VISDB Viral Integration Site DataBase

VIS ID

TVIS10014924

Fusion event

HBV-SRRM4 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

Region type

HBVgp4 precore/core protein

Start

2116

Orient

+

Integrated sequence

CGGGAAGCCTTAGAGTCTCCTGAGCATTGTTCACCTCACCATACTGCACTCAGGCAAGCAATTCTTTGCTGGGGGGAACTAATGACTCTAGCTACCTGGG| |TGGGTGTTAATTTGGAAGATCCAGCGTCTAGAGACCTAGTAGTCAGTTATGTCAACACTAATATGGGCCTAAAGTTCAGGCAACTCTTGTGGTTTCACAT

Chromosome

chr12

Cytoband

q24.23

Reference genome

Start

End

119475798/119037993 (Hg38)

Orient

+

Location type

Intronic

Fragile sites / regions

FRA12E ; FRA12C

Target gene

miRNAs that regulate target gene

hsa-mir-511-5p ; hsa-mir-431-5p ; hsa-mir-298 ; hsa-mir-570-3p ; hsa-mir-922 ; hsa-mir-3167 ; hsa-mir-2113 ; hsa-mir-3679-3p ; hsa-mir-3942-3p ; hsa-mir-218-5p ; hsa-mir-636 ; hsa-mir-3160-5p ; hsa-mir-205-3p ; hsa-mir-208b-5p ; hsa-mir-208a-5p ; hsa-mir-8485 ; hsa-mir-568 ; hsa-mir-4742-3p ; hsa-mir-384 ; hsa-mir-3685 ; hsa-mir-647 ; hsa-mir-6772-3p ; hsa-mir-6762-3p ; hsa-mir-604 ; hsa-mir-4448 ; hsa-mir-4268 ; hsa-mir-4735-5p ; hsa-mir-3667-3p ; hsa-mir-6734-3p ; hsa-mir-6504-5p ; hsa-mir-3064-5p ; hsa-mir-6793-3p ; hsa-mir-7850-5p ; hsa-mir-5004-3p ; hsa-mir-432-3p ; hsa-mir-6867-3p ; hsa-mir-4685-3p ; hsa-mir-4287 ; hsa-mir-7113-3p ; hsa-mir-2116-3p ; hsa-mir-449b-3p ; hsa-mir-4524a-3p ; hsa-mir-6757-3p ; hsa-mir-6761-5p ; hsa-mir-5692a

Nearest miRNA

hsa-let-7i/Upstream/2609675; hsa-mir-1178/Downstream/675641;

Nearest TSS

Nearest CpG islands

None/Target, chr12-CpG: 104/Upstream/55988, chr12-CpG: 29/Downstream/116058

Upstream sequence

tgtaaaatgaggatagtaatattctctgcTGAGCCAGCAGGTCAATGAAGTATGATGGTGGCTGAAATACTATAGGAATGACTAACTTGGGTAGGGATTA

Downstream sequence

ATAATGCTATTATATCTATTTATTTGGTGattcaacaagcacttattgagcaactactatgggccatgcactttgctgggtgctggggacacagcaaaga