Basic Information
VIS ID
TVIS42000203
Fusion event
EBV-SYNPR 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
125526
Orient
+
Integrated sequence
TGAGTCCGGGCACCGTCCCTGGCCCCCTTGGAGTCCAGAGTCTGGAGCATACAGACTGCGAAATATGGTCCTCTGCCCACCCTGACCACGCTGCCCACCT| |CCCGGTGCCCAGGGTCATCACATACACCGACTGCCCGGGTTCCATAAACACGAGCTCAATGTTTCGCCTTATCATCCGCTACTTGTCTCATCACCAATTT
Host Sequence
Chromosome
chr3
Cytoband
p14.2
Reference genome
GRCh37/hg19
Start
63304985/63319309 (Hg38)
End
63304985/63319309 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA3B
Target gene
SYNPR
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-877-3p ; hsa-mir-877-5p ; hsa-mir-92a-3p ; hsa-mir-25-3p ; hsa-let-7a-5p
Nearest miRNA
hsa-let-7g/Upstream/2701439; hsa-mir-12124/Downstream/3906155;
Nearest TSS
ENST00000440867/Upstream/40643; ENST00000467934/Downstream/32120;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/40780, chr3-CpG: 152/Downstream/544061
Upstream sequence
CCCTGTACCCCACACAGACTGCCCCTGCTGCCTCTGCTTGCCTATTTTTTTTttttttgtatttttagtagagacggggtttcaccgtgtcagccaggat
Downstream sequence
tattttggttattatagctttgtattataatttgaagtcaggtaatgtgatgtctctagctttgtttttttgcttaggattgctttggctattctgtgtc
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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