hsa-mir-130b-3p _LIHC.png
CNOT1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10019797
Fusion event
HBV-CNOT1 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
1822
Integrated sequence
GTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAAC| |TTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAA
Host Sequence
Chromosome
chr16
Cytoband
q21
Reference genome
GRCh37.55
Start
58663219/58629315 (Hg38)
End
58663219/58629315 (Hg38)
Location type
Intron48
Target gene
CNOT1
miRNAs that regulate target gene
hsa-mir-744-5p ; hsa-mir-93-3p ; hsa-mir-766-3p ; hsa-mir-454-3p ; hsa-mir-421 ; hsa-mir-615-3p ; hsa-mir-193b-3p ; hsa-mir-423-3p ; hsa-mir-130b-3p ; hsa-mir-128-3p ; hsa-mir-221-3p ; hsa-mir-92a-3p ; hsa-mir-23a-3p ; hsa-let-7b-5p ; hsa-mir-218-5p
Nearest miRNA
hsa-mir-1225/Upstream/856963; hsa-mir-11401/Downstream/8573006;
Nearest TSS
ENST00000527434/Upstream/4529; ENST00000565722/Downstream/500;
Nearest CpG islands
chr16-CpG: 80/Target, None/Upstream, None/Downstream
Upstream sequence
aaggtgcaactcattataaaaccaggcaaagtatatgaacagatagttcacaaaaaagtgaactcaaatggccattaaatataaaaatttctcaccctcc
Downstream sequence
AGGGAGCAGAGACAGAAACAGTAGTTAAGGAGGTCGTGGAGGTCTCAGAGGGGTGCAACCCGCGCGAAGCCAGGCCCAGCGACACGAACTGCCGCCGCTG
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.
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