hsa-mir-377-3p _STAD.png
PTPRS _STAD.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS42001025
Fusion event
EBV-PTPRS 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
47886
Orient
+
Integrated sequence
TACTGGTTGTCGGAGGTGGAGAGGCCCGGGGGCCTTGTCCGCTGGGCCAGGTCACAGACCAGCCCCTCATCCCTGACCCTCGCGCCCCATCTTGGCCCGT| |CCCTCTTGTCCCTTTCAGTGGTCACCGGTGGTGGGTGTGGAGCCGTGGCCTTTTGCAACGCCTTTTTCCTAGCTTATTTTTTGGTTGTGCGGTCTGTTTT
Host Sequence
Chromosome
chr19
Cytoband
p13.3
Reference genome
GRCh37/hg19
Start
5160305/5160294 (Hg38)
End
5160305/5160294 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA19B
Target gene
PTPRS
miRNAs that regulate target gene
hsa-mir-20a-5p ; hsa-mir-377-3p ; hsa-mir-381-3p ; hsa-mir-487a-3p ; hsa-mir-539-3p
Nearest miRNA
hsa-mir-1227/Upstream/227554; hsa-let-7e/Downstream/1229344;
Nearest TSS
ENST00000633603/Upstream/24758; ENST00000592429/Downstream/17825;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/8575, chr19-CpG: 23/Downstream/50259
Upstream sequence
ctaatttttatgtgaagatattcccgtttccaacaaaggcttcaaagcggtccaaatatccacttgcagattctaccaaagagtgtttccaaactggtca
Downstream sequence
tgtctctgtctcttcctctctttctctctttccttctttctttgactttctgtctttcccctctctctctctctctttctctctttgactttctgtctct
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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