Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10004698
Fusion event
HBV-ORC1 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
1784
Orient
+
Integrated sequence
AACGACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAGGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGT| |AGGCATAAATTGGTCTGTTCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCT
Host Sequence
Chromosome
chr1
Cytoband
p32.3
Reference genome
Start
End
52849920/52384248 (Hg38)
Orient
-
Location type
Intron
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-92b-3p ; hsa-mir-320a ; hsa-mir-7703 ; hsa-mir-6720-5p ; hsa-mir-6729-5p ; hsa-mir-6512-3p ; hsa-mir-4649-5p ; hsa-mir-1273a ; hsa-mir-661 ; hsa-mir-4696 ; hsa-mir-4725-5p ; hsa-mir-4486 ; hsa-mir-766-3p ; hsa-mir-5699-3p ; hsa-mir-4421 ; hsa-mir-939-3p ; hsa-mir-339-5p ; hsa-mir-6501-3p ; hsa-mir-6849-3p ; hsa-mir-451b ; hsa-mir-508-5p ; hsa-mir-10b-5p ; hsa-mir-3667-5p ; hsa-mir-10a-5p ; hsa-mir-372-5p ; hsa-mir-371a-5p ; hsa-mir-616-5p ; hsa-mir-373-5p ; hsa-mir-371b-5p ; hsa-mir-3613-3p ; hsa-mir-106a-3p ; hsa-mir-130a-3p ; hsa-mir-130b-3p ; hsa-mir-301a-3p ; hsa-mir-301b-3p ; hsa-mir-3135b ; hsa-mir-3194-3p ; hsa-mir-3650 ; hsa-mir-3652 ; hsa-mir-3666 ; hsa-mir-3689d ; hsa-mir-4295 ; hsa-mir-4430 ; hsa-mir-454-3p ; hsa-mir-4695-3p ; hsa-mir-504-3p ; hsa-mir-5691 ; hsa-mir-6787-3p ; hsa-mir-6805-3p ; hsa-mir-7641
Nearest miRNA
hsa-mir-12136/Upstream/547846; hsa-mir-101-1/Downstream/1669831;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/15392, chr1-CpG: 40/Downstream/19947
Upstream sequence
AGTCACAGGCTGGGCCAGAAGCCCCCTTAAAATCACTATTACAGAATTCTATAACTGGATGTTACCTGCTCCAAAATAACAGCCCATGGACAAAGAGCAA
Downstream sequence
GGCTTAACCTCTGGCCTGCCACGGACCCCTTTTCCATGTTGCCACACTGCTACCTGTAAGCTCACAGTTTTCACCATGTGGGTAAGTACTGGCTTCCTGG
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).