ARHGAP28 _STAD.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS42001022
Fusion event
EBV-ARHGAP28 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
76554
Orient
+
Integrated sequence
GCTTTGCCTCCATCTGGGCACTTCTGACGCTTGTCTTAGTCATTATAGCCTCAGCCATCTACCTGATGTACGTCTGCTTTAACAAGTTTGTGAACACGCT| |GCTGACGGATTAGATGGGGATATTTAAAAGGGGCAGCAATCTCGGCTGTTTGTACTTCTTCTCTGCTCGTTAAACCAATAGCATGTCAGCTCCACGCAAA
Host Sequence
Chromosome
chr18
Cytoband
p11.31
Reference genome
GRCh37/hg19
Start
6780392/6780393 (Hg38)
End
6780392/6780393 (Hg38)
Orient
+
Location type
Intronic
Target gene
ARHGAP28
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-196a-5p ; hsa-mir-98-5p
Nearest miRNA
hsa-mir-3976/Upstream/405968; hsa-mir-1-2/Downstream/3979191;
Nearest TSS
ENST00000575820/Upstream/6391; ENST00000581099/Downstream/8101;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/50355, chr18-CpG: 27/Downstream/140199
Upstream sequence
acacacacacagagacacacacacacacagacacatacacacacagacacacacataaacacacacacagacatacacaaacacacacagacacacacac
Downstream sequence
ggtattatacgtgatctagagatgacttaaagtgttgggaggatgtgcttaagttatatgcaaacactacgccattttatgtaatggacttgagcatcgg
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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