Basic Information
VIS ID
TVIS20003759
Fusion event
HPV-PTGER4 integration
Validated
Yes
Detection method
PCR and Sanger sequencing
Data source
Curated
Sample type
Tumor
Disease
Not given
Quality evaluation
Perfect
Reported year
2015
PubMed ID
25581428
Virus Sequence
Virus name
HPV
Subtype
HPV16
Reference genome
NC_001526.2
Start
1123
End
1174
Orient
-
Integrated sequence
AACGAAAGTATTTGGTAGTCCACTTAGTGATATTAGTGGATGTGTAGACAAT
Host Sequence
Chromosome
chr5
Cytoband
p13.1
Reference genome
GRCh37/hg19
Start
40293340/40293238 (Hg38)
End
40293340/40293238 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA5A
Target gene
PTGER4
miRNAs that regulate target gene
hsa-mir-101-3p ; hsa-mir-32-5p ; hsa-mir-92a-3p ; hsa-mir-92b-3p ; hsa-mir-20a-5p ; hsa-mir-106b-5p ; hsa-mir-519d-3p ; hsa-mir-93-5p ; hsa-mir-17-5p ; hsa-mir-20b-5p
Nearest miRNA
hsa-mir-10397/Upstream/1735677; hsa-mir-103a-1/Downstream/13658266;
Nearest TSS
ENST00000502646/Upstream/32581; ENST00000637776/Downstream/121899;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/571505, chr5-CpG: 191/Downstream/386162
Downstream sequence
TGATTTTTTATTAAAACAATGTAGGAATTCAATAAAGAAAGTGGCACTTGAGTTTAGGCTTATAGGACACCTAGGAAACCAAGTGATAGAGGAGACAGCA
Junction sequence
GGCAATACAACAAACCGTTGTGTGATTTGTTAATTAGGTGTATTAACTGTCAATGATTTTTTATTAAAACAATGTAGGAATTCAATAAAGAAAGTGGCACTTGAGTTTAGGCTTATAGGACACCTAGGAAACCAAGTGATAGAGGAGACAGCA
* Color:  Human Sequence / Virus Sequence / Overlapped sequence / Unknown sequence
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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