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VISDB
Viral Integration Site DataBase
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TVIS10000254
Proximate region of VIS (GRCh38)
VIS
Enhancer
Enhancer/Promoter
Promoter
Gene
22657107
22547671
22578642
22560553
22584261
22587522
22607517
22574602
22580746
22581005
22585455
22581559
22585799
22570758
22573385
22567323
22569685
22557113
22558816
22563339
22564546
22555902
22557104
22561983
22562893
22601031
22601792
22586783
22587094
22570523
22570672
22601863
22601892
22602389
Basic Information
VIS ID
TVIS10000254
Fusion event
HBV-LNCNEF 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
1828
Integrated sequence
AGACTGGGAGGAGTTGGGGGAGGAGATTAGATTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTTC| |ACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGAATT
Host Sequence
Chromosome
chr20
Cytoband
p11.21
Reference genome
GRCh38.p7
Start
22602389 (Hg38)
End
22602389 (Hg38)
Orient
-
Location type
Intronic
Target gene
LNCNEF
Nearest miRNA
hsa-mir-103a-2/Upstream/4131698; hsa-mir-1-1/Downstream/3605797;
Nearest TSS
ENST00000382410/Upstream/16934;
ENST00000635173/Downstream/5128;
Nearest CpG islands
None/Target,
chr20-CpG: 39/Upstream/15147
,
chr20-CpG: 117/Downstream/432690
Downstream sequence
GTCTGCGCACCAGCACCATGCAACTTTTTC
Junction sequence
T
T
T
C
T
G
T
G
G
T
G
G
A
A
T
A
T
G
A
T
G
G
C
C
C
T
C
T
A
A
G
T
C
T
G
C
G
C
A
C
C
A
G
C
A
C
C
A
T
G
C
A
A
C
T
T
T
T
T
C
* 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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