Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS42001028
Fusion event
EBV-RCN3 integration
Validated
No
Detection method
GenCap Enrichment+NGS
Data source
Curated
Sample type
Disease
Gastric carcinoma (GC)
Quality evaluation
Normal
Reported year
2015
PubMed ID
Virus Sequence
Virus name
EBV
Reference genome
Start
57742
Orient
+
Integrated sequence
TGGTGGGGGCTGCTGCTGCAGTCGGGGAAGGGGATGGGGTGGTCAGAGGGATTTTTGGGTTCGAGGGAGCTGCCTGTGGCAGAGGGATGGGTATTTGCAA| |AGGGAGGCGAGGAGATGGAGTGACTGAAGGAGCGATAGTTGAGACTGGCGCGGGGTGGGGTGTCGGGGAGGCGGGTGGTGATTGGTGAGGGATGGGGATT
Host Sequence
Chromosome
chr19
Cytoband
q13.33
Reference genome
Start
End
50032945/49529688 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
Nearest miRNA
hsa-mir-10395/Upstream/28820; hsa-let-7e/Downstream/152429;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/1677, chr19-CpG: 68/Downstream/4133
Upstream sequence
ctgtgtcacgttttggtaattcttgcagtatttcaaatatttttattaatattatatctactgtggtggtctgcgatcagtggtgtttgatgttactatt
Downstream sequence
agagtcagaaagtgtggaggggagaggttgtTGGTGGGGGGGAGTTGCAATTtttatttatttatttatttatttatttacttattgagatggagtctcg
Reference
Cao, S., et al.High-throughput RNA sequencing-based virome analysis of 50 lymphoma cell lines from the Cancer Cell Line Encyclopedia project. J Virol,2015, 89(1): 713-729.