hsa-mir-4761-5p _LIHC.png
hsa-mir-1294 _LIHC.png
hsa-mir-3199 _LIHC.png
SGCD _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005487
Fusion event
HBV-SGCD 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
1600
Orient
+
Integrated sequence
CTGCCGTTCCGGCCGACCACGGGGCGCACCTCTCTTTACGCGGTCTCCCCGTCTGTGCCTTCTCATCTGCCGGACCGTGTGCACTTCGCTTCACCTCTGC| |ACGTCGCATGGAGACCACCGTGAACGCCCACCAGGTCTTGCCCAAGGTCTTACATAAGAGGACTCTTGGACTCTCAGCAATGTCAACGACCGACCTTGAG
Host Sequence
Chromosome
chr5
Cytoband
q33.3
Reference genome
GRCh37/hg19
Start
155791875/156364865 (Hg38)
End
155791875/156364865 (Hg38)
Orient
+
Location type
Intron
Target gene
SGCD
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-647 ; hsa-mir-1294 ; hsa-mir-4316 ; hsa-mir-6762-3p ; hsa-mir-604 ; hsa-mir-3926 ; hsa-mir-4480 ; hsa-mir-5008-5p ; hsa-mir-6089 ; hsa-mir-4761-5p ; hsa-mir-641 ; hsa-mir-3617-5p ; hsa-mir-10b-3p ; hsa-mir-5680 ; hsa-mir-1305 ; hsa-mir-607 ; hsa-mir-511-5p ; hsa-mir-6830-3p ; hsa-mir-627-3p ; hsa-mir-4698 ; hsa-mir-8063 ; hsa-mir-4307 ; hsa-mir-6839-3p ; hsa-mir-519e-5p ; hsa-mir-515-5p ; hsa-mir-629-5p ; hsa-mir-365b-5p ; hsa-mir-365a-5p ; hsa-mir-8052 ; hsa-mir-3199 ; hsa-mir-5695 ; hsa-mir-519d-5p ; hsa-mir-4506 ; hsa-mir-335-3p ; hsa-mir-4477a ; hsa-mir-6759-3p ; hsa-mir-3152-3p ; hsa-mir-33a-3p ; hsa-mir-409-3p ; hsa-mir-320e
Nearest miRNA
hsa-mir-10397/Upstream/1535325; hsa-mir-103a-1/Downstream/4109537;
Nearest TSS
ENST00000502646/Upstream/37917; ENST00000522232/Downstream/374947;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/635491, chr5-CpG: 45/Downstream/485426
Upstream sequence
aaagcaagtctggataaattttaaaaaatgaaatcatatcaagcacactcttagatctcaatgtaatcaaaatataaataaataccaacatctctcaaca
Downstream sequence
ttaggacatttgagttatggtctgggctttttcacaagctatgagaccttgggcatactacctgtcgcctctgggcatcatggtgcatgttggtaaaacg
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).
Curate