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VISDB
Viral Integration Site DataBase
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TVIS10006120
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10006120
Fusion event
HBV-SLC41A2 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
1931
Orient
-
Integrated sequence
TGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATTGACCCGTATAAAGAATTTGGAG| |CTTCTGTGGAGTTACTCTCTTTTTTGCCTTCTGACTTCTTTCCTTCTATTCGAGATCTCCTCGACACCGCCTCTGCTCTGTATCGGGAGGCCTTAGAGTC
Host Sequence
Chromosome
chr12
Cytoband
q23.3
Reference genome
GRCh37/hg19
Start
105312743/104918965 (Hg38)
End
105312743/104918965 (Hg38)
Orient
-
Location type
Intron
Target gene
SLC41A2
miRNAs that regulate target gene
hsa-mir-377-3p
;
hsa-mir-7110-3p
;
hsa-mir-126-3p
;
hsa-mir-8485
;
hsa-mir-342-3p
;
hsa-mir-6873-3p
;
hsa-mir-6895-3p
;
hsa-mir-6817-3p
;
hsa-mir-3184-3p
;
hsa-mir-22-5p
;
hsa-mir-1827
;
hsa-mir-34b-3p
;
hsa-mir-3614-5p
;
hsa-mir-3689d
;
hsa-mir-3929
;
hsa-mir-4419b
;
hsa-mir-4459
;
hsa-mir-4478
;
hsa-mir-4649-3p
;
hsa-mir-4722-5p
;
hsa-mir-4768-3p
;
hsa-mir-485-5p
;
hsa-mir-6134
;
hsa-mir-6500-3p
;
hsa-mir-665
;
hsa-mir-6746-5p
;
hsa-mir-6771-5p
;
hsa-mir-6808-5p
;
hsa-mir-6851-5p
;
hsa-mir-6880-5p
;
hsa-mir-6884-5p
;
hsa-mir-6893-5p
;
hsa-mir-7160-5p
;
hsa-mir-7847-3p
;
hsa-mir-940
Nearest miRNA
hsa-let-7i/Upstream/327249; hsa-mir-1178/Downstream/3716845;
Nearest TSS
ENST00000382841/Upstream/84786;
ENST00000280749/Downstream/9237;
Nearest CpG islands
None/Target,
chr12-CpG: 104/Upstream/161746
,
chr12-CpG: 90/Downstream/38830
Junction sequence
AA
* 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
RK213_NT
Sample type
Nontumor
Age
62
Gender
Male
CpG Island Information
×
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