VISDB Viral Integration Site DataBase

VIS ID

TVIS10014109

Fusion event

HBV-SYT1 integration

Validated

No

Detection method

NGS

Data source

Curated

Sample type

Disease

Hepatocellular carcinoma (HCC)

Quality evaluation

Normal

Reported year

2018

PubMed ID

Virus name

HBV

Reference genome

Region type

Polymerase|

Start

1332

Orient

+

Integrated sequence

CGCATGCGTGGAACCTTTTCGGCTCCTCTGCCGATCCATACTGCGGAACTCCTAGCCGCTTGTTTTGCTCGCAGCAGGTCTGGAGCAAACATTATCGGGA| |CTGATAACTCTGTTGTCCTATCCCGCAAATATACATCGTTTCCATGGCTGCTAGGCTGTGCTGCCAACTGGATCCTGCGCGGGACGTCCTTTGTTTACGT

Chromosome

chr12

Cytoband

q21.2

Reference genome

Start

End

79606712/79212932 (Hg38)

Orient

-

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-34a-5p ; hsa-mir-335-5p ; hsa-mir-8064 ; hsa-mir-8485 ; hsa-let-7a-5p ; hsa-let-7b-5p ; hsa-let-7c-5p ; hsa-let-7d-5p ; hsa-let-7e-5p ; hsa-let-7f-5p ; hsa-let-7g-5p ; hsa-let-7i-5p ; hsa-mir-202-3p ; hsa-mir-4458 ; hsa-mir-4500 ; hsa-mir-4678 ; hsa-mir-4699-3p ; hsa-mir-5683 ; hsa-mir-711 ; hsa-mir-7162-3p ; hsa-mir-98-5p

Nearest miRNA

hsa-let-7i/Upstream/9628109; hsa-mir-1178/Downstream/206325;

Nearest TSS

Nearest CpG islands

None/Target, chr12-CpG: 104/Upstream/408312, chr12-CpG: 198/Downstream/476819

Nearest cancer related gene

SYT1(OG, No orient, 0)

Upstream sequence

GGCTAAATctgtgtaggaccaatcacttaatcctgggaaagccacactccagttacttctgtaaaataagattgagttacttttcagggttgtaatagga

Downstream sequence

attgagaattttctccttaaatatcaacaacagtattttggcacaaagtaggtgcctaataaatggaatcattagtattAGCCCCTTTTGGTGTTATTTT