Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005720
Fusion event
HBV-ABCC6 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
2303
Orient
+
Integrated sequence
TGGTTTCACATTTCCTGTCTTACTTTTGGAAGAGAAACTGTTCTTGAGTATTTGGTGTCTTTTGGAGTGTGGATTCGCACTCCTCCCGCTTACAGACCAC| |CAAATGCCCCTATCTTATCAACACTTCCGGAAACTACTGTTGTTAGACGACGAGGCAGGTCCCCTAGAAGAAGAACTCCCTCGCCTCGCAGACGAAGGTC
Host Sequence
Chromosome
chr16
Cytoband
p13.11
Reference genome
Start
End
16267242/16173385 (Hg38)
Orient
-
Location type
Exon
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-4739 ; hsa-mir-4665-5p ; hsa-mir-1275 ; hsa-mir-3191-5p ; hsa-mir-4447 ; hsa-mir-4472 ; hsa-mir-6769b-5p ; hsa-mir-6769a-5p ; hsa-mir-92a-2-5p ; hsa-mir-654-5p ; hsa-mir-541-3p ; hsa-mir-5010-5p ; hsa-mir-4525 ; hsa-mir-7111-5p ; hsa-mir-6870-5p ; hsa-mir-5698 ; hsa-mir-4723-5p ; hsa-mir-6825-5p ; hsa-mir-625-5p ; hsa-mir-7106-5p ; hsa-mir-765 ; hsa-mir-6081 ; hsa-mir-7978 ; hsa-mir-4456 ; hsa-mir-548q ; hsa-mir-4299 ; hsa-mir-6824-3p ; hsa-mir-6764-3p ; hsa-mir-330-5p ; hsa-mir-326 ; hsa-mir-518c-5p ; hsa-mir-761 ; hsa-mir-3619-5p ; hsa-mir-214-3p ; hsa-mir-6838-5p ; hsa-mir-6165 ; hsa-mir-497-5p ; hsa-mir-424-5p ; hsa-mir-195-5p ; hsa-mir-16-5p ; hsa-mir-15b-5p ; hsa-mir-15a-5p ; hsa-mir-4531 ; hsa-mir-5703 ; hsa-mir-4516 ; hsa-mir-4434 ; hsa-mir-4773 ; hsa-mir-8485 ; hsa-mir-3941 ; hsa-mir-603 ; hsa-mir-362-3p ; hsa-mir-329-3p
Nearest miRNA
hsa-mir-1225/Upstream/530013; hsa-mir-11401/Downstream/126774;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/223315, chr16-CpG: 30/Downstream/49994
Upstream sequence
TGCCGTATTGGATGCTGTCCTTTCCTGCTGGCCATCCTGCCCTGTCAGGGTCATCCAGAGGAACCTCTGTCTGGGCTTCTGAAGTGGTACGGTCCTTCTC
Downstream sequence
AGGGACTGACTTGATGGACCTGTCATTTAGAGGAAATGAAGACAAAGTCAGTATCTCTCCCAATGGTGGGGTGTATGTGCCTAACCCTCAGGCCCACTGA
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).