Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10006119
Fusion event
HBV-SLC41A2 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
1810
Orient
+
Integrated sequence
AAGACTGTTTGTTTAAGGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGTTCACCAGC| |ACCATGCAACTTTTTCACCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATTG
Host Sequence
Chromosome
chr12
Cytoband
q23.3
Reference genome
End
105312717/104918939 (Hg38)
Orient
+
Location type
Intron
Target gene
miRNAs that regulate target gene
hsa-mir-377-3p ; hsa-mir-7110-3p ; hsa-mir-126-3p ; hsa-mir-8485 ; hsa-mir-342-3p ; hsa-mir-6873-3p ; hsa-mir-6895-3p ; hsa-mir-6817-3p ; hsa-mir-3184-3p ; hsa-mir-22-5p ; hsa-mir-1827 ; hsa-mir-34b-3p ; hsa-mir-3614-5p ; hsa-mir-3689d ; hsa-mir-3929 ; hsa-mir-4419b ; hsa-mir-4459 ; hsa-mir-4478 ; hsa-mir-4649-3p ; hsa-mir-4722-5p ; hsa-mir-4768-3p ; hsa-mir-485-5p ; hsa-mir-6134 ; hsa-mir-6500-3p ; hsa-mir-665 ; hsa-mir-6746-5p ; hsa-mir-6771-5p ; hsa-mir-6808-5p ; hsa-mir-6851-5p ; hsa-mir-6880-5p ; hsa-mir-6884-5p ; hsa-mir-6893-5p ; hsa-mir-7160-5p ; hsa-mir-7847-3p ; hsa-mir-940
Nearest miRNA
hsa-let-7i/Upstream/327223; hsa-mir-1178/Downstream/3716871;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/161720, chr12-CpG: 90/Downstream/38856
Upstream sequence
agagagatcccatgtaacccttaccccatttttccccagtggtatcttgcaaaaactacagtacaatatcacaaccaagatattggcattgatacagtca
Downstream sequence
agatatagaacatttccatcaccacaaggagctctcctaattctcttttagagccatttctctccactactaatacctccttaaccactggcaaccacta
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).