Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10017470
Fusion event
HBV-TRIR integration
Validated
No
Detection method
TS
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2016
PubMed ID
Virus Sequence
Virus name
HBV
Subtype
C
Reference genome
Region type
/
Start
3275
Integrated sequence
CACCTCTAAGAGACAGTCATCCTCAGGCCATGCAGTGGAA| |
Host Sequence
Chromosome
chr19
Cytoband
p13.13
Reference genome
Start
End
12841547/12730733 (Hg38)
Location type
3UTR
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-33a-5p ; hsa-mir-615-3p ; hsa-mir-6858-5p ; hsa-mir-4689 ; hsa-mir-6887-5p ; hsa-mir-6795-5p ; hsa-mir-6851-5p ; hsa-mir-3689d ; hsa-mir-7854-3p ; hsa-mir-4784 ; hsa-mir-3150b-3p ; hsa-mir-4645-3p ; hsa-mir-3179 ; hsa-mir-3123 ; hsa-mir-3154 ; hsa-mir-1208 ; hsa-mir-1249-5p ; hsa-mir-1253 ; hsa-mir-1276 ; hsa-mir-1321 ; hsa-mir-149-3p ; hsa-mir-26b-3p ; hsa-mir-3125 ; hsa-mir-3184-3p ; hsa-mir-3916 ; hsa-mir-4419a ; hsa-mir-4510 ; hsa-mir-4728-5p ; hsa-mir-4739 ; hsa-mir-4756-5p ; hsa-mir-4779 ; hsa-mir-497-3p ; hsa-mir-5197-3p ; hsa-mir-545-5p ; hsa-mir-6127 ; hsa-mir-6129 ; hsa-mir-6130 ; hsa-mir-6133 ; hsa-mir-6770-5p ; hsa-mir-6785-5p ; hsa-mir-6797-5p ; hsa-mir-6804-5p ; hsa-mir-6825-5p ; hsa-mir-6859-5p ; hsa-mir-6883-5p ; hsa-mir-7106-5p ; hsa-mir-7159-3p ; hsa-mir-7-5p ; hsa-mir-765
Nearest miRNA
hsa-mir-10395/Upstream/27069; hsa-let-7e/Downstream/56395;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/6673, chr19-CpG: 84/Downstream/3451
Upstream sequence
ccgcgcggccgctgaggggctgggagccgcggcggggcggtgcgagggcgggccggggccggTTCCGCGCGCAGGGATTTTAAATGTCCCGCTCTGAGCC
Downstream sequence
GAGGAGGTGAGAAGGGGGGGACAGTAAACCACTGTTCTATGAAGTCTCACGAGGCAAGTGCTCAAGGTAAAAAAAGAGTCCTGGAGAATCGTCCACGGCT
Reference
Chiu, Y. T., et al. Novel pre-mRNA splicing of intronically integrated HBV generates oncogenic chimera in hepatocellular carcinoma. J Hepatol ,2016,64(6): 1256-1264.