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VISDB
Viral Integration Site DataBase
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TVIS10013223
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10013223
Fusion event
HBV-chr17 integration
Validated
No
Detection method
NGS
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
30271481
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Region type
X protein|Polymerase|
Start
1401
Orient
-
Integrated sequence
CGCAGCAGGTCTGGAGCAAACATTATCGGGACTGATAACTCTGTTGTCCTATCCCGCAAATATACATCGTTTCCATGGCTGCTAGGCTGTGCTGCCAACT| |GGATCCTGCGCGGGACGTCCTTTGTTTACGTCCCGTCGGCGCTGAATCCTGCGGACGACCCTTCTCGGGGTCGCTTGGGACTCTCTCGTCCCCTTCTCCG
Host Sequence
Chromosome
chr17
Cytoband
q21.31
Reference genome
GRCh37/hg19
Start
44400507/46323141 (Hg38)
End
44400507/46323141 (Hg38)
Orient
-
Location type
Intronic
Target gene
ARL17A
;
ARL17B
;
LRRC37A
miRNAs that regulate target gene
hsa-mir-26b-5p
;
hsa-mir-578
;
hsa-mir-106a-3p
;
hsa-mir-6879-3p
;
hsa-mir-4430
;
hsa-mir-3652
;
hsa-mir-24-3p
;
hsa-mir-4284
;
hsa-mir-122-5p
;
hsa-mir-504-3p
;
hsa-mir-3135b
;
hsa-mir-7158-5p
;
hsa-mir-3655
;
hsa-mir-500b-3p
;
hsa-mir-454-3p
;
hsa-mir-4295
;
hsa-mir-3666
;
hsa-mir-301b-3p
;
hsa-mir-301a-3p
;
hsa-mir-130b-3p
;
hsa-mir-130a-3p
;
hsa-mir-1245b-3p
;
hsa-mir-212-5p
;
hsa-mir-4330
;
hsa-mir-4454
;
hsa-mir-4707-3p
;
hsa-mir-4757-5p
;
hsa-mir-6744-3p
;
hsa-mir-6878-3p
Nearest miRNA
hsa-mir-1180/Upstream/847706; hsa-mir-10226/Downstream/649876;
Nearest TSS
ENST00000595228/Upstream/28010;
ENST00000572638/Downstream/29741;
Nearest CpG islands
None/Target,
chr17-CpG: 26/Upstream/55685
,
chr17-CpG: 70/Downstream/38058
Upstream sequence
TCTGAGATTTATTTTTACTTAGTTGGTTCTTTAGGTTTGTTTTATTAttttcttaagtcaggttcattgaggtataattttcatatagtaacattcacgc
Downstream sequence
tttttaagtgtacagtttgatgagtctgacaaatgtatagttacataaccaccaccacattcccaatataaagcatttctgatgcctcaaaaaggcccct
Reference
Yang, L., et al. Molecular Characterization of HBV DNA Integration in Patients with Hepatitis and Hepatocellular Carcinoma. J Cancer ,2018,9(18): 3225-3235.
Sample Information
×
Sample name
813P
Sample type
Nontumor
Gender
Female
CpG Island Information
×
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