Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10004877
Fusion event
HBV-MGAT4C integration
Validated
No
Detection method
PCR and Ultra-deep sequencing
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
Start
1798
Orient
+
Integrated sequence
AGGCATACTTCAAAGACTGTTTGTTTAAGGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGT| |CTGTTCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGG
Host Sequence
Chromosome
chr12
Cytoband
q21.31
Reference genome
Start
End
86420702/86026924 (Hg38)
Orient
-
Location type
Intron
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-335-3p ; hsa-mir-1305 ; hsa-mir-5584-5p ; hsa-mir-607 ; hsa-mir-1277-5p ; hsa-mir-496 ; hsa-mir-656-3p ; hsa-mir-410-3p ; hsa-mir-3924 ; hsa-mir-190a-3p ; hsa-mir-4789-5p ; hsa-mir-98-3p ; hsa-let-7f-1-3p ; hsa-let-7b-3p ; hsa-let-7a-3p ; hsa-mir-4666a-5p ; hsa-mir-5011-5p ; hsa-mir-4666a-3p ; hsa-mir-381-3p ; hsa-mir-300 ; hsa-mir-4789-3p ; hsa-mir-4719 ; hsa-mir-4801 ; hsa-mir-4731-3p ; hsa-mir-4797-5p ; hsa-mir-8485 ; hsa-mir-377-3p ; hsa-mir-3614-3p ; hsa-mir-1287-3p
Nearest miRNA
hsa-let-7i/Upstream/4868463; hsa-mir-1178/Downstream/718144;
Nearest CpG islands
Upstream sequence
CTTCCAATCTGTGTGTGTATAATTTCTCTAGAGTCCAGAAGATTACTAAAAGGGATCCTTTTCAATTAAAGTAGCAACAGTGAAGCATTTGTGTATCGTA
Downstream sequence
CCATTTACTAAGTGGAAGGTAATCCTCATAGAAAATACACATGTTGCAATCTATTTGGATTTCATTTCTAAAGTCATTATTAACTAGTTCTCAGTATACT
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).