Basic Information
VIS ID
TVIS20005098
Fusion event
HPV-NR4A2 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
q24.1
Reference genome
GRCh37/hg19
Start
157179613/156323101 (Hg38)
End
157203871/156347359 (Hg38)
Location type
Intronic
Target gene
NR4A2
miRNAs that regulate target gene
hsa-mir-217 ; hsa-mir-19a-3p ; hsa-mir-302d-3p ; hsa-mir-372-3p ; hsa-mir-335-5p ; hsa-mir-133a-3p ; hsa-mir-520f-5p ; hsa-mir-7157-5p ; hsa-mir-4310 ; hsa-mir-3675-3p ; hsa-mir-3617-3p ; hsa-mir-34a-3p ; hsa-mir-548c-3p ; hsa-mir-129-5p ; hsa-mir-206 ; hsa-mir-34a-5p
Nearest miRNA
hsa-mir-128-1/Upstream/4954690; hsa-mir-10b/Downstream/2839476;
Nearest TSS
ENST00000437798/Upstream/2846; ENST00000416888/Downstream/87931;
Nearest CpG islands
chr2-CpG: 19/Target, None/Upstream, None/Downstream
Nearby gene
KCNJ3 ; GPD2(+) ;
Upstream sequence
taaaaatacaaaaattagctgggcctggtggcaggcgcttgtaatcccagatacttgggaggctgaggcaggagaatcacttaaacccaggaggcagagg
Downstream sequence
AAGTACAGAACTTAGCTGTTGACCAATATCAGTGCATACACATATGATACCAATTTATTAACTTACTGCTACTGGGCCAAGGAAAGGGAGTTGTAATATT
Reference
Ojesina, A. I., et al. Landscape of genomic alterations in cervical carcinomas. Nature,2014,506(7488): 371-375.
Curate