hsa-mir-130b-3p _LIHC.png
RAB5A _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005987
Fusion event
HBV-RAB5A 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
2690
Orient
-
Integrated sequence
TGTGGGCCCTCTTACAGTTAATGAAAAAAGGAGATTAAAATTAATTATGCCTGCTAGGTTCTATCCTAACCTTACCAAATATTTGCCCTTGGATAAAGGC| |ATTAAACCTTATTATCCTGAACATGCAGTTAATCATTACTTCAAAACTAGGCATTATTTACATACTCTGTGGAAGGCTGGCATTCTATATAAGAGAGAAA
Host Sequence
Chromosome
chr3
Cytoband
p24.3
Reference genome
GRCh37/hg19
Start
20019388/19977896 (Hg38)
End
20019388/19977896 (Hg38)
Orient
-
Location type
Intron
Target gene
RAB5A
miRNAs that regulate target gene
hsa-mir-101-3p ; hsa-mir-130a-3p ; hsa-mir-130b-3p ; hsa-mir-33a-5p ; hsa-mir-18a-5p ; hsa-mir-451a
Nearest miRNA
hsa-mir-12127/Upstream/662965; hsa-let-7g/Downstream/159669;
Nearest TSS
ENST00000440867/Upstream/2380; ENST00000426228/Downstream/34361;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/30067, chr3-CpG: 96/Downstream/62070
Upstream sequence
GAACTTGACCGTTGTGCCCTGAAGTTGCTTCCCATCGAGGGACTCAGCATGGCAGTTCCAATCCTGGGAGACATCACCTGAGCTCCATGACATCCCAGTG
Downstream sequence
CATTTAGTGTTTGAAGCCAGTGTTAGATATTTGGTTTCCCTTTGTCTTCATTGCAGACAGTAAGTGCAAATAAAAATTGCCGTTGAGATCAAAGAGAGTT
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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