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VISDB
Viral Integration Site DataBase
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TVIS10005430
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005430
Fusion event
HBV-ELP3 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
1827
Orient
+
Integrated sequence
GACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGTTCACCAGCACCATGCAACTTTTTCA| |CCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATTGACCCGTATAAAGAATTT
Host Sequence
Chromosome
chr8
Cytoband
p21.1
Reference genome
GRCh37/hg19
Start
28034263/28176746 (Hg38)
End
28034263/28176746 (Hg38)
Orient
+
Location type
Intron
Target gene
ELP3
miRNAs that regulate target gene
hsa-mir-16-5p
;
hsa-mir-342-5p
;
hsa-mir-193b-3p
;
hsa-mir-3934-3p
;
hsa-mir-3664-3p
;
hsa-mir-1324
;
hsa-mir-4524b-3p
;
hsa-mir-4684-5p
;
hsa-mir-3675-3p
;
hsa-mir-5583-3p
;
hsa-mir-6771-3p
;
hsa-mir-548c-3p
;
hsa-mir-4786-5p
;
hsa-mir-7162-3p
;
hsa-mir-544b
;
hsa-mir-6849-3p
;
hsa-mir-4433a-3p
;
hsa-mir-4459
;
hsa-mir-4768-3p
;
hsa-mir-6765-3p
;
hsa-mir-3622b-3p
;
hsa-mir-3622a-3p
;
hsa-mir-4293
Nearest miRNA
hsa-mir-124-1/Upstream/290630; hsa-mir-10400/Downstream/328370;
Nearest TSS
ENST00000518652/Upstream/18148;
ENST00000518479/Downstream/140240;
Nearest CpG islands
None/Target,
chr8-CpG: 109/Upstream/83395
,
chr8-CpG: 160/Downstream/208654
Junction sequence
AAAAAGT
* Color:
Human Sequence
/
Virus Sequence
/
Overlapped sequence
/
Unknown sequence
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).
Sample Information
×
Sample name
RK085_NT
Sample type
Nontumor
Age
65
Gender
Male
CpG Island Information
×
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