Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10016229
Fusion event
HBV-SLC22A6 integration
Validated
No
Detection method
WGS
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2012
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Start
2971
End
3006
Orient
+
Integrated sequence
GCCAGACGCCAACAAGGTAGGAGCTGGAGCATTCGG
Host Sequence
Chromosome
chr11
Cytoband
q12.3
Reference genome
Start
End
62745419/62977947 (Hg38)
Orient
-
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-1238-3p ; hsa-mir-670-3p ; hsa-mir-147a ; hsa-mir-6818-5p ; hsa-mir-6759-5p ; hsa-mir-6881-3p ; hsa-mir-6780a-3p ; hsa-mir-7111-3p ; hsa-mir-6749-3p ; hsa-mir-6792-3p ; hsa-mir-4691-5p ; hsa-mir-644a ; hsa-mir-3911 ; hsa-mir-6793-5p ; hsa-mir-6748-5p ; hsa-mir-581 ; hsa-mir-1236-3p ; hsa-mir-877-3p ; hsa-mir-660-3p ; hsa-mir-5193 ; hsa-mir-2909 ; hsa-mir-211-5p ; hsa-mir-204-5p ; hsa-mir-642a-5p ; hsa-mir-8065 ; hsa-mir-659-5p ; hsa-mir-4287 ; hsa-mir-4685-3p ; hsa-mir-6734-3p ; hsa-mir-6832-3p ; hsa-mir-4667-3p ; hsa-mir-1470 ; hsa-mir-296-3p
Nearest miRNA
hsa-mir-129-2/Upstream/185141; hsa-let-7a-2/Downstream/1363902;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/50612, chr11-CpG: 52/Downstream/512959
Upstream sequence
TTTCTTCACTTCTTTTTAATGGGTAGCATATAGATTGCCATACGACGTCTATCTCAGATTTGGAATTTTCATCAGATTTTACCCTGAAAATCACAAGGAC
Downstream sequence
caggagacatactgcttggggttcaaatgcatgcttcaccatttgttagctgcatgatcttggagaagtcacttaacctctctttgcctcagctttcacg
Target sequence
ATTCTTCATGAGAGAagaggttaaaaacattgact
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.