VISDB Viral Integration Site DataBase

VIS ID

TVIS10013356

Fusion event

HBV-SNX1 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

958

Orient

-

Integrated sequence

GGGGTTACTCTCTAAATTTTATGGGTTATGTCATTGGATGTTATGGGTCCTTGCCACAAGAACACATCATACAAAAAATCAAAGAATGTTTTAGAAAACT| |TCCTATTAACAGGCCTATTGATTGGAAAGTATGTCAACGAATTGTGGGTCTTTTGGGTTTTGCTGCCCCTTTTACACAATGTGGTTATCCTGCGTTGATG

Chromosome

chr15

Cytoband

q22.31

Reference genome

Start

End

64430428/64138229 (Hg38)

Orient

-

Location type

UTR3

Fragile sites / regions

Target gene

miRNAs that regulate target gene

hsa-mir-197-3p ; hsa-mir-95-3p ; hsa-mir-28-3p ; hsa-mir-28-5p ; hsa-mir-571 ; hsa-mir-219a-1-3p ; hsa-mir-6832-3p ; hsa-mir-6756-3p ; hsa-mir-3127-3p ; hsa-mir-5582-3p ; hsa-mir-548f-3p ; hsa-mir-548e-3p ; hsa-mir-548az-3p ; hsa-mir-548ar-3p ; hsa-mir-548a-3p ; hsa-mir-6513-5p ; hsa-mir-887-5p ; hsa-mir-3913-5p ; hsa-mir-3122 ; hsa-mir-450a-1-3p ; hsa-mir-6780a-5p ; hsa-mir-6779-5p ; hsa-mir-3689c ; hsa-mir-3689b-3p ; hsa-mir-3689a-3p ; hsa-mir-30b-3p ; hsa-mir-1273h-5p ; hsa-mir-6788-5p ; hsa-mir-30c-2-3p ; hsa-mir-30c-1-3p ; hsa-mir-7977 ; hsa-mir-6799-5p ; hsa-mir-6883-5p ; hsa-mir-6785-5p ; hsa-mir-4728-5p ; hsa-mir-149-3p ; hsa-mir-7106-5p ; hsa-mir-24-3p ; hsa-mir-4284 ; hsa-mir-6086 ; hsa-mir-377-5p ; hsa-mir-342-3p ; hsa-mir-383-3p ; hsa-mir-1228-3p

Nearest miRNA

hsa-mir-10393/Upstream/267210; hsa-mir-11181/Downstream/624158;

Nearest TSS

Nearest CpG islands

None/Target, chr15-CpG: 55/Upstream/41800, chr15-CpG: 124/Downstream/13159

Upstream sequence

TTTGTGCTGCTGCTTCCCTCTGGAAATGGGGTTTCTTTCTCTCCGCCTACCTCAGCTACCTGTTCTGAGGGTCTCAATCTGTTTCGTATTCCCACTTCTT

Downstream sequence

TAGGGAAGGAGTTTTAAAAACATCTCTTAAAATAAGAGGAGCAAAATCTATTAAAACCTATTCTCCTGCAAAGGAGGCAGAGACTTTCTCTCTCTCTTTT