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VISDB
Viral Integration Site DataBase
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TVIS10000259
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10000259
Fusion event
HBV-NCAM2 integration
Validated
Yes
Detection method
invPCR
Data source
Curated
Sample type
Cell line
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Perfect
Reported year
2018
PubMed ID
29437961
Virus Sequence
Virus name
HBV
Reference genome
U95551.1
End
1819
Integrated sequence
TTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGATTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGC| |AACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTA
Host Sequence
Chromosome
chr21
Cytoband
q21.1
Reference genome
GRCh38.p7
Start
21219410 (Hg38)
End
21219410 (Hg38)
Orient
-
Location type
Intronic
Target gene
NCAM2
miRNAs that regulate target gene
hsa-mir-335-5p
;
hsa-mir-26b-5p
;
hsa-mir-6885-3p
;
hsa-mir-1273e
;
hsa-mir-3591-3p
;
hsa-mir-21-3p
;
hsa-mir-1277-5p
;
hsa-mir-3924
;
hsa-mir-190a-3p
;
hsa-mir-223-5p
;
hsa-mir-511-3p
;
hsa-mir-5011-5p
;
hsa-mir-3065-5p
;
hsa-mir-3529-3p
;
hsa-mir-5688
;
hsa-mir-495-3p
;
hsa-mir-3658
;
hsa-mir-6505-5p
;
hsa-mir-3653-3p
;
hsa-mir-4790-3p
;
hsa-mir-6507-5p
;
hsa-mir-2116-5p
;
hsa-mir-22-5p
;
hsa-mir-26b-3p
;
hsa-mir-3622a-5p
;
hsa-mir-4423-3p
;
hsa-mir-4652-3p
;
hsa-mir-4677-5p
;
hsa-mir-4778-5p
;
hsa-mir-5582-5p
;
hsa-mir-627-3p
;
hsa-mir-6806-5p
Nearest miRNA
hsa-let-7c/Upstream/2533246; hsa-mir-155/Downstream/1859874;
Nearest TSS
ENST00000624081/Upstream/221095;
ENST00000486367/Downstream/7419;
Nearest CpG islands
None/Target,
chr21-CpG: 261/Upstream/221165
,
chr21-CpG: 28/Downstream/4142384
Downstream sequence
CATAAATTGGTCTGCGCACCAGCACCATGC
Junction sequence
CTAAAACACTGTCATGTGACTGTAAATGTTCATAAATTGGTCTGCGCACCAGCACCATGC
* 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
Huh7-NTCP
Sample type
Cell line
Gender
Female
CpG Island Information
×
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