SCN7A _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10016286
Fusion event
HBV-SCN7A integration
Validated
No
Detection method
RNA-Seq
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2012
PubMed ID
22267523
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Start
1807
End
1826
Orient
+
Integrated sequence
CCAGCACCATGCAACTTTTT
Host Sequence
Chromosome
chr2
Cytoband
q24.3
Reference genome
GRCh37/hg19
Start
167276557/166420047 (Hg38)
End
167276647/166420137 (Hg38)
Orient
+
Location type
Intronic
Target gene
SCN7A
miRNAs that regulate target gene
hsa-mir-7641 ; hsa-mir-8075 ; hsa-mir-210-5p ; hsa-mir-4695-3p ; hsa-mir-93-3p ; hsa-mir-6893-3p ; hsa-mir-370-3p ; hsa-mir-6810-3p ; hsa-mir-6801-3p ; hsa-mir-3675-3p ; hsa-mir-6769a-3p
Nearest miRNA
hsa-mir-128-1/Upstream/6012165; hsa-mir-10b/Downstream/2162806;
Nearest TSS
ENST00000437798/Upstream/44046; ENST00000409043/Downstream/45389;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/43846, chr2-CpG: 157/Downstream/872386
Upstream sequence
CCGTTCGTTTGTTTTGAGTGAACACATAAATGTCATCAATGATTCCGTCTCTACCTGGGTAAACTTCAGAACTTAAGCATTAGTTGTGAGCATTTGGCCA
Downstream sequence
tacatatttaaaatcatttatatttCTGTTTGTATTTATAGAGAAAAATAAACATCCACATTTCACCAAGTGGAAGGAGTTTAAGTGTTATGGTTTCTTA
Target sequence
ATATACAAATATAACTAATGTACTTAAGTACTTTACACAATCATAAAAGTGaaattattaaaatttctgaaattatttttttaaataaaa
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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