBase

VIS ID

TVIS10020227

Fusion event

HBV-SOX5 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

1163

End

2259

Orient

+

Integrated sequence

GTCAGGTCTCTGCCAAGTGTTTGCTGACGCAACCCCCACGGGTTGGGGCTTGGCCATAGGCCATCGGCGCATGCGTGGAACCTTTGTGGCTCCTCTGCCGATCCATACTGCGGAACTCCTAGCAGCTTGTTTTGCTCGCAGCCGGTCTGGAGCGAAACTTATCGGAACCGACAACTCAGTTGTCCTCTCTCGGAAATACACCTCCTTTCCATGGCTGCTAGGCTGTGCTGCCAACTGGATCCTGCGCGGGACGTC

Chromosome

chr12

Cytoband

p12.1

Reference genome

Start

End

24530428/24377494 (Hg38)

Orient

+

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-21-5p ; hsa-mir-194-5p ; hsa-mir-335-5p ; hsa-mir-1-3p ; hsa-mir-26b-5p ; hsa-mir-96-5p ; hsa-mir-130a-3p ; hsa-mir-181a-5p ; hsa-mir-132-3p ; hsa-mir-15a-5p ; hsa-mir-16-5p ; hsa-mir-1231 ; hsa-mir-632 ; hsa-mir-4288 ; hsa-mir-548s ; hsa-mir-3926 ; hsa-mir-4766-5p ; hsa-mir-1277-5p ; hsa-mir-3924 ; hsa-mir-190a-3p ; hsa-mir-6867-5p ; hsa-mir-223-5p ; hsa-mir-511-3p ; hsa-mir-5011-5p ; hsa-mir-574-5p ; hsa-mir-5580-3p ; hsa-mir-555 ; hsa-mir-374a-3p ; hsa-mir-136-3p ; hsa-mir-4704-5p ; hsa-mir-3529-3p ; hsa-mir-6759-5p ; hsa-mir-6793-5p ; hsa-mir-6748-5p ; hsa-mir-933 ; hsa-mir-4783-5p ; hsa-mir-3607-5p

Nearest miRNA

hsa-mir-1244-3/Upstream/163951; hsa-let-7i/Downstream/1496526;

Nearest TSS

Nearest CpG islands

None/Target, chr12-CpG: 104/Upstream/1751167, chr12-CpG: 92/Downstream/184528

Upstream sequence

actagccattaaagagaagttaatataaaaaattaatatttaagttaatatttaattaaattaccagcctggccaatatggtgaaacacctctctactat

Downstream sequence

ACTTTCATGAGGTATCAGTGTATAGACGCAAAGTTGAAATTGGAAGACATAATCATGTGTTCATTTTATTCTAAAGATAAGAAAAATGAGTTGACTTAGG

Target sequence

ATGGCATCTTAACCTTGCAAATTCATGAATATAGGCACCAAAAAGCTAAACAATTTGCCAATCATGGTAGGAGAACTGGTAGCATGAAAAGACAGAGATGGTAAATGAGACTCAGATGGTCAATAATAATCataaaagcaaacatttagatattttatagtagctcctatgagtaggcaatgtgctaagcattgtcatgtgttacctggcttaattttcagaatgatgctatgggagagatacCttttttttttt