ADAMTS6 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005493
Fusion event
HBV-ADAMTS6 integration
Validated
No
Detection method
PCR and Ultra-deep sequencing
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
29861854
Virus Sequence
Virus name
HBV
Reference genome
AP011098
Start
2758
Orient
+
Integrated sequence
ACCTTACCAAATATTTGCCCTTGGATAAAGGCATTAAACCTTATTATCCTGAACATGCAGTTAATCATTACTTCAAAACTAGGCATTATTTACATACTCT| |GTGGAAGGCTGGCATTCTATATAAGAGAGAAACTACACGCAGCGCTTCATTTTGTGGGTCACCATATTCTTGGGAACAAGAGCTACAGCATGGGAGGTTG
Host Sequence
Chromosome
chr5
Cytoband
q12.3
Reference genome
GRCh37/hg19
Start
64503436/65207609 (Hg38)
End
64503436/65207609 (Hg38)
Orient
-
Location type
Intron
Target gene
ADAMTS6
miRNAs that regulate target gene
hsa-mir-148b-3p ; hsa-mir-221-3p
Nearest miRNA
hsa-mir-10397/Upstream/5503906; hsa-mir-103a-1/Downstream/6961858;
Nearest TSS
ENST00000502646/Upstream/8844; ENST00000508982/Downstream/6574;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/104220, chr5-CpG: 43/Downstream/355339
Upstream sequence
tttcattaatttcactttcttaaaatttctcccttaattttgattttcacacagaagttattcaggagaaagttgtttaattttcatctatttgtgtagt
Downstream sequence
AAAGTAGGGTAGAAAATTATCATGAATATTGCTGCATTCTGCAAAGATTCATTCTCTTAAAGAAAGTAACTTCCTAAAAAATGAAGGTCTTCTCTGATTA
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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