Basic Information
VIS ID
TVIS20005094
Fusion event
HPV-LOC105374164 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
HPV18
Reference genome
Not given
Host Sequence
Chromosome
chr3
Cytoband
q25.2
Reference genome
GRCh37/hg19
Start
152937099/153219310 (Hg38)
End
152937319/153219530 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA3D
Target gene
LOC105374164
Nearest miRNA
hsa-let-7g/Upstream/1653315; hsa-mir-1224/Downstream/6063116;
Nearest TSS
ENST00000440867/Upstream/57040; ENST00000498457/Downstream/137577;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/56013, chr3-CpG: 131/Downstream/901468
Nearby gene
RAP2B ; C3orf79(+) ;
Upstream sequence
atagttaattatagcctaatttggttcttggtgctttcaggggtgaagactctgtagagttccttggttatagaagagtctttgtacgatggctttccca
Downstream sequence
ATGTTGAGTATTTACAAAATGTATGAGCACAAAGAAGAAAGAATTGGCTTGACACATGCACCTATAttctaactcatgtttcctcttctacacttgactc
Target sequence
TTTGCAATATAAATGATTCACTTTGTTATGTGGTTATTCAAATGGATGTCTGCTGTCTTCAGAGGCTTTAAACTTTCTCTGGGAAGAGATCTTGTTTTATTATTCATTCTTTCATTAATTTATTCATGCAGGAAATGTTTATTGTACAATGGTGGTTCAGGCCTGCTTTCAAGGATCTTATTATCTAAGTACAAGAAAAGAAAACATAAACCAGTTTTTAAAGAGCATGTTAAT
Reference
Ojesina, A. I., et al. Landscape of genomic alterations in cervical carcinomas. Nature,2014,506(7488): 371-375.
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