Basic Information
VIS ID
TVIS10018806
Fusion event
HBV-SMIM13 integration
Validated
No
Detection method
VirusFinder
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2017
PubMed ID
29212479
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Start
1584
End
1683
Integrated sequence
ACTTCGCTTCACCTCTGCACGTCGCATGGAGACCACCGTGAACGCCCACCAAATATTGCCCAAGGTCTTACATAAGAGGACTCTTGGACTCTCAGCAATG
Host Sequence
Chromosome
chr6
Cytoband
p24.2
Reference genome
GRCh37.55
Start
11096616/11096383 (Hg38)
End
11096616/11096383 (Hg38)
Location type
Intron1
Target gene
SMIM13
miRNAs that regulate target gene
hsa-mir-16-1-3p ; hsa-mir-153-3p ; hsa-mir-487a-5p ; hsa-mir-491-3p ; hsa-mir-487b-5p ; hsa-mir-1257 ; hsa-mir-4790-3p ; hsa-mir-5002-5p ; hsa-mir-3609 ; hsa-mir-548ah-5p ; hsa-mir-548at-5p ; hsa-mir-655-5p ; hsa-mir-758-3p ; hsa-mir-3121-3p ; hsa-mir-3145-3p ; hsa-mir-6830-5p ; hsa-mir-501-3p ; hsa-mir-502-3p ; hsa-mir-767-5p ; hsa-mir-3924 ; hsa-mir-561-5p ; hsa-mir-33a-3p ; hsa-mir-6083 ; hsa-mir-5007-3p ; hsa-mir-510-3p ; hsa-mir-539-3p ; hsa-mir-485-3p ; hsa-mir-487a-3p ; hsa-mir-154-3p ; hsa-mir-4796-3p ; hsa-mir-93-5p ; hsa-mir-526b-3p ; hsa-mir-519d-3p ; hsa-mir-20b-5p ; hsa-mir-20a-5p ; hsa-mir-17-5p ; hsa-mir-106b-5p ; hsa-mir-106a-5p ; hsa-mir-7855-5p ; hsa-mir-205-5p ; hsa-mir-586 ; hsa-mir-3160-5p ; hsa-mir-494-3p ; hsa-mir-2053 ; hsa-mir-4999-3p ; hsa-mir-34c-3p ; hsa-mir-2113 ; hsa-mir-5010-3p ; hsa-mir-8070
Nearest miRNA
hsa-mir-3691/Upstream/656589; hsa-mir-10398/Downstream/5045173;
Nearest TSS
ENST00000381078/Upstream/2152; ENST00000500636/Downstream/9291;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/1949, chr6-CpG: 182/Downstream/440921
Upstream sequence
ATTAAAATAAACTGATAAATCCAGCTTGGATTCGTTGTTCACTCATTTTTCGATCAGCTAGAGAGAGGGGCTTAATGTCCCACATTCTACAACCAATTCA
Downstream sequence
GGGAGGAGGGATCTGTGTGCTAGGGCTGGAGAGCCCTGTGCTAGGACACCTTAGTTTTTGGAATAGTCAAGAACTAAAAGCTCTATGATGAAGTGATCAA
Reference
Yoo, S., et al. A pilot systematic genomic comparison of recurrence risks of hepatitis B virus-associated hepatocellular carcinoma with low- and high-degree liver fibrosis. BMC Med ,2017, 15(1): 214.
Curate