VRK2 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10020294
Fusion event
HBV-VRK2 integration
Validated
No
Detection method
VirusScan
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2016
PubMed ID
27339696
Virus Sequence
Virus name
HBV
Reference genome
NC_003977.1
Start
1322
End
2418
Orient
+
Integrated sequence
TATCGGAACCGACAACTCAGTTGTCCTCTCTCGGAAATACACCTCCTTTCCATGGCTGCTAGGCTGTGCTGCCAACTGGATCCTGCGCGGGACGTCCTTTGTCTACGTCCCGTCGGCGCTGAATCCCGCGGACGACCCGTCTCGGGGCCGTTTGGGCCTCTACCGTCCCCTTCTTCATCTGCCGTTCCGGCCGACCACGGGGCGCACCTCTCTTTACGCGGTCTCCCCGTCTGTGCCTTCTCATCTGCCGGACCG
Host Sequence
Chromosome
chr2
Cytoband
p16.1
Reference genome
GRCh37/hg19
Start
58384596/58157461 (Hg38)
End
58385644/58158509 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA2S
Target gene
VRK2
Nearest miRNA
hsa-mir-1301/Upstream/2156666; hsa-mir-10b/Downstream/2228853;
Nearest TSS
ENST00000437798/Upstream/110586; ENST00000608934/Downstream/7294;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/110174, chr2-CpG: 50/Downstream/82469
Upstream sequence
ccctgagatggagtctctcactctgtcacccaggctggagtgcagtggggctatcttggctcactgcaacctctgcctccagacttcaagccattctcct
Downstream sequence
AGCTATTCTGAGAATGATGGACAGTGAACAAGCTTAAAGTATTTTGCTTTGTTTTATAAATTTCTTCTCTTCTAAGTTAGTTACTTGATAAATGGTGCTG
Target sequence
cccaaaatgtctccagaaattgctaaatgtcctctgtggggcaggatcaacccaggctgagaaccaatgCTCTATCACAGTAGATTATTGCATTGCCTTGAGCCctttgctactcaaagtggggtgtgcagaccagctgtattggcatcatctggagcttctcagaaatacagaatctcaggtcatactcctagaccttttgaatgagatctgcattttaacaagTTATGATGATCTGTTTGCTTTCTAATACTC
Reference
Cao, S., et al.Divergent viral presentation among human tumors and adjacent normal tissues. Sci Rep,2016, 6: 28294.
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