Basic Information
VIS ID
TVIS10015074
Fusion event
HBV-LINC02163 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
2050
Orient
-
Integrated sequence
TCGTTTTTGCCTTCTGACTTCTTTCCTTCAGTACGAGATCTTCTAGATACCGCCTCAGCTCTGTATCGGGAAGCCTTAGAGTCTCCTGAGCATTGTTCAC| |CTCACCATACTGCACTCAGGCAAGCAATTCTTTGCTGGGGGGAACTAATGACTCTAGCTACCTGGGTGGGTGTTAATTTGGAAGATCCAGCGTCTAGAGA
Host Sequence
Chromosome
chr5
Cytoband
q21.2
Reference genome
GRCh37/hg19
Start
103429807/104094106 (Hg38)
End
103429807/104094106 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA5F
Target gene
LINC02163
Nearest miRNA
hsa-mir-10397/Upstream/3277541; hsa-mir-103a-1/Downstream/6419723;
Nearest TSS
ENST00000502646/Upstream/14195; ENST00000523745/Downstream/645435;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/834257, chr5-CpG: 253/Downstream/3575323
Upstream sequence
gaaggggcaggacgggTGCCCGGGTCCCCAGTCCCTCCGCCACGTGGGAAGCGCGGTCCTGGGCGTCTGTGCCCGCGAATCCACTGGGAGCCCGGCCTGG
Downstream sequence
CCTAGGTTTACATTTTGTTTTCCTCTTTTCTTGGCCTTCATGTTTCACTTTTATCACTTAGTTTCAGTTACTTTGAGTTAATCCACCtgtattagtctgt
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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