Basic Information
VIS ID
TVIS10015274
Fusion event
HBV-LINC01411 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
HBVgp3 X protein;HBVgp4 precore/core protein
Start
1827
Orient
+
Integrated sequence
AAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTT| |CACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGAAT
Host Sequence
Chromosome
chr5
Cytoband
q35.2
Reference genome
GRCh37/hg19
Start
173929016/174502013 (Hg38)
End
173929016/174502013 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA5G
Target gene
LINC01411
Nearest miRNA
hsa-mir-10397/Upstream/1154477; hsa-mir-1229/Downstream/249721;
Nearest TSS
ENST00000502646/Upstream/165518; ENST00000511707/Downstream/1670;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/189482, chr5-CpG: 35/Downstream/219133
Upstream sequence
cactgcaaactccgcctcctgggttcaagcaattttcctgcttcagcctcccaagtaactgggactacatgtgtgtaccatcacacccagctaattattg
Downstream sequence
ACCTTCCTAAAAAAGCCAGGGACGCGGGATCTGGCACATGTCTGGAGTCATCCCATAAGCAGAAGGTGGAGGGCTGGCTCCCCTCTTTATTCCAGAAGGC
Reference
Sung, W. K., et al. Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma. Nat Genet,2012, 44(7): 765-769.
Curate