Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS20004666
Fusion event
HPV-CD274 integration
Validated
No
Detection method
RNA-Seq
Data source
download(HPVbase)
Sample type
Disease
Cervical carcinoma (CC)
Quality evaluation
Normal
Reported year
2013
PubMed ID
Virus Sequence
Virus name
HPV
Subtype
HPV16
Reference genome
Not given
Gene
L1
Start
6758
Host Sequence
Chromosome
chr9
Cytoband
p24.1
Reference genome
Start
End
5464598/5464598 (Hg38)
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-513a-5p ; hsa-mir-103a-3p ; hsa-mir-16-5p ; hsa-mir-570-3p ; hsa-mir-651-3p ; hsa-mir-3978 ; hsa-mir-593-3p ; hsa-mir-885-3p ; hsa-mir-380-5p ; hsa-mir-124-3p ; hsa-mir-601 ; hsa-mir-708-5p ; hsa-mir-34b-5p ; hsa-mir-665 ; hsa-mir-940 ; hsa-mir-326 ; hsa-mir-363-5p ; hsa-mir-214-3p ; hsa-mir-29c-3p ; hsa-mir-3977 ; hsa-mir-5706 ; hsa-mir-4782-5p ; hsa-mir-516b-5p ; hsa-mir-1299 ; hsa-mir-103a-2-5p ; hsa-mir-4790-3p ; hsa-mir-6128 ; hsa-mir-875-3p ; hsa-mir-4496 ; hsa-mir-138-5p ; hsa-mir-324-5p ; hsa-mir-338-5p ; hsa-mir-34a-3p ; hsa-mir-152-5p ; hsa-mir-200b-3p ; hsa-mir-152-3p ; hsa-mir-1273a ; hsa-mir-1273c ; hsa-mir-15a-5p ; hsa-mir-15b-5p ; hsa-mir-194-5p ; hsa-mir-195-5p ; hsa-mir-424-5p ; hsa-mir-4503 ; hsa-mir-497-5p ; hsa-mir-6792-5p ; hsa-mir-6838-5p
Nearest miRNA
hsa-mir-101-2/Upstream/614223; hsa-let-7a-1/Downstream/543228;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/13969, chr9-CpG: 107/Downstream/163972
Upstream sequence
GCTGAGTGGCTACTGCTTGTGCTTTCTTGCTTCCAAGCTGGCGGTAAACCTTTTAAATTCAGAGTGATTCAAGGGCATAGGCGTCGGAATTGTGATTTCG
Downstream sequence
gaggaagaaactgagacactgagaTGGCCATATGCAAGGCTGCAGTGACTGACTCCAGAGCCGACCCTGTGGTCCACTGACCCAGGCTGCTTTACTGGGg
Reference
Khoury, J. D., et al. Landscape of DNA virus associations across human malignant cancers: analysis of 3,775 cases using RNA-Seq. J Virol,2013, 87(16): 8916-8926.