RCN3 _STAD.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS42001029
Fusion event
EBV-RCN3 integration
Validated
No
Detection method
GenCap Enrichment+NGS
Data source
Curated
Sample type
Tumor
Disease
Gastric carcinoma (GC)
Quality evaluation
Normal
Reported year
2015
PubMed ID
25355872
Virus Sequence
Virus name
EBV
Reference genome
NC007605
Start
168647
Orient
+
Integrated sequence
TGTGGTAAATAATTCCTAGGGAATGTTAGATCTTACCAAGTAAGCACCCGAAGATGAACAGCACAATTCCAAGGAACAATGCCTGTCCGTGCAAATTCCA| |GAGAGCGATGAGCAGGAGGGTGACTGGGGAAAGAGGAGAAAGTGCGTTAGAGAAGGAAGAGTAAGGGAAAGGGGGTGTGGGGCAAAGGGTGTAATACTTA
Host Sequence
Chromosome
chr19
Cytoband
q13.33
Reference genome
GRCh37/hg19
Start
50032949/49529692 (Hg38)
End
50032949/49529692 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA19A
Target gene
RCN3
miRNAs that regulate target gene
hsa-mir-92a-3p
Nearest miRNA
hsa-mir-10395/Upstream/28824; hsa-let-7e/Downstream/152425;
Nearest TSS
ENST00000633603/Upstream/1066; ENST00000593483/Downstream/12910;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/1681, chr19-CpG: 68/Downstream/4129
Upstream sequence
gtttttttctttactacttctatctctttctttctctctttccttctctctttgactttctgtctctctctctctttctctctctctctgactccctctt
Downstream sequence
tcagaaagtgtggaggggagaggttgtTGGTGGGGGGGAGTTGCAATTtttatttatttatttatttatttatttacttattgagatggagtctcgctct
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.
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