Basic Information
VIS ID
TVIS10000175
Fusion event
HBV-SPIDR integration
Validated
Yes
Detection method
invPCR
Data source
Curated
Sample type
Cell line
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Perfect
Reported year
2018
PubMed ID
29437961
Virus Sequence
Virus name
HBV
Reference genome
U95551.1
End
1759
Integrated sequence
GAGGACTCTTGGACTCTCTGCAATGTCAACGACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGA| |TTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCC
Host Sequence
Chromosome
chr8
Cytoband
q11.21
Reference genome
GRCh38.p7
Start
47273920 (Hg38)
End
47273920 (Hg38)
Orient
-
Location type
Intronic
Target gene
SPIDR
miRNAs that regulate target gene
hsa-mir-5047 ; hsa-mir-1301-3p ; hsa-mir-7156-3p ; hsa-mir-197-3p ; hsa-mir-6841-3p ; hsa-mir-4691-3p ; hsa-mir-3613-3p ; hsa-mir-4282
Nearest miRNA
hsa-mir-124-1/Upstream/4377645; hsa-mir-10400/Downstream/14440868;
Nearest TSS
ENST00000518652/Upstream/12955; ENST00000521798/Downstream/2913;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/12421, chr8-CpG: 229/Downstream/463284
Downstream sequence
GACTGGGAGGAGTTGGGGGAGGAGATTAGA
Junction sequence
GGAGATTAGAGCTTTATAAAAACACTTTAAGACTGGGAGGAGTTGGGGGAGGAGATTAGA
* 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).
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