Basic Information
VIS ID
TVIS20004185
Fusion event
HPV-LINC00486 integration
Validated
Yes
Detection method
APOT and sequencing
Data source
Curated
Sample type
Cell line
Disease
Cervical carcinoma (CC)
Quality evaluation
Good
Reported year
2018
PubMed ID
29364907
Virus Sequence
Virus name
HPV
Subtype
HPV16
Reference genome
AF125673.1
Strand
+
Gene
L1
Start
5752
End
6286
Orient
+
Integrated sequence
ATCCAGACTACTTGCAGTTGGACATCCCTATTTTCCTATTAAAAAACCTAACAATAACAAAATATTAGTTCCTAAAGTATCAGGATTACAATACAGGGTATTTAGAATACATTTACCTGACCCCAATAAGTTTGGTTTTCCTGACACCTCATTTTATAATCCAGATACACAGCGGCTGGTTTGGGCCTGTGTAGGTGTTGAGGTAGGCCGTGGTCAGCCATTAGGTGTGGGCATTAGTGGCCATCCTTTATTAAA
Host Sequence
Chromosome
chr2
Cytoband
p22.3
Reference genome
GRCh37/hg19
Start
33141477/32916410 (Hg38)
End
33141653/32916586 (Hg38)
Orient
-
Location type
Intronic
Target gene
LINC00486
Nearest miRNA
hsa-mir-1301/Upstream/281079; hsa-mir-10b/Downstream/501930;
Nearest TSS
ENST00000437798/Upstream/33609; ENST00000440786/Downstream/10541;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/288207, chr2-CpG: 164/Downstream/29795
Nearby gene
TTC27(-95359) ; LOC100271832(+10540) ;
Upstream sequence
tttccttcctccctccctccctcccccttacctccctgccttccttccGGCGGGCGTACTTGCGGGCGGGCGGGGCTGCgggggggcgtgggtagggggg
Downstream sequence
cggggggggggagggggggggggggggggggggggggggNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
Target sequence
ggggggggggggggggggggggggggggggagggggggggggggggggggggggggggggggaggggggggggggaggggggggggggggggggggggggggggggggggggggggggggggggggggggggggggggggggggggagggggggggggggggggggggggcggggg
Reference
Warburton, A., et al. HPV integration hijacks and multimerizes a cellular enhancer to generate a viral-cellular super-enhancer that drives high viral oncogene expression. PLoS Genet ,2018,14(1): e1007179.
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