Basic Information
VIS ID
TVIS10014661
Fusion event
HBV-LINC01942 integration
Validated
No
Detection method
WGS
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2016
PubMed ID
27064257
Virus Sequence
Virus name
HBV
Reference genome
AP011098.1
Start
1892
Orient
-
Integrated sequence
ATTGGTCTGTTCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGC| |TTTGGGGCATGGACATTGACCCGTATAAAGAATTTGGAGCTTCTGTGGAGTTACTCTCTTTTTTGCCTTCTGACTTCTTTCCTTCTATTCGAGATCTCCT
Host Sequence
Chromosome
chr5
Cytoband
q35.2
Reference genome
GRCh37/hg19
Start
173125611/173698608 (Hg38)
End
173125611/173698608 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA5G
Target gene
LINC01942
Nearest miRNA
hsa-mir-10397/Upstream/351072; hsa-mir-1229/Downstream/1053126;
Nearest TSS
ENST00000502646/Upstream/9149; ENST00000518141/Downstream/21084;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/81716, chr5-CpG: 23/Downstream/189320
Upstream sequence
CAGCAGCCCCCACGCCCCGCTCCCCCGCAGTGCGTCGGTCACCGTGTTGGGCAGGTAGCTGCGCACGCTGGTGGTGAAGGCCTcgggggggcccccgcgg
Downstream sequence
ttgtgcacaccttgaggcaagtacagggccttccttaatttgacattcccaggacctgggcctgacccgtggaaggtccatggtgaagactgttgaaCAG
Reference
Fujimoto, A., et al. Whole-genome mutational landscape and characterization of noncoding and structural mutations in liver cancer. Nat Genet ,2016,48(5): 500-509.
Curate