Basic Information
VIS ID
TVIS42000424
Fusion event
EBV-LDB3 integration
Validated
No
Detection method
WGS
Data source
Curated
Sample type
Cell line
Disease
B-cell lymphoma (BL)
Quality evaluation
Normal
Reported year
2005
PubMed ID
15681063
Virus Sequence
Virus name
EBV
Reference genome
NC007605
Start
116159
Orient
+
Integrated sequence
CACTTGGTTGTCAATGTGGACATCCATAGCTCTCTCATGCGTTTGGCTACAGCATCATAGCGCTTGTTTCTGGTGGATTTAAATAACAGGGCCCCGTAGA| |CAGTCTTTTGTGAGTAAATAGAGATGATGACATGGATGTAGAGACTGAGGACCACATCCACCACCTTCTCGGAGGAGGCCCCCCTAAACAGCATCAGGCA
Host Sequence
Chromosome
chr10
Cytoband
q23.2
Reference genome
GRCh37/hg19
Start
88477142/86717385 (Hg38)
End
88477142/86717385 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA10D
Target gene
LDB3
Nearest miRNA
hsa-mir-1265/Upstream/452597; hsa-mir-107/Downstream/786496;
Nearest TSS
ENST00000439456/Upstream/48693; ENST00000477489/Downstream/1345;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/5208, chr10-CpG: 194/Downstream/38284
Upstream sequence
AGGAAAGGAACAGGAGCTTGTTAGACAAAACATGACAAGTCCACTGTAGTATGCAGTAACGATCTAATCACTCAATTTTATATTTTAAAGTATGGTGGAT
Downstream sequence
GATATTATTGCCTAGACATAAATTCTTCCCAATTGTAACAGTTTAATAGTGGAAAAGTGGCTATACCCCTTTTACAGAGAAACACTTTTTTTTTAAATTG
Reference
Takakuwa, T., et al. Identification of Epstein-Barr virus integrated sites in lymphoblastoid cell line (IB4). Virus Res,2005, 108(1-2): 133-138.
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