Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10004695
Fusion event
HBV-RBM33 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
1695
Orient
+
Integrated sequence
TCTGCACGTCGCATGGAGACCACCGTGAACGCCCACCAGGTCTTGCCCAAGGTCTTACATAAGAGGACTCTTGGACTCTCAGCAATGTCAACGACCGACC| |TTGAGGCATACTTCAAAGACTGTTTGTTTAAGGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATT
Host Sequence
Chromosome
chr7
Cytoband
q36.3
Reference genome
End
155444002/155651308 (Hg38)
Orient
-
Location type
Intron
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-106b-3p ; hsa-mir-20a-3p ; hsa-mir-221-3p ; hsa-mir-34a-5p ; hsa-mir-33a-5p ; hsa-mir-570-3p ; hsa-mir-586 ; hsa-mir-33b-5p ; hsa-mir-510-3p ; hsa-mir-934 ; hsa-mir-3618 ; hsa-mir-5096 ; hsa-mir-3912-5p ; hsa-mir-6749-3p ; hsa-mir-6802-3p ; hsa-mir-6753-3p ; hsa-mir-7107-3p ; hsa-mir-3667-3p ; hsa-mir-660-3p ; hsa-mir-5193 ; hsa-mir-5088-3p ; hsa-mir-3620-3p ; hsa-mir-6865-3p ; hsa-mir-6866-3p ; hsa-mir-188-5p ; hsa-mir-1292-5p ; hsa-mir-1972 ; hsa-mir-4502 ; hsa-mir-5586-3p ; hsa-mir-759 ; hsa-mir-8075
Nearest miRNA
hsa-mir-10399/Upstream/4217669; hsa-mir-153-2/Downstream/1923028;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/6185, chr7-CpG: 19/Downstream/129600
Upstream sequence
TGTTTCTTATACTTGAATACTGTTAATACCATAAGAAAAGGAATAATGAAAATGTAGGGTGCATTGTGTTCATATTCATAGCTATACAGATGTAACAAAA
Downstream sequence
tttgtaagatttttggcggtattgttgtgttttctggcatccagatctgctcttgagaagtttgaggacattctgattcctaatcattttttatgtgacc
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).