Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10015067
Fusion event
HBV-TERT integration
Validated
Yes
Detection method
PCR and Sanger sequencing
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2012
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Region type
HBVgp3 X protein
Start
1668
End
1732
Orient
-
Integrated sequence
TGGACTCTCAGCAATGTCAACGACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAAGACT
Host Sequence
Chromosome
chr5
Cytoband
p15.33
Reference genome
Start
End
1295121/1295006 (Hg38)
Orient
+
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-138-5p ; hsa-mir-498 ; hsa-mir-193b-3p ; hsa-mir-335-5p ; hsa-mir-512-5p ; hsa-mir-1207-5p ; hsa-mir-1266-5p ; hsa-mir-1182 ; hsa-mir-181a-5p ; hsa-mir-6776-3p ; hsa-mir-197-3p ; hsa-mir-6740-3p ; hsa-mir-6760-3p ; hsa-mir-532-5p ; hsa-mir-3064-5p ; hsa-mir-422a ; hsa-mir-346 ; hsa-mir-1226-3p ; hsa-mir-1255a ; hsa-mir-1255b-5p ; hsa-mir-143-3p ; hsa-mir-3161 ; hsa-mir-3605-5p ; hsa-mir-3620-3p ; hsa-mir-3682-3p ; hsa-mir-4323 ; hsa-mir-4712-3p ; hsa-mir-4733-3p ; hsa-mir-4758-3p ; hsa-mir-4770 ; hsa-mir-6088 ; hsa-mir-7112-3p
Nearest miRNA
hsa-mir-4635/Upstream/231977; hsa-mir-10397/Downstream/14304;
Nearest CpG islands
chr5-CpG: 485/Target, None/Upstream, None/Downstream
Nearest cancer related gene
TERT(OG, No orient, 0)
Upstream sequence
AAGCCTCTATTAAAAGCTTTCTAGGCAATTTGAATCAGGTTGCTGAGCTTTGAAAAACATTCTACAGCCAAGTGTAGGAGACCCAAGAACTTGGAGAACA
Downstream sequence
CCAGGGCTTCCCACGTGCGCAGCAGGACGCAGCGCTGCCTGAAACTCGCGCCGCGAGGAGAgggcggggccgcggaaaggaaggggaggggctgggaggg
Target sequence
AGGGAGCGCACGGCTCGGCAGCGGGGAGCGCGCGGCATCGCGGGGGTGGCCGGGG
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.