ATE1 _STAD.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS42000970
Fusion event
EBV-ATE1 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
138259
Orient
+
Integrated sequence
TCAAATTTAACCAGATCTGAGAAAAATGCACAAACAGACCCCACACAGCAGCACAATAGAAGCACTAAATGAGTCATTCCTAAACTGTCAGTTTTAAAAC| |TCCCTGCTTCTCAGGCCTAAATATGTGGTGGGGTGTGCTTAGGATCACTTTCATATTCTGCAACAACAGCCATACCCGGAAGAGGAGCTGCCGGTTGCCA
Host Sequence
Chromosome
chr10
Cytoband
q26.13
Reference genome
GRCh37/hg19
Start
123516553/121757038 (Hg38)
End
123516553/121757038 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA10D ; FRA10F ; FRA10A ; FRA10B
Target gene
ATE1
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-130b-3p ; hsa-let-7b-5p
Nearest miRNA
hsa-mir-107/Upstream/1798446; hsa-mir-202/Downstream/659927;
Nearest TSS
ENST00000439456/Upstream/20735; ENST00000618971/Downstream/33188;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/147819, chr10-CpG: 125/Downstream/170419
Upstream sequence
GGAGGTCAGAGTCAGAAAGACTTTTCGGGTCCCGCCCCCTGCCAGTAATGGAGACCCCTTCTCCAGCATTCCCTAGACAGCCTGTCCTCCTGTTTTGTGA
Downstream sequence
CCAGCAGGCTGGACGCTTTTCAAGACAACTCAGTTGCTTTGTGGGACTAATGTAATTCACCACGTGACCTTAAGCAAGTCACCCGTCttcttcttttttt
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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