Basic Information
VIS ID
TVIS20005119
Fusion event
HPV-chr2:p14 integration
Validated
Yes
Detection method
RNA-Seq+RT-PCR
Data source
Curated
Sample type
Tumor
Disease
Squamous-cell carcinoma (SCC)
Quality evaluation
Good
Reported year
2014
PubMed ID
24390348
Virus Sequence
Virus name
HPV
Subtype
HPV16
Reference genome
HQ644271.1
Host Sequence
Chromosome
chr2
Cytoband
p14
Reference genome
GRCh37/hg19
Start
66562040/66334908 (Hg38)
End
66582275/66355143 (Hg38)
Location type
Intergenic
Fragile sites / regions
FRA2S
Nearest miRNA
hsa-mir-1301/Upstream/1809343; hsa-mir-10b/Downstream/3106;
Nearest TSS
ENST00000437798/Upstream/7547; ENST00000428647/Downstream/28163;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/898163, chr2-CpG: 102/Downstream/70593
Nearby gene
SPRED2 ; MEIS1(+) ;
Nearest cancer related gene
MEIS1(OG, +) ;
Upstream sequence
GGCAGGCAGGCCTATATAAACTGTAATTTATTAAGTGATTCCTCCATAATTATTAAATCGTTAATCAGCAGCTTGGCTGTGGGTGCGGGGAAACTGTTCT
Downstream sequence
ctctaggtatttcataCAGGGTATCATGTGAACTCAAATTCTCTCAAATTTTTTTTGTCTcaattatgatagtgtgctatgaactgaggagtatgattaa
Target sequence
CACCTTCTGCCACACTGGTCTCCTTTCATCTTGATTCAAGTCTGAGAGAAGAGAAAGTGTAACTTTCAAATATATTTGTGAAGAAAATGCAAGCTCATTATGAAAAGAAAAAGGAGGGTGAGGGGAGGACTGGTTATACTTACAGCCACCTGATTGCTCCCAGTTTTTCAGGCTTAATTGTTTGGAGGAAGAAAAAAAGAGCAATTTAGAGGAAAAAAAAGAGAAAGACAAAGCGTGCATTTTGCCATCTGTTTT
Reference
Ojesina, A. I., et al. Landscape of genomic alterations in cervical carcinomas. Nature,2014,506(7488): 371-375.
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