Basic Information
VIS ID
TVIS20005124
Fusion event
HPV-LOC105377110 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
chr3
Cytoband
p14.2
Reference genome
GRCh37/hg19
Start
59283902/59298176 (Hg38)
End
59289544/59303818 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA3B
Target gene
LOC105377110
Nearest miRNA
hsa-let-7g/Upstream/3445582; hsa-mir-12124/Downstream/1313987;
Nearest TSS
ENST00000440867/Upstream/233026; ENST00000475527/Downstream/84886;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/247958, chr3-CpG: 48/Downstream/1947114
Nearby gene
C3orf67 ; FHIT(+) ;
Upstream sequence
ttcccaagtagctaggactacaggactgcaccaccacacctggctaatttatttatttgtagagacagggtcttactatgttgcctaggccggtcttgaa
Downstream sequence
TTTCTGATCCCAGAATCCATCTCTACCAAAAGAGAATATACAACTCTGGCACAGCATGTAATATTTGCTCTTAGCTGGAGGACCAGCAATTAACAATATT
Target sequence
gttactactcccattttaagacgcgggctgtagagagggtaaccaccctgtccacattcacacagcgaacacgtggtggggcagggctcaagtccaggcgattccaaagtccccccgtgctgtttgcgccacgcggtgctccCACCAAGCCCACTCCGCGGGGAGAAAAACCATAGGCCTCGGAGGAGGAGCGGCTCCTCGCAGTGGGGTGGGGCAGAGGCCAGCATGAGGCCTTGTTCACTGGAGGATTCCACA
Reference
Ojesina, A. I., et al. Landscape of genomic alterations in cervical carcinomas. Nature,2014,506(7488): 371-375.
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