Basic Information
VIS ID
TVIS20003710
Fusion event
HPV-POU5F1B 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
HPV18
Reference genome
AY262282.1
Start
2178
End
2206
Orient
-
Integrated sequence
CCAAAAACGACAAATGAATATGTCACAGT
Host Sequence
Chromosome
chr8
Cytoband
q24.21
Reference genome
GRCh37/hg19
Start
128381896/127369650 (Hg38)
End
128381896/127369650 (Hg38)
Location type
Intronic
Target gene
POU5F1B
miRNAs that regulate target gene
hsa-mir-7853-5p ; hsa-mir-105-5p ; hsa-mir-8485 ; hsa-mir-6848-3p ; hsa-mir-6843-3p ; hsa-mir-3663-5p ; hsa-mir-372-5p ; hsa-mir-371a-5p ; hsa-mir-616-5p ; hsa-mir-373-5p ; hsa-mir-371b-5p ; hsa-mir-4698 ; hsa-mir-8063 ; hsa-mir-3163 ; hsa-mir-590-3p ; hsa-mir-5692a ; hsa-mir-4282 ; hsa-mir-2681-5p ; hsa-mir-4433b-5p ; hsa-mir-4693-5p ; hsa-mir-4669 ; hsa-mir-3657 ; hsa-mir-4433a-5p ; hsa-mir-4726-3p ; hsa-mir-6764-5p ; hsa-mir-1915-3p ; hsa-mir-6840-3p ; hsa-mir-892a ; hsa-mir-4318
Nearest miRNA
hsa-mir-12123/Upstream/2547592; hsa-mir-10400/Downstream/426312;
Nearest TSS
ENST00000518652/Upstream/30369; ENST00000630920/Downstream/30749;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/53757, chr8-CpG: 17/Downstream/364354
Upstream sequence
ATTTGTCTGAGAGGTGATTACCTTAGACTAGCAAACGAAAGACAGAGAGACTGGGCAATTGTAACATTATTTAAATCTTGGAATAATGCTATATCTTAACACTACTTCTGTACTATCTTTTTCTGTGTGTGCATATTTTATAGTTATTTATGTTTATATATGATTACTCAAAC
Junction sequence
ATTTGTCTGAGAGGTGATTACCTTAGACTAGCAAACGAAAGACAGAGAGACTGGGCAATTGTAACATTATTTAAATCTTGGAATAATGCTATATCTTAACACTACTTCTGTACTATCTTTTTCTGTGTGTGCATATTTTATAGTTATTTATGTTTATATATGATTACTCAAACACTGTGACATATTCATTTGTCGTTTTTGGGTCGGCCTATAA
* 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.
Curate