KHDRBS3 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005825
Fusion event
HBV-KHDRBS3 integration
Validated
No
Detection method
PCR and Ultra-deep sequencing
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
29861854
Virus Sequence
Virus name
HBV
Reference genome
AP011098
Start
1320
Orient
+
Integrated sequence
AGGCCATCGGCGCATGCGTGGAACCTTTGTGGCTCCTCTGCCGATCCATACTGCGGAACTCCTAGCAGCTTGTTTTGCTCGCAGCCGGTCTGGAGCAAAA| |CTTATCGGGACTGACAACTCTGTTGTCCTCTCTCGGAAATACACCTCCTTCCCATGGCTGCTCGGGTGTGCTGCCAACTGGATCCTGCGCGGGACGTCCT
Host Sequence
Chromosome
chr8
Cytoband
q24.23
Reference genome
GRCh37/hg19
Start
136527732/135515489 (Hg38)
End
136527732/135515489 (Hg38)
Orient
-
Location type
Intron
Target gene
KHDRBS3
miRNAs that regulate target gene
hsa-mir-215-5p ; hsa-mir-192-5p
Nearest miRNA
hsa-mir-1204/Upstream/710544; hsa-mir-10400/Downstream/5217075;
Nearest TSS
ENST00000518652/Upstream/56782; ENST00000519600/Downstream/23045;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/57390, chr8-CpG: 119/Downstream/2981063
Upstream sequence
ACTACtgaaaataatcaagcatattgtagaaaatctagaaaatgcagcaaaatgtcaaaataaaattattaaacatctataatcccctgacctacagata
Downstream sequence
tttccacccttcctactctgctctgtgcccagaggctgatatgcatggtacaagacctgtatcatagatatatttaccctctggctttgagctgggttaa
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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