Basic Information
VIS ID
TVIS20003702
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
6013
End
6072
Orient
+
Integrated sequence
CGCCACGTCTAATGTTTCTGAGGACGTTAGGGACAATGTGTCTGTAGATTATAAGCAGAC
Host Sequence
Chromosome
chr8
Cytoband
q24.21
Reference genome
GRCh37/hg19
Start
128225237/127212992 (Hg38)
End
128225237/127212992 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA8C ; FRA8E
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/2390934; hsa-mir-10400/Downstream/582970;
Nearest TSS
ENST00000518652/Upstream/133118; ENST00000642795/Downstream/31645;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/654467, chr8-CpG: 29/Downstream/102650
Upstream sequence
ATGAGAATGGCAGGGTCTGTCTTGCTCCAGTTATATTCCCAGTG
Junction sequence
ATGAGAATGGCAGGGTCTGTCTTGCTCCAGTTATATTCCCAGTGTTAGGGACAATGTGTCTGTAGATTATAAGCAGACACAGTTATGTATTTTGGGCTGTGCCCCTGCTATTGGGGAACACTGGGCTAAAGGCAC
* 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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