hsa-mir-3944-5p _LIHC.png
NPAS3 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10016434
Fusion event
HBV-NPAS3 integration
Validated
No
Detection method
WGS
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2012
PubMed ID
22267523
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Start
1066
End
1101
Orient
-
Integrated sequence
TGCATGTATTCAATCTAAGCAGGCTTTCACTTTCTC
Host Sequence
Chromosome
chr14
Cytoband
q13.1
Reference genome
GRCh37/hg19
Start
33482200/33012994 (Hg38)
End
33482235/33013029 (Hg38)
Orient
-
Location type
Intronic
Target gene
NPAS3
miRNAs that regulate target gene
hsa-mir-17-5p ; hsa-mir-3679-3p ; hsa-mir-4446-5p ; hsa-mir-361-3p ; hsa-mir-153-5p ; hsa-mir-589-3p ; hsa-mir-548as-3p ; hsa-mir-143-5p ; hsa-mir-2681-5p ; hsa-mir-3944-5p ; hsa-mir-8066
Nearest miRNA
hsa-mir-208a/Upstream/1998252; hsa-mir-1185-1/Downstream/3939280;
Nearest TSS
ENST00000550708/Upstream/73677; ENST00000549770/Downstream/200649;
Nearest CpG islands
None/Target, chr14-CpG: 35/Upstream/72965, chr14-CpG: 152/Downstream/786711
Nearby gene
AKAP6(-179932) ; EGLN3(+911220) ;
Upstream sequence
ATAATATTGCTTTAGAAAACCATTTAAAATATCATTATCATGTCATTTATGTCTAAATCTTTATGATTTATGAGACCACAAAATGCAAAGTTCATGTTTT
Downstream sequence
GAGAGCAAATCCAAACAGTCTTCTCCACTGGACCTTTGTCTGCTTGCTAATGAGATATACTGATTAAATGAGTAAAATAAGTCAGAAAAAGTATTGTATT
Target sequence
GGTTTTCTGACTGAAAATGTTCCATACCCTTGTGT
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.
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