Basic Information
VIS ID
TVIS42000318
Fusion event
EBV-SPIDR 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
118892
Orient
+
Integrated sequence
GAAGGCCTCCCGGCCTCTTTTATAGCTAGTCTCCACACCCAATACTCTACTGAACCATCACATACATGACCTCCTCGAGGTATGCAGGGAATGAGCGGTC| |CGTGAGCCGGTCAACACGACATTGCTTCCGTTTCATGCCTCCAGCTGCCCCTGACCAGTTAGGACCCTTGACGGATGTCTTTAACGGCGCGGTGCAGTTG
Host Sequence
Chromosome
chr8
Cytoband
q11.21
Reference genome
GRCh37/hg19
Start
48490479/47577917 (Hg38)
End
48490479/47577917 (Hg38)
Orient
-
Location type
Intronic
Target gene
SPIDR
miRNAs that regulate target gene
hsa-mir-5047 ; hsa-mir-1301-3p ; hsa-mir-7156-3p ; hsa-mir-197-3p ; hsa-mir-6841-3p ; hsa-mir-4691-3p ; hsa-mir-3613-3p ; hsa-mir-4282
Nearest miRNA
hsa-mir-124-1/Upstream/4681642; hsa-mir-10400/Downstream/14136871;
Nearest TSS
ENST00000518652/Upstream/137516; ENST00000518692/Downstream/76171;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/316418, chr8-CpG: 229/Downstream/159287
Upstream sequence
TTACAGAAGGAGAAAATATGATCACCAAAACTTTGGATCAGAAATGATTTACGGCCATTTAAATGGACACTGGCTTGAAAACCAGTGCATCACGATTTCA
Downstream sequence
CTCTAGAGTCACACTGGGAGATATAAGGCTGTAAGATAAAGATTTATGGTTGGCCTGGGAAGAGTAGTGCTGGCAAGAGTGGGAATGTATTTAGATTTGT
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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