VISDB Viral Integration Site DataBase

VIS ID

TVIS10020427

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

1

End

1049

Orient

-

Integrated sequence

TCCACAACATTCCACCAAGCTCTGCTAGATCCCAGAGTGAGGGGCCTATATTTTCCTGCTGGTGGCTCCAGTTCCGGAACAGTAAACCCTGTTCCGACTACTGCCTCACCCATATCGTCAATCTTCTCGAGGACTGGGGACCCTGCACCGAACATGGAGAGCACAACATCAGGATTCCTAGGACCCCTGCTCGTGTTACAGGCGGGGTTTTTCTTGTTGACAAGAATCCTCACAATACCACAGAGTCTAGACTCG

Chromosome

chr2

Cytoband

q14.2

Reference genome

Start

End

121685449/120927873 (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/7205457; hsa-mir-10b/Downstream/6495664;

Nearest TSS

Nearest CpG islands

None/Target, chr2-CpG: 135/Upstream/59191, chr2-CpG: 22/Downstream/56657

Nearest cancer related gene

GLI2(OG, No orient, 0)

Upstream sequence

GTGTAAATCATAATTTTTTCCTTATCATAGAGAGGCAAAGAGAATGTTCCATTTTGTCTCTGAACCCTCTTTCTGTAGTTTCCCCTGAAATTGGCCTTAT

Downstream sequence

atagtaaattgtatagtcaccataCTTAAAAGGACAAGCTCAAAGTGATGCTTTGGGGCCCTTCCTATTCCCAGCTTTGAAGTCCCCAGGTAGAAGGTGT

Target sequence

TTTATACTGCCAGCAAAACGGGACAGCAGTTGGGTGGGATTTGGCCTTCCTGAGGCTGGCGGCACCGTCTGTGGGCCGTGCCATCACAAATGGCTCTAGGTCAACACCTCCAGCCTGCGTGCACTGCAGCATCCGGATGCCGTAACCTGGTGCTGCTGGAGCCACACGCAGCCAGGGCCGGCATGGGCAGAAGCCGGCGGAGTTGGAGCCTGTCGCTCTGTCAGCCCTGATTTGCGGGCTGAGCCCAGTTTTGTG