Basic Information
VIS ID
TVIS10014841
Fusion event
AAV2-chr5 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
AAV2
Reference genome
NC_001401
Start
82
Orient
-
Integrated sequence
TTGGCCACTCCCTCTCTGCGCGCTCGCTCGCTCACTGAGGCCGGGCGACCAAAGGTCGCCCGACGCCCGGGCTTTGCCCGGG| |CGGCCTCAGTGAGCGAGCGAGCGCGCAGAGAGGGAGTGGCCAACTCCATCACTAGGGGTTCCTGGAGGGGTGGAGTCGTGACGTGAATTACGTCATAGGG
Host Sequence
Chromosome
chr5
Cytoband
p14.3
Reference genome
GRCh37/hg19
Start
18813512/18813403 (Hg38)
End
18813512/18813403 (Hg38)
Orient
-
Fragile sites / regions
FRA5E
Nearest miRNA
hsa-mir-10397/Upstream/1657411; hsa-mir-103a-1/Downstream/13122699;
Nearest TSS
ENST00000502646/Upstream/67230; ENST00000513573/Downstream/225337;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/1157789, chr5-CpG: 45/Downstream/1492050
Upstream sequence
GGGCCTGGCGACCTCATCCCGGACCTGCACCATCTGGTACAACAGCCATGGCCATGGGAAGCCCAGCAGGTCCAGGCCGAGATGGCCACGCACGGGACCt
Downstream sequence
GACTATTTTGCCCCCCATTCTCTAAACTATGGTGTTCAATTCATTTGTATGTTAACAGAATTCTGAGAATTTACAGAAACCTCAATTTCCCAGCTTCATC
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