Basic Information
VIS ID
TVIS20004184
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
6531
End
6940
Orient
-
Integrated sequence
TGGTTACCTCTGATGCCCAAATATTCAATAAACCTTATTGGTTACAACGAGCACAGGGCCACAATAATGGCATTTGTTGGGGTAACCAACTATTTGTTACTGTTGTTGATACTACACGCAGTACAAATATGTCATTATGTGCTGCCATATCTACTTCAGAAACTACATATAAAAATACTAACTTTAAGGAGTACCTACGACATGGGGAGGAATATGATTTACAGTTTATTTTTCAACTGTGCAAAATAACCTTAA
Host Sequence
Chromosome
chr2
Cytoband
p22.3
Reference genome
GRCh37/hg19
Start
33141468/32916401 (Hg38)
End
33141648/32916581 (Hg38)
Orient
-
Location type
Intronic
Target gene
LINC00486
Nearest miRNA
hsa-mir-1301/Upstream/281070; hsa-mir-10b/Downstream/501935;
Nearest TSS
ENST00000437798/Upstream/33600; ENST00000440786/Downstream/10546;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/288198, chr2-CpG: 164/Downstream/29800
Nearby gene
TTC27(-95350) ; LOC100271832(+10545) ;
Upstream sequence
ttctttccttcctccctccctccctcccccttacctccctgccttccttccGGCGGGCGTACTTGCGGGCGGGCGGGGCTGCgggggggcgtgggtaggg
Downstream sequence
gggggcggggggggggagggggggggggggggggggggggggggNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
Target sequence
gggggggggggggggggggggggggggggggggggggggagggggggggggggggggggggggggggggggaggggggggggggaggggggggggggggggggggggggggggggggggggggggggggggggggggggggggggggggggggggagggggggggggggggggggggggc
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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