VISDB Viral Integration Site DataBase

VIS ID

TVIS10016159

Fusion event

HBV-CDH4 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

1095

Orient

-

Integrated sequence

GTCACCATATTCTTGGGAACAAGAGCTACAGCATGGGAGGTTGGTCTTCCAAACCTCGAAAAGGCATGGGGACAAATCTTTCTGTCCCCAATCCACTGGG| |ATTCTTCCCCGATCATCAGTTGGACCCTGCATTCAAAGCCAACTCAGAAAATCCAGATTGGGACCTCAATCCATACAAGGACAACTGGCCGGATGCCAAC

Chromosome

chr20

Cytoband

q13.33

Reference genome

Start

End

60027226/61452170 (Hg38)

Orient

+

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-1-3p ; hsa-mir-7111-3p ; hsa-mir-5006-3p ; hsa-mir-4755-5p ; hsa-mir-623 ; hsa-mir-1236-3p ; hsa-mir-6515-3p ; hsa-mir-6832-3p ; hsa-mir-211-5p ; hsa-mir-204-5p ; hsa-mir-570-3p

Nearest miRNA

hsa-mir-103a-2/Upstream/887545; hsa-mir-1-1/Downstream/501376;

Nearest TSS

Nearest CpG islands

None/Target, chr20-CpG: 39/Upstream/61436, chr20-CpG: 15/Downstream/92281

Nearby gene

C20orf197(-1379218) ; MIR1257(+501375) ;

Nearest cancer related gene

CDH4(TSG, No orient, 0)

Upstream sequence

ACTCTTCTGCGActttctctctctctctttctctctctctctctctAATCTCTCCTCCTGGCCTTTCTACCCCCAAGATAGAGCTGTGTGTACATTTTCA

Downstream sequence

GCCTTTCACCTTCCCAGGCCGGGCCCACAAACAGGCAGGTGGCAGACTTACATGTTGAGTTCCAGGTGTCTTTGGAATTAATCTCGTGTCAGAAAATTAT