TCF12 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005583
Fusion event
HBV-TCF12 integration
Validated
No
Detection method
PCR and Ultra-deep sequencing
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
29861854
Virus Sequence
Virus name
HBV
Reference genome
AP011098
Start
1825
Orient
-
Integrated sequence
AGGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGTTCACCAGCACCATGCAACTTTTT| |CACCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATTGACCCGTATAAAGAAT
Host Sequence
Chromosome
chr15
Cytoband
q21.3
Reference genome
GRCh37/hg19
Start
57278011/56985813 (Hg38)
End
57278011/56985813 (Hg38)
Orient
-
Location type
Intron
Target gene
TCF12
miRNAs that regulate target gene
hsa-mir-204-5p ; hsa-mir-211-5p ; hsa-mir-375 ; hsa-mir-155-5p ; hsa-mir-26b-5p ; hsa-mir-1224-3p ; hsa-mir-548v ; hsa-mir-33a-3p ; hsa-mir-139-5p ; hsa-mir-8485
Nearest miRNA
hsa-mir-10393/Upstream/1612779; hsa-mir-11181/Downstream/2185370;
Nearest TSS
ENST00000557528/Upstream/66296; ENST00000569880/Downstream/77935;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/66006, chr15-CpG: 58/Downstream/320527
Upstream sequence
AATCTAGTTTTAATGATTCTTTTTAGGACACCAAAGCTCATGAAGCCTATTACAATAACGTGTTTAATTCTGAGTAATTGTTTTTCCTATTTAAATGAAG
Downstream sequence
AACTCAGTGACTAAAAATTTATTTCCTGCAAATTTTCTTAGATGATAGAAGTTATACGTAGTAAAACCAACAGGACCAACTGTGAGGCTGAAGGAATTTC
Reference
Tu, T., et al. Hepatitis B Virus DNA Integration Occurs Early in the Viral Life Cycle in an In Vitro Infection Model via Sodium Taurocholate Cotransporting Polypeptide-Dependent Uptake of Enveloped Virus Particles. J Virol ,2018,92(11).
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