Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS20000105
Fusion event
HPV-RGS5 integration
Validated
Yes
Detection method
PCR and Sanger sequencing
Data source
Curated
Sample type
Disease
Cervical carcinoma (CC)
Quality evaluation
Normal
Reported year
2016
PubMed ID
Virus Sequence
Virus name
HPV
Subtype
HPV16
Reference genome
Region type
E7
Start
697
Integrated sequence
ACTAGTAATGCAAAGGCAGCAATGTTAGCAAAATTTAAAGAGTTATACGGGGTGAGTTTTTCAGAATTAGTAAGACCATTTAAAAGTAATAAATCAACGT| |GTTGCGATTGGTGTATTGCTGCATTTGGACTTACACCCAGTATAGCTGACAGTATAAAAACACTATTACAACAATATTGTTTATATTTACACATTCAAAG
Host Sequence
Chromosome
chr1
Cytoband
q23.3
Reference genome
End
163224769/163254979 (Hg38)
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-142-3p ; hsa-mir-181a-5p ; hsa-mir-92a-3p ; hsa-mir-20a-5p ; hsa-mir-578 ; hsa-mir-526b-5p ; hsa-mir-4635 ; hsa-mir-124-5p ; hsa-mir-4255 ; hsa-mir-574-5p ; hsa-mir-147a ; hsa-mir-297 ; hsa-mir-644a ; hsa-mir-6867-5p ; hsa-mir-3911 ; hsa-mir-223-5p ; hsa-mir-567 ; hsa-mir-6787-5p ; hsa-mir-663a ; hsa-mir-1908-5p ; hsa-mir-4749-5p ; hsa-mir-4706 ; hsa-mir-511-3p ; hsa-mir-595 ; hsa-mir-548t-5p ; hsa-mir-548az-5p ; hsa-mir-6875-3p ; hsa-mir-6083 ; hsa-mir-6868-3p ; hsa-mir-4778-3p ; hsa-mir-1248 ; hsa-mir-1237-3p ; hsa-mir-4446-5p ; hsa-mir-642a-5p ; hsa-mir-1290 ; hsa-mir-876-5p ; hsa-mir-3167 ; hsa-mir-6839-5p ; hsa-mir-378j ; hsa-mir-2276-5p ; hsa-mir-6892-3p ; hsa-mir-1243 ; hsa-mir-204-3p ; hsa-mir-7-5p ; hsa-mir-9-3p ; hsa-mir-96-3p ; hsa-mir-23a-3p ; hsa-mir-23b-3p ; hsa-mir-211-3p
Nearest miRNA
hsa-mir-101-1/Upstream/912339; hsa-mir-1182/Downstream/2652942;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/432195, chr1-CpG: 52/Downstream/66710
Upstream sequence
ttagccaggcgtggtggtatgcatctgtagtgtcccaactactcaggaggctgaggtgggaggattacctgaacccaggtaggtcaaggctgtagtgagc
Downstream sequence
taagcacttaataaatgtctgttgagtgaataaaCATGTGAGTACATCAATTGTCCTCTAACCATGTCATGAAAAGTCAGGCAACATAAAGTAGATAATG
Reference
Liu, Y., et al. Comprehensive mapping of the human papillomavirus (HPV) DNA integration sites in cervical carcinomas by HPV capture technology. Oncotarget,2016, 7(5): 5852-5864.