VISDB Viral Integration Site DataBase

VIS ID

TVIS10012945

Fusion event

HBV-RAP1GDS1 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|large S protein|

Start

2923

Orient

+

Integrated sequence

ATATTCTTGGGAACAAGATCTACAGCATGGGGCAGAATCTTTCCACCAGCAATCCTCTGGGATTCTTTCCCGACCACCAGTTGGATCCAGCCTTCAGAGC| |AAACACCGCAAATCCAGATTGGGACTTCAATCCCAACAAGGACACCTGGCCAGACGCCAACAAGGTAGGAGCTGGAGCATTCGGGCTGGGTTTCACCCCA

Chromosome

chr4

Cytoband

q23

Reference genome

Start

End

99243565/98322414 (Hg38)

Orient

-

Location type

Intronic

Fragile sites / regions

Target gene

miRNAs that regulate target gene

hsa-mir-3688-5p ; hsa-mir-7847-3p ; hsa-mir-6739-5p ; hsa-mir-6733-5p ; hsa-mir-3153 ; hsa-mir-4668-5p ; hsa-mir-6851-5p ; hsa-mir-4470 ; hsa-mir-3689d ; hsa-mir-6134 ; hsa-mir-4797-3p ; hsa-mir-4264 ; hsa-mir-194-3p ; hsa-mir-5693 ; hsa-mir-6865-5p ; hsa-mir-6815-5p ; hsa-mir-4796-3p ; hsa-mir-676-5p

Nearest miRNA

hsa-mir-12113/Upstream/11021831; hsa-mir-1243/Downstream/674973;

Nearest TSS

Nearest CpG islands

None/Target, chr4-CpG: 46/Upstream/60366, chr4-CpG: 97/Downstream/335577

Upstream sequence

aaaagtctgtttgttctccctttatctttgccatgattgtgaggcctccccagccatgtggaactgtgattaaattaaacctctttcctttgtaaatttc

Downstream sequence

cagacctaatagacatctacagaactctccaccccaaatcagcagaatatacatttttttcagcaccacaccacacctattccaaaattgaccacatagt