Basic Information
VIS ID
TVIS42000148
Fusion event
EBV-MSH2 integration
Validated
No
Detection method
WGS
Data source
Curated
Sample type
Cell line
Disease
Nasopharyngeal carcinoma (NPC)
Quality evaluation
Normal
Reported year
2005
PubMed ID
15681063
Virus Sequence
Virus name
EBV
Reference genome
NC007605
Start
150731
Orient
-
Integrated sequence
GATGGCCCTGTGCCATCACATGTATTTCCTCCTTGGGTGGAACAACGGCGTCGTGCTCCGGGTGGAGGGGGAATAGCGTCCAGGCATCTTTCAGGGTCAC| |GAGACCGGGGTCCATGCTCAGAGAACAGCCCTCCCGGGCGGTGGGCGGCCCGGGCTCCAGCAGAACGTCGCAGACCCAGCCCTCCTCGGCCCTGTCCACC
Host Sequence
Chromosome
chr2
Cytoband
p16.3
Reference genome
GRCh37/hg19
Start
47733276/47506137 (Hg38)
End
47733276/47506137 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA2S
Target gene
MSH2
miRNAs that regulate target gene
hsa-mir-155-5p ; hsa-mir-16-5p ; hsa-mir-15a-5p ; hsa-mir-21-5p ; hsa-mir-1-3p ; hsa-mir-101-3p ; hsa-mir-183-5p ; hsa-mir-3163
Nearest miRNA
hsa-mir-1301/Upstream/128367; hsa-mir-10b/Downstream/1553466;
Nearest TSS
ENST00000437798/Upstream/29628; ENST00000435331/Downstream/21400;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/102485, chr2-CpG: 103/Downstream/14715
Nearest cancer related gene
MSH2(TSG, No orient, 0)
Upstream sequence
GCTGTTTGTTTGCAGCTCCTGGGAGCAAGCATGGGTTTTAGCTGTGTCTTTCCAGCTCCTAATAAAGTCTTGGCCTGTGGCAAGAGCTCAGCTACTCTGG
Downstream sequence
GTGCTCCCAGGGGAAAGCATAAGCCCTCAGGAGCCATGATGAGAACAGCTGTAGAACAGCAAGTGAACAGGTGtgtatcagtcaggataggcaaggctaa
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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