hsa-mir-130b-3p _LIHC.png
SFXN5 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005798
Fusion event
HBV-SFXN5 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
1815
Orient
+
Integrated sequence
TGTTTGTTTAAGGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGTTCACCAGCACCAT| |GCAACTTTTTCACCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATTGACCCG
Host Sequence
Chromosome
chr2
Cytoband
p13.2
Reference genome
GRCh37/hg19
Start
73201016/72973887 (Hg38)
End
73201016/72973887 (Hg38)
Orient
-
Location type
Intron
Fragile sites / regions
FRA2S ; FRA2E
Target gene
SFXN5
miRNAs that regulate target gene
hsa-mir-130b-3p ; hsa-mir-93-5p ; hsa-mir-466 ; hsa-mir-3941 ; hsa-mir-4672 ; hsa-mir-186-3p ; hsa-mir-4801 ; hsa-mir-6504-3p ; hsa-mir-4731-3p ; hsa-mir-605-5p ; hsa-mir-137 ; hsa-mir-496
Nearest miRNA
hsa-mir-1285-2/Upstream/2720882; hsa-mir-10b/Downstream/2116925;
Nearest TSS
ENST00000437798/Upstream/39532; ENST00000398468/Downstream/7230;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/48956, chr2-CpG: 156/Downstream/96614
Upstream sequence
CTCTAGTGGCCTTAGGGAGGCTATGCATCCCCCATGCCCTTGGAGCTGCCAGGCTTTCGGTTCCCAGGAGACCTAAGAAAACCGTTGAGAGGACAGTGGG
Downstream sequence
GTTTTCTGCCCTGAAAGGCATCAATCCTAGCCCTCTGATGACGCTGTCCACCATACCACCACCACCGCCACTCCCAGAAAGGCAAAGTTACAGGAATGTG
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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