Basic Information
VIS ID
TVIS10020550
Fusion event
HBV-SYNDIG1 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
1133
End
2229
Orient
+
Integrated sequence
TCTAAACCTTTACCCCGTTGCCCGGCAACGGTCAGGTCTCTGCCAAGTGTTTGCTGACGCAACCCCCACGGGTTGGGGCTTGGCCATAGGCCATCGGCGCATGCGTGGAACCTTTGTGGCTCCTCTGCCGATCCATACTGCGGAACTCCTAGCAGCTTGTTTTGCTCGCAGCCGGTCTGGAGCGAAACTTATCGGAACCGACAACTCAGTTGTCCTCTCTCGGAAATACACCTCCTTTCCATGGCTGCTAGGCTG
Host Sequence
Chromosome
chr20
Cytoband
p11.21
Reference genome
GRCh37/hg19
Start
24470443/24489807 (Hg38)
End
24471491/24490855 (Hg38)
Orient
+
Location type
Intronic
Target gene
SYNDIG1
miRNAs that regulate target gene
hsa-mir-17-5p
Nearest miRNA
hsa-mir-103a-2/Upstream/6019116; hsa-mir-1-1/Downstream/1717331;
Nearest TSS
ENST00000382410/Upstream/20608; ENST00000482637/Downstream/11490;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/18406, chr20-CpG: 18/Downstream/427463
Upstream sequence
TAGCTATTTATATTCCAAGGTATATAGCAAACATATTTAATCTTTAGGTTAAAAATAAAGTGTGGTGTGGAGGAAAATACCAAATTACAAGTTTTTGTGA
Downstream sequence
GCCCCACAGTCTGGAAATTTGCACCAGTGTGAGTGGAGGTGGAGCCAGGGAGGAAGTAAATCCCAGAGGAGAAGGCCTGGGCCAACATTTTAGAGCCCAG
Target sequence
AGGGACAGACTCGAGCAGCAAGTCAAGAACCAGAAGTTCTGATCACAGCCACTGGAGTGCGTTAAGAAGCCCTGTGGGCTGTTTTGTGTCATCACCAAGCAGGCCTGGCCGCTGGTGCTGCAGTGCATAGGAGCCCCAGATTCATCTGGTGAGGGTGAGGGTGCCATCTGTGTGTGGCCCCCGAGCTGAATCCACCACATCTGCTCCCACAAATAACAGAAGAGAGAGGCAGGGGAGTATGCAGCCAGGGACAGG
Reference
Cao, S., et al.Divergent viral presentation among human tumors and adjacent normal tissues. Sci Rep,2016, 6: 28294.
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