VISDB Viral Integration Site DataBase

VIS ID

TVIS10007404

Fusion event

HBV-SHROOM3 integration

Validated

No

Detection method

NGS

Data source

Curated

Sample type

Disease

Hepatocellular carcinoma (HCC)

Quality evaluation

Normal

Reported year

2018

PubMed ID

Virus name

HBV

Reference genome

Region type

X protein|

Start

1793

Orient

-

Integrated sequence

GACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATA| |AATTGGTCTGCGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGG

Chromosome

chr4

Cytoband

q21.1

Reference genome

Start

End

77444087/76522934 (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/10246006; hsa-mir-1243/Downstream/50634;

Nearest TSS

Nearest CpG islands

None/Target, chr4-CpG: 46/Upstream/101380, chr4-CpG: 23/Downstream/62990

Upstream sequence

acataggcgtgggcaaggacttcatgtccaaaacaccaaaagcaacggcaacaaaagccaaaattgacaaatgggatctaattaaactaaagagcttctg

Downstream sequence

ATTATATCTCACTACATATGGCTATACtattagtttcctagggctaccagaacacattctcacaaaccaggtagctaaaaacaaaagaagttattctctc