Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10000123
Fusion event
HBV-KDR integration
Validated
Yes
Detection method
invPCR
Data source
Curated
Sample type
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Perfect
Reported year
2018
PubMed ID
Virus Sequence
Virus name
HBV
Reference genome
End
1827
Integrated sequence
AAGACTGGGAGGAGTTGGGGGAGGAGATTAGATTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTT| |CACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGAAT
Host Sequence
Chromosome
chr4
Cytoband
q12
Reference genome
Start
End
55121967 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-19b-1-5p ; hsa-mir-200b-3p ; hsa-mir-16-5p ; hsa-mir-335-5p ; hsa-mir-1236-3p ; hsa-mir-17-3p ; hsa-mir-200c-3p ; hsa-mir-15b-5p ; hsa-mir-4799-5p ; hsa-mir-548ay-3p ; hsa-mir-548at-3p ; hsa-mir-548as-3p ; hsa-mir-548t-3p ; hsa-mir-548ap-3p ; hsa-mir-548aa ; hsa-mir-296-5p ; hsa-mir-199a-3p ; hsa-mir-195-5p
Nearest miRNA
hsa-mir-12113/Upstream/2409220; hsa-mir-1243/Downstream/5800652;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/462837, chr4-CpG: 64/Downstream/3268
Downstream sequence
GGTCTGCGCACCAGCACCATGCAACTTTTT
Junction sequence
ACATACATGCAAACTAATGTACTTTTCTCCGGTCTGCGCACCAGCACCATGCAACTTTTT
* Color:
Human Sequence
/
Virus Sequence
/
Overlapped sequence
/
Unknown sequence
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).