VISDB Viral Integration Site DataBase

VIS ID

TVIS10011087

Fusion event

HBV-FGD4 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

X protein|

Start

1765

Orient

-

Integrated sequence

TCTTGGACTCTCAGCAATGTCAACGACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAG| |GTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGT

Chromosome

chr12

Cytoband

p11.21

Reference genome

Start

End

32627442/32474508 (Hg38)

Orient

-

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-4487 ; hsa-mir-526b-5p ; hsa-mir-431-5p ; hsa-mir-6716-5p ; hsa-mir-558 ; hsa-mir-3160-3p ; hsa-mir-4646-5p ; hsa-mir-204-3p ; hsa-mir-1-3p ; hsa-mir-206 ; hsa-mir-613 ; hsa-mir-129-5p ; hsa-mir-3152-5p ; hsa-mir-4774-3p ; hsa-mir-3942-3p ; hsa-mir-6836-3p ; hsa-mir-5100 ; hsa-mir-4797-3p ; hsa-mir-545-5p ; hsa-mir-10b-3p ; hsa-mir-4266 ; hsa-mir-499a-5p ; hsa-mir-208b-3p ; hsa-mir-208a-3p ; hsa-mir-302f ; hsa-mir-641 ; hsa-mir-3617-5p ; hsa-mir-335-3p ; hsa-mir-5096 ; hsa-mir-197-3p ; hsa-mir-4742-3p ; hsa-mir-339-5p ; hsa-mir-490-5p ; hsa-mir-7153-3p

Nearest miRNA

hsa-mir-1244-3/Upstream/6600429; hsa-let-7i/Downstream/9849192;

Nearest TSS

Nearest CpG islands

None/Target, chr12-CpG: 104/Upstream/74404, chr12-CpG: 72/Downstream/204688

Nearby gene

BICD1(-96301) ; FGD4(+27599) ;

Upstream sequence

gctgtacgaaagaataaagtactcctacctacaacatggatgaatcttaaaaatgtactaagtgaaagaatccagtcacaaaagaccatgtgttgtatgc

Downstream sequence

ttccatgtatatgaaatgtcccaaagagccaaatctatagacagaaagattagcgttgcttaggctgggagggctggaatgggggaaggtgatagctaaa