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VISDB
Viral Integration Site DataBase
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TVIS10020215
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10020215
Fusion event
HBV-chr17 integration
Validated
No
Detection method
VirusScan
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2016
PubMed ID
27339696
Virus Sequence
Virus name
HBV
Reference genome
NC_003977.1
Start
1085
End
2181
Orient
+
Integrated sequence
GGCTTTCACTTTCTCGCCAACTTACAAGGCCTTTCTGTGTAAACAATATCTAAACCTTTACCCCGTTGCCCGGCAACGGTCAGGTCTCTGCCAAGTGTTTGCTGACGCAACCCCCACGGGTTGGGGCTTGGCCATAGGCCATCGGCGCATGCGTGGAACCTTTGTGGCTCCTCTGCCGATCCATACTGCGGAACTCCTAGCAGCTTGTTTTGCTCGCAGCCGGTCTGGAGCGAAACTTATCGGAACCGACAACTC
Host Sequence
Chromosome
chr17
Cytoband
p11.2
Reference genome
GRCh37/hg19
Start
19467296/19563983 (Hg38)
End
19468344/19565031 (Hg38)
Orient
+
Location type
Intronic
Target gene
LOC105371578
;
SLC47A1
miRNAs that regulate target gene
hsa-mir-6770-3p
;
hsa-mir-4730
;
hsa-mir-939-5p
;
hsa-mir-1343-5p
;
hsa-mir-3144-5p
;
hsa-mir-920
;
hsa-mir-6726-5p
;
hsa-mir-5591-5p
;
hsa-mir-4300
;
hsa-mir-6787-5p
;
hsa-mir-663a
;
hsa-mir-1908-5p
;
hsa-mir-4467
;
hsa-mir-4749-5p
;
hsa-mir-4706
;
hsa-mir-8072
;
hsa-mir-3960
;
hsa-mir-1307-3p
;
hsa-mir-6889-5p
;
hsa-mir-6777-5p
;
hsa-mir-3189-3p
;
hsa-mir-212-5p
;
hsa-mir-6784-5p
;
hsa-mir-4655-5p
;
hsa-mir-4665-5p
;
hsa-mir-5010-5p
;
hsa-mir-1275
;
hsa-mir-4525
;
hsa-mir-7111-5p
;
hsa-mir-6870-5p
;
hsa-mir-5698
;
hsa-mir-4723-5p
;
hsa-mir-625-5p
;
hsa-mir-6883-5p
;
hsa-mir-6825-5p
;
hsa-mir-6785-5p
;
hsa-mir-4728-5p
;
hsa-mir-149-3p
;
hsa-mir-3616-3p
;
hsa-mir-4680-5p
;
hsa-mir-7155-5p
;
hsa-mir-637
;
hsa-mir-4700-5p
;
hsa-mir-8089
;
hsa-mir-4667-5p
;
hsa-mir-330-5p
;
hsa-mir-326
;
hsa-mir-181d-3p
;
hsa-mir-514a-5p
;
hsa-mir-5008-5p
;
hsa-mir-6851-3p
;
hsa-mir-7160-3p
Nearest miRNA
hsa-mir-1180/Upstream/219409; hsa-mir-10226/Downstream/7728879;
Nearest TSS
ENST00000595228/Upstream/8151;
ENST00000575362/Downstream/2108;
Nearest CpG islands
None/Target,
chr17-CpG: 26/Upstream/29604
,
chr17-CpG: 58/Downstream/14882
Upstream sequence
TTTCTGAAGACTTTGGGCTTGGGGAGAAATGTTAATTTTTTTGTTTGGATTTAGATTCCGTTGTGCTGGTATATTATTTCTTATTCCTAgtctgtgtaca
Downstream sequence
CTTATTTAGTAATTAAACAAGTATTTATTGGGAGACAGTCTTCTAGGTTCTAGTTTAGAGTGACAAAACTCACTCCAAGGGTGTTGTGAATTTCCTGCTT
Target sequence
gtctcagacaaaaaaaaaatgttattagacagaatttagcagcacattgaaaagAATATATTTGGGTGAAATATAAAAGTGAATATAggccaggcgcggtggctcatgcctgtaatcccaacactttgggagactgaggcaaaaggatcacttgagcccaggagttcaagaccagcctgggaaacatggcgaaaccccatctctacaaaaaataaaatttagctgggcatggtggtgtgcacctgtagtcctagc
Reference
Cao, S., et al.Divergent viral presentation among human tumors and adjacent normal tissues. Sci Rep,2016, 6: 28294.
Sample Information
×
Sample name
TCGA-CC-A5UE-01A-11R-A28V-07
Sample type
Tumor
Gender
Female
CpG Island Information
×
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