VISDB Viral Integration Site DataBase

VIS ID

TVIS10016105

Fusion event

HBV-AFAP1 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

Start

2084

Orient

+

Integrated sequence

AACTGCACATGTATTCCCATCCCATCATCTTGGGCTTTCGCAAAATACCTATGGGAGTGGGCCTCAGTCCGTTTCTCATGGCTCAGTTTACTAGTGCCAT| |TTGTTCAGTGGTTCGTAGGGCTTTCCCCCACTGTCTGGCTTTCAGTTATAGTGATGATATGGTATTGGGGGCCAAGTCTGTACAACATCTTGAGTCCCTT

Chromosome

chr4

Cytoband

p16.1

Reference genome

Start

End

7798578/7796851 (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-3613-5p ; hsa-mir-2115-5p ; hsa-mir-646 ; hsa-mir-1185-2-3p ; hsa-mir-1185-1-3p ; hsa-let-7f-2-3p ; hsa-mir-4789-5p ; hsa-mir-98-3p ; hsa-let-7f-1-3p ; hsa-let-7b-3p ; hsa-let-7a-3p ; hsa-mir-942-3p ; hsa-mir-5582-3p ; hsa-mir-4802-3p ; hsa-mir-548f-3p ; hsa-mir-548e-3p ; hsa-mir-548az-3p ; hsa-mir-548ar-3p ; hsa-mir-548a-3p ; hsa-mir-578

Nearest miRNA

hsa-mir-378d-1/Upstream/336733; hsa-mir-12113/Downstream/208450;

Nearest TSS

Nearest CpG islands

None/Target, chr4-CpG: 46/Upstream/132231, chr4-CpG: 19/Downstream/3613

Nearby gene

AFAP1-AS1(-17924) ; ABLIM2(+168458) ;

Upstream sequence

AGGCCCAGCACTGCCTGCCTTGGGCCCCCTTTCTTCTTAAGGAAAGGCCAGAAAAAATGTGTCTCCAAAGTGTTTTGGAATTTGTAAGAACAACCGTCAG

Downstream sequence

gagtttgagaccagcctggctaacatggtgaaaccccgtctctactaaaaagtaaaaaaaattagccaggtgtggtggcacacctgtaatcccagctgct