VISDB Viral Integration Site DataBase

VIS ID

TVIS10020529

Fusion event

HBV-SHROOM3 integration

Validated

No

Detection method

VirusScan

Data source

Curated

Sample type

Disease

Hepatocellular carcinoma (HCC)

Quality evaluation

Good

Reported year

2016

PubMed ID

Virus name

HBV

Reference genome

Start

1179

End

2275

Orient

+

Integrated sequence

GTGTTTGCTGACGCAACCCCCACGGGTTGGGGCTTGGCCATAGGCCATCGGCGCATGCGTGGAACCTTTGTGGCTCCTCTGCCGATCCATACTGCGGAACTCCTAGCAGCTTGTTTTGCTCGCAGCCGGTCTGGAGCGAAACTTATCGGAACCGACAACTCAGTTGTCCTCTCTCGGAAATACACCTCCTTTCCATGGCTGCTAGGCTGTGCTGCCAACTGGATCCTGCGCGGGACGTCCTTTGTCTACGTCCCG

Chromosome

chr4

Cytoband

q21.1

Reference genome

Start

End

77468335/76547182 (Hg38)

Orient

+

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-335-5p ; hsa-mir-6514-3p ; hsa-mir-4314 ; hsa-mir-7977 ; hsa-mir-3649 ; hsa-mir-6847-3p ; hsa-mir-6811-3p ; hsa-mir-214-5p ; hsa-mir-6506-5p ; hsa-mir-619-5p ; hsa-mir-3192-5p ; hsa-mir-4646-5p ; hsa-mir-204-3p ; hsa-mir-383-3p ; hsa-mir-24-3p ; hsa-mir-4284 ; hsa-mir-30e-5p ; hsa-mir-30d-5p ; hsa-mir-30c-5p ; hsa-mir-30b-5p ; hsa-mir-30a-5p ; hsa-mir-1537-5p ; hsa-mir-3607-3p ; hsa-mir-6817-5p ; hsa-mir-4769-3p ; hsa-mir-3925-3p ; hsa-mir-766-3p ; hsa-mir-338-3p ; hsa-mir-4530 ; hsa-mir-646

Nearest miRNA

hsa-mir-12113/Upstream/10269206; hsa-mir-1243/Downstream/26386;

Nearest TSS

Nearest CpG islands

None/Target, chr4-CpG: 46/Upstream/124580, chr4-CpG: 23/Downstream/38742

Upstream sequence

TTTTCAGCAAGTAGTATGAGGAATCCTAGCTCGTAAAATAAAACTGGCTTTTTAAACTTTAGTATGTCTTGAACATTCAGATGTAAAATATATTTTCATT

Downstream sequence

GAAGGATTAGGCAGGACAAGTGAAGTGTTACTTTAGGGACAAATGTCTGGGCGATTCTCAGGCAGCAGGCTGGagaatgtgggctctgaggttagtcttg

Target sequence

TTATAGTAATgcagagcaaacaacattatctatattttatagatgagagacccatccagggtcctgcagataaaagggccagagttgggattagagcacaggattcctgactcctaacccagtttactttcttctactacaatatacCCCATTTACGACCCCAAATAGGAATGTTCAACAGTATAAATGTAATGATTTAGGATGAGATGAGAGGTAGATGGGAAGAACAGGAGGAATCACCTCTGTACCCTGTGG