Basic Information
VIS ID
TVIS42000331
Fusion event
EBV-TRAPPC9 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
117563
Orient
+
Integrated sequence
GGCACCGGAATCGCCGCCGTGACTCACGACAGGGCGGACCCTAACAGGGTCATCGTCCTGGGCCTGGAACACTTCTTCCTCAAGGACCTAACAGGGGACG| |CTGCCCTCCAGATCGCCACCTGCGTCGTGGCCCTCGTCTCCTCGATCGTCACCCTGCACCCCCACTTGGAGGAGGTGAAGGTAGCCGTGGAGGGCAACAG
Host Sequence
Chromosome
chr8
Cytoband
q24.3
Reference genome
GRCh37/hg19
Start
141330017/140319918 (Hg38)
End
141330017/140319918 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA8D
Target gene
TRAPPC9
miRNAs that regulate target gene
hsa-mir-30e-5p ; hsa-mir-196a-5p ; hsa-mir-6875-5p ; hsa-mir-3126-5p ; hsa-mir-6873-5p ; hsa-mir-583
Nearest miRNA
hsa-mir-1204/Upstream/5514973; hsa-mir-10400/Downstream/412646;
Nearest TSS
ENST00000518652/Upstream/17083; ENST00000518971/Downstream/115279;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/219033, chr8-CpG: 32/Downstream/18823
Upstream sequence
attttggatctttcctgctttctcttgtgggcatttagtgctacaaatttccctctacaatctgctttaaatgtgtcccagagattctggtatgttttgt
Downstream sequence
CAGTTATTCTTGTCTCTGCTAAGTAATAATCGGAGACAACCAGGCTTGCATTCAGTCAGTTATGGTACTCTGAACAGGTAGAGAATAGAAAGAGGGGAAA
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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