Basic Information
VIS ID
TVIS10015228
Fusion event
HBV-LINC01847 integration
Validated
No
Detection method
WGS
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2012
PubMed ID
22634754
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Region type
HBVgp1 Polymerase;HBVgp3 X protein
Start
1469
Orient
-
Integrated sequence
GTTTCCATGGCTGCTAGGCTGTGCTGCCAACTGGATCCTGCGCGGGACGTCCTTTGTTTACGTCCCGTCGGCGCTGAATCCTGCGGACGACCCTTCTCGG| |GGTCGCTTGGGACTCTCTCGTCCCCTTCTCCGTCTGCCGTTCCGACCGACCACGGGGCGCACCTCTCTTTACGCGGACTCCCCGTCTGTGCCTTCTCATC
Host Sequence
Chromosome
chr5
Cytoband
q33.3
Reference genome
GRCh37/hg19
Start
159241589/159814582 (Hg38)
End
159241589/159814582 (Hg38)
Orient
+
Location type
Intronic
Target gene
LINC01847
Nearest miRNA
hsa-mir-10397/Upstream/4985042; hsa-mir-103a-1/Downstream/659820;
Nearest TSS
ENST00000502646/Upstream/53521; ENST00000641475/Downstream/50498;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/40897, chr5-CpG: 60/Downstream/101747
Upstream sequence
GGCACACAGCTCATCATGCCCCCATCACAGCTCATTCCCCCCACTGCCCCCCAGGGCCAACAGTCTGTCCGGTCATGAGCCCAGTGATTGCCCAGGGGAG
Downstream sequence
tacggatgggccttttcaatggaagccaggtgccactcatcaagacaatgaaaaaatgatcccaaaggcatttttagagatcacaaggctggcatttcta
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.
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