Basic Information
VIS ID
TVIS42000226
Fusion event
EBV-LNX1 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
127552
Orient
+
Integrated sequence
ACGGGGCCGTGCACCTGCCATCGGGACAGATTGTCTTCCACACCATCCACAGCCCCACTCTTGCCTCGGCGCTGGGACTGCCTGGGGAAAATGTACCCAT| |CCCGGCCCTCTTCCGTGCCTCGGGCCTCAACGTCCGTGAGAGCCTACCCATGACCAACATGAGGGCACCGATCATCTCGCTGGCTCGCCTCATCCTGGCC
Host Sequence
Chromosome
chr4
Cytoband
q12
Reference genome
GRCh37/hg19
Start
54422266/53556099 (Hg38)
End
54422266/53556099 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA4B
Target gene
LNX1
Nearest miRNA
hsa-mir-12113/Upstream/843352; hsa-mir-1243/Downstream/7366520;
Nearest TSS
ENST00000502981/Upstream/47716; ENST00000595906/Downstream/2118;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/177869, chr4-CpG: 82/Downstream/507975
Upstream sequence
agataataaaatggtataataaagaatggctctggaggggtgactgttttagattgagtggtcacagagtctcTGTAAAGAGAAAATAGGACAGAATTTC
Downstream sequence
agataagattaccatggagtatccaagtaggccctaaatccagtgataagtttccttataagaagaggagaaggcaaagagaattgaagaggacactgag
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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