VISDB Viral Integration Site DataBase

VIS ID

TVIS10016331

Fusion event

HBV-RAPGEF2 integration

Validated

No

Detection method

WGS

Data source

Curated

Sample type

Disease

Hepatocellular carcinoma (HCC)

Quality evaluation

Good

Reported year

2012

PubMed ID

Virus name

HBV

Reference genome

Start

1606

End

1805

Orient

-

Integrated sequence

CGCATGGAGACCACCGTGAACGCCCACCAAATATTGCCCAAGGTCTTACATAAGAGGACTCTTGGACTCTCAGCAATGTCAACGACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGC

Chromosome

chr4

Cytoband

q32.1

Reference genome

Start

End

160189938/159268786 (Hg38)

Orient

+

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-335-5p ; hsa-mir-155-5p ; hsa-mir-1-3p ; hsa-mir-615-3p ; hsa-mir-149-5p ; hsa-mir-29b-2-5p ; hsa-mir-10a-5p ; hsa-mir-10b-5p ; hsa-mir-339-5p ; hsa-mir-659-3p ; hsa-mir-3620-3p ; hsa-mir-5002-5p ; hsa-mir-6748-3p ; hsa-mir-19a-3p ; hsa-mir-19b-3p ; hsa-mir-8066 ; hsa-mir-4720-5p ; hsa-mir-335-3p ; hsa-mir-3942-3p ; hsa-mir-7152-3p

Nearest miRNA

hsa-mir-12113/Upstream/139690; hsa-mir-1305/Downstream/3824788;

Nearest TSS

Nearest CpG islands

None/Target, chr4-CpG: 46/Upstream/164601, chr4-CpG: 71/Downstream/3897523

Nearby gene

MIR3688-1(-139725) ; FSTL5(+2115277) ;

Upstream sequence

AGGGTGGTTGATATCAAAATATTACAGGGACTCTTTCTGTGTCAGGTTTGCTTAAAGCCTCCGAAAGATGGAGAAGAAAACAGTAGGTGACCTCCATGTA

Downstream sequence

CATGCTGAAATCCCATGGGCAGCTACCGAGAAAGACTTTTCTATGCCTAACACCAAGTCAGAGCCTCCTGTTTCAGGAATGTGAGTTCTCATGGTGCTAC

Target sequence

GGGAATCTATAGTGAGGAATTCGCATGTAGGTTTGAGTGTAGGAGGGAGAGCTTTGGTTATTGATTTGGTAATAAAGCGATCAGTGGGACTCATCTGATTTCTTAACATGTATTCATCACTTATGGAAACACAGCTTTTTTTAATGCCACAAAAAATTATTGCTTCTTTATAATTGATCCCATGAGTCAGCTATGTGTTTGT