Basic Information
VIS ID
TVIS20002623
Fusion event
HPV-LINCR-0003 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
Subtype
HPV16
Reference genome
NC_001526.2
Host Sequence
Chromosome
chr5
Cytoband
q11.2
Reference genome
GRCh37/hg19
Start
56890775/57594948 (Hg38)
End
56890775/57594948 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA5H
Target gene
LINCR-0003
Nearest miRNA
hsa-mir-10397/Upstream/2086022; hsa-mir-103a-1/Downstream/935095;
Nearest TSS
ENST00000502646/Upstream/20921; ENST00000509844/Downstream/19441;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/420254, chr5-CpG: 157/Downstream/864559
Upstream sequence
CAAGGAATGTCAAAGCTGACTCTGAGGAAAAGATGGGGTGGCAGAACCAAATGAAAACCCAATTGCCTTGGCACCCAATTATGAAGATGATAATGTAATT
Downstream sequence
GCATATAAATTGAAACAGTCTTGGGTGAACTGAAACTCAAGGTGACCTTGAATGAAGGCAACAGGGACTCTTGGAACCATTTTAATTAGGAAAATGATTC
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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