Basic Information
VIS ID
TVIS20003203
Fusion event
HPV-NCK1 integration
Validated
No
Detection method
HIVID
Data source
Curated
Sample type
Tumor
Disease
Not given
Quality evaluation
Normal
Reported year
2015
PubMed ID
25581428
Virus Sequence
Virus name
HPV
Reference genome
NC_001526.2;AY262282.1;HQ537687.1;HQ537751.1
Host Sequence
Chromosome
chr3
Cytoband
q22.3
Reference genome
GRCh37/hg19
Start
136585635/136866793 (Hg38)
End
136585635/136866793 (Hg38)
Location type
Intronic
Target gene
NCK1
miRNAs that regulate target gene
hsa-mir-3191-5p ; hsa-mir-942-5p ; hsa-mir-26b-3p ; hsa-mir-5582-3p ; hsa-mir-548f-3p ; hsa-mir-548e-3p ; hsa-mir-548az-3p ; hsa-mir-548ar-3p ; hsa-mir-548a-3p
Nearest miRNA
hsa-let-7g/Upstream/2428887; hsa-mir-1224/Downstream/14699083;
Nearest TSS
ENST00000440867/Upstream/4495; ENST00000496489/Downstream/61246;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/3914, chr3-CpG: 23/Downstream/165706
Upstream sequence
TGCTCTCCATTTAGACATCTTTAAACAAGTATTTCAGTAGCATCGCCTGGTAGAATAGGATCAGACAGACCTAGCTACGTATTTTCACCCAATGACACGC
Downstream sequence
gtagagatggggtttcaccatgttggccaggctggtcttgaactcccgacctcaggtgatccacatgcgtcggcttcccaaagtgttgggattacaggcg
Reference
Hu, Z., et al. Genome-wide profiling of HPV integration in cervical cancer identifies clustered genomic hot spots and a potential microhomology-mediated integration mechanism. Nat Genet,2015, 47(2): 158-163.
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