VISDB Viral Integration Site DataBase

VIS ID

TVIS10015013

Fusion event

HBV-SYTL3 integration

Validated

No

Detection method

WGS

Data source

Curated

Sample type

Disease

Hepatocellular carcinoma (HCC)

Quality evaluation

Normal

Reported year

2012

PubMed ID

Virus name

HBV

Reference genome

Region type

HBVgp1 Polymerase;HBVgp2 pre-S2/S;HBVgp2

Start

740

Orient

+

Integrated sequence

TATGGGAGTGGGCCTCAGCCCGTTTCTCCTGGCTCAGTTTACTAGTGCCATTTGTTCAGTGGTTCGTAGGGCTTTCCCCCACTGTTTGGCTTTCAGTTAT| |ATGGATGATGTGGTATTGGGGGCCAAGTCTGTACAGCATCTTGAGTCCCTTTTTACCGCTGTTACCAATTTTCTTTTGTCTTTGGGTATACATTTAAACC

Chromosome

chr6

Cytoband

q25.3

Reference genome

Start

End

159131520/158710488 (Hg38)

Orient

-

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-449c-3p ; hsa-mir-486-3p ; hsa-mir-6721-5p ; hsa-mir-5787 ; hsa-mir-4505 ; hsa-mir-4731-5p ; hsa-mir-4722-5p ; hsa-mir-6884-5p ; hsa-mir-485-5p ; hsa-mir-219b-3p ; hsa-mir-4768-3p ; hsa-mir-302f ; hsa-mir-887-5p ; 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-6799-5p ; hsa-mir-6883-5p ; hsa-mir-6785-5p ; hsa-mir-4728-5p ; hsa-mir-149-3p ; hsa-mir-7106-5p ; hsa-mir-5690 ; hsa-mir-890

Nearest miRNA

hsa-mir-10398/Upstream/100698; hsa-mir-1913/Downstream/54173;

Nearest TSS

Nearest CpG islands

None/Target, chr6-CpG: 120/Upstream/65726, chr6-CpG: 147/Downstream/107758

Upstream sequence

tggctggagacttcagttcctcaccacatgggtctgtccatagactctctgagtgtcctcatgacatggcagccagcttctcccagagtgagcgatccag

Downstream sequence

tactttgaagcatggagtcagttttcaaaaaaaaaaaaatgcataacacaaattaaaactctaaaagtgtctgtaatttttacctccagcatgggacatg