Basic Information
VIS ID
TVIS10020284
Fusion event
HBV-chr3 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
1260
End
2356
Orient
+
Integrated sequence
CCGATCCATACTGCGGAACTCCTAGCAGCTTGTTTTGCTCGCAGCCGGTCTGGAGCGAAACTTATCGGAACCGACAACTCAGTTGTCCTCTCTCGGAAATACACCTCCTTTCCATGGCTGCTAGGCTGTGCTGCCAACTGGATCCTGCGCGGGACGTCCTTTGTCTACGTCCCGTCGGCGCTGAATCCCGCGGACGACCCGTCTCGGGGCCGTTTGGGCCTCTACCGTCCCCTTCTTCATCTGCCGTTCCGGCCG
Host Sequence
Chromosome
chr3
Cytoband
p12.3
Reference genome
GRCh37/hg19
Start
79478796/79429646 (Hg38)
End
79479844/79430694 (Hg38)
Orient
+
Location type
Intronic
Target gene
LOC101927374 ; ROBO1
miRNAs that regulate target gene
hsa-mir-217 ; hsa-mir-218-5p ; hsa-mir-423-3p ; hsa-mir-25-3p ; hsa-mir-6835-3p ; hsa-mir-146a-5p ; hsa-mir-377-3p ; hsa-mir-1185-2-3p ; hsa-mir-876-3p ; hsa-mir-3591-5p ; hsa-mir-921 ; hsa-mir-3606-5p ; hsa-mir-524-5p ; hsa-mir-520d-5p ; hsa-mir-636 ; hsa-mir-3140-3p ; hsa-mir-4445-5p ; hsa-mir-508-3p ; hsa-mir-8062 ; hsa-mir-8079 ; hsa-mir-1245a ; hsa-mir-561-3p ; hsa-mir-548at-5p ; hsa-mir-548ay-3p ; hsa-mir-548at-3p ; hsa-mir-548as-3p ; hsa-mir-548t-3p ; hsa-mir-548ap-3p ; hsa-mir-548aa ; hsa-mir-299-5p ; hsa-mir-5590-3p ; hsa-mir-142-5p ; hsa-mir-4782-3p ; hsa-mir-6766-3p ; hsa-mir-219a-5p ; hsa-mir-6885-3p ; hsa-mir-1273e ; hsa-mir-4327 ; hsa-mir-1287-5p ; hsa-mir-3135b ; hsa-mir-330-3p ; hsa-mir-29a-3p ; hsa-mir-218-2-3p
Nearest miRNA
hsa-let-7g/Upstream/3691283; hsa-mir-12124/Downstream/77193;
Nearest TSS
ENST00000440867/Upstream/410187; ENST00000473938/Downstream/159248;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/410230, chr3-CpG: 29/Downstream/335794
Nearest cancer related gene
ROBO1(TSG, No orient, 0)
Upstream sequence
GAAAGATGCAAGGCTGGGCCGTGGTGGAGAACGCCCCCACCCCTCCACTTCCCCAGGACGCGGCAGGCAGGAGGGGGCCACTCCCAGCCTCAGGGCCCCA
Downstream sequence
ccatttttcctcttgttcctgttctcTACATTTTTTGAAGATTTTACAGAATGACAAATTGGGATTGCAACTGAATGAGAAAAGCTTGAATACATCCCAA
Target sequence
TTCTTAAGCTATTCAGGTTTGAAGCCAGATAATTTTGTTGTAGTAGTAATCCAAAGACAATCAATTTTTATGTCTGACACGTCTTTGAACTGGCTACTCCATATCCCACCAATTAAGTCTTCTTATTGAATAATGCCCATTAGTTTCTTTACCTTTTTATTTGAAAATTCTGTTTACAAGCAAGTAGCAAACTATAGAGCAGTCTTTTGATTTAATTGGTTCTTATTTTATTTTTTCTTCTTAAATATAAGATAT
Reference
Cao, S., et al.Divergent viral presentation among human tumors and adjacent normal tissues. Sci Rep,2016, 6: 28294.
Curate