Basic Information
VIS ID
TVIS20005072
Fusion event
HPV-LINC00963 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
chr9
Cytoband
q34.11
Reference genome
GRCh37/hg19
Start
132251574/129489295 (Hg38)
End
132265976/129503697 (Hg38)
Location type
Intronic
Target gene
LINC00963
Nearest miRNA
hsa-let-7a-1/Upstream/1096581; hsa-mir-12126/Downstream/365908;
Nearest TSS
ENST00000422679/Upstream/6757; ENST00000443993/Downstream/71712;
Nearest CpG islands
chr9-CpG: 74/Target, None/Upstream, None/Downstream
Nearby gene
C9orf106 ; NTMT1(+) ;
Upstream sequence
aggtgccattttgatagataaggagatctttgagtagtcacctgtgtgcagtcaggaattgatgaggctgtgaggatatctgtgggaaggatattccaaa
Downstream sequence
GCCTGCATTGCGGTGATAGGGCCAAGGGCCTGGGCCTTCAATTCTCCAGACTTGCCAAAATGCTCAGCGCAGGCCTCGTCGGCAACTGCAGACAAGCAGA
Reference
Ojesina, A. I., et al. Landscape of genomic alterations in cervical carcinomas. Nature,2014,506(7488): 371-375.
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