Basic Information
VIS ID
TVIS20004684
Fusion event
HPV-LINC00111 integration
Validated
No
Detection method
RNA-Seq
Data source
download(HPVbase)
Sample type
Tumor
Disease
Cervical carcinoma (CC)
Quality evaluation
Normal
Reported year
2013
PubMed ID
23740984
Virus Sequence
Virus name
HPV
Subtype
HPV16
Reference genome
Not given
Gene
E6
Start
119
Host Sequence
Chromosome
chr21
Cytoband
q22.3
Reference genome
GRCh37/hg19
Start
43089331/41669171 (Hg38)
End
43089331/41669171 (Hg38)
Location type
Intronic
Target gene
LINC00111
Nearest miRNA
hsa-let-7c/Upstream/501542; hsa-mir-5692b/Downstream/77601;
Nearest TSS
ENST00000624081/Upstream/87852; ENST00000413718/Downstream/10010;
Nearest CpG islands
None/Target, chr21-CpG: 261/Upstream/160424, chr21-CpG: 32/Downstream/20018
Upstream sequence
GAGTTTTCCAGCCCTGAGAGTTCGGTCAGTGCTGGCTCTGACTTTGGGGATTTTCTGAGGAATGTTTCATTCAGCCCCATCTAGAACATCCCTGGCGTTG
Downstream sequence
GAGCAGCAGAATGCTAAGATGGGCTGGCTCAGTCTGGGAGCCATGAGCAGAGGGAGGAGGAGGCCTGCGGTGCTTCCACGCGGGGCCTGAGATGCTTGGA
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.
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