Basic Information
VIS ID
TVIS10015054
Fusion event
HBV-LINC01934 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
HBVgp4 precore/core protein
Start
2175
Orient
+
Integrated sequence
AATTCTTTGCTGGGGGGAACTAATGACTCTAGCTACCTGGGTGGGTGTTAATTTGGAAGATCCAGCGTCTAGAGACCTAGTAGTCAGTTATGTCAACACT| |AATATGGGCCTAAAGTTCAGGCAACTCTTGTGGTTTCACATTTCTTGTCTCACTTTTGGAAGAGAAACAGTTATAGAGTATTTGGTGTCTTTCGGAGTGT
Host Sequence
Chromosome
chr2
Cytoband
q31.3
Reference genome
GRCh37/hg19
Start
182140560/181275833 (Hg38)
End
182140560/181275833 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA2G
Target gene
LINC01934
Nearest miRNA
hsa-mir-10b/Upstream/1414925; hsa-mir-1244-1/Downstream/29760;
Nearest TSS
ENST00000437798/Upstream/72477; ENST00000476089/Downstream/149916;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/294634, chr2-CpG: 119/Downstream/181201
Upstream sequence
TGCCTGCGTACTTCTGGGTTAATGTAAGGTGCAAGAGACACAGTGCATAAGATGTGCActaaccctaaccctaaccctaaccctaaccctaaccctaacc
Downstream sequence
ctaaccctaaccctaaccctaacccGggttaatgtgaggtgcaagagacacagtgcataagatgtggtaggtggaagtgaagtagaaagcatattctttt
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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