Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10017917
Fusion event
HBV-TFAP2A 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
X protein;Polymerase;
Start
1500
Integrated sequence
GATCCTGCGCGGGACGTCCTTTGTCTACGTCCCGTCGGCGCTGAATCCCGCGGACGACCCGTCTCGGGGCCGTTTGGGACTCTACCGTCCCCTTCTTCGT| |CTGCCGTTCCGGCCGACCACGGGGCGCACCTCTCTTTACGCGGTCTCCCCGTCTGTGCCTTCTCATCTGCCGGACCGTGTGCACTTCGCTTCACCTCTGC
Host Sequence
Chromosome
chr6
Cytoband
p24.3
Reference genome
Start
End
10411275/10411042 (Hg38)
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-221-3p ; hsa-mir-103a-3p ; hsa-mir-98-5p ; hsa-mir-16-5p ; hsa-mir-320a ; hsa-mir-3529-3p ; hsa-mir-628-5p ; hsa-mir-4524b-5p ; hsa-mir-4524a-5p ; hsa-mir-3202 ; hsa-mir-8075 ; hsa-mir-873-5p ; hsa-mir-761 ; hsa-mir-3619-5p ; hsa-mir-214-3p ; hsa-mir-296-3p ; hsa-mir-6876-5p ; hsa-mir-6165 ; hsa-mir-4476 ; hsa-mir-646 ; hsa-mir-6838-5p ; hsa-mir-503-5p ; hsa-mir-497-5p ; hsa-mir-424-5p ; hsa-mir-195-5p ; hsa-mir-15b-5p ; hsa-mir-15a-5p ; hsa-mir-302c-5p ; hsa-mir-433-3p ; hsa-mir-3143 ; hsa-mir-7154-5p ; hsa-mir-664b-5p ; hsa-mir-548v ; hsa-mir-187-5p ; hsa-mir-302d-5p ; hsa-mir-302b-5p ; hsa-mir-8060 ; hsa-mir-4760-3p ; hsa-mir-10a-3p ; hsa-mir-222-3p ; hsa-mir-629-3p ; hsa-mir-6867-3p ; hsa-mir-4713-5p ; hsa-mir-4685-3p ; hsa-mir-7113-3p ; hsa-mir-4287 ; hsa-mir-4469 ; hsa-mir-3162-3p ; hsa-mir-338-5p ; hsa-mir-193a-5p ; hsa-mir-3960 ; hsa-mir-4436b-3p ; hsa-mir-4467 ; hsa-mir-4632-5p ; hsa-mir-6735-5p ; hsa-mir-6814-5p ; hsa-mir-6820-5p ; hsa-mir-6879-5p ; hsa-mir-711 ; hsa-mir-7843-5p ; hsa-mir-8072 ; hsa-mir-885-3p
Nearest miRNA
hsa-mir-3691/Upstream/4241607; hsa-mir-10398/Downstream/28675;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/585, chr6-CpG: 182/Downstream/119
Nearest cancer related gene
TFAP2A(TSG, No orient, 0)
Upstream sequence
cagcgctttgggaggccgaggcaggcggatcatgaggtcaggagatggagaccatcctggctaacacggtgaaaAAAAAAAAAAAAGTCCCAACAAAATA
Downstream sequence
GTGGCCCCCCCCCCCCGCCCCTTCCACCCCAGCCCCAAAGGGCAGAAGAAACGCCTGACTTTAGGTTTCTCTATTGCAATTCCCTTGCAAAACAAGCGAA
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.