Basic Information
VIS ID
TVIS20004429
Fusion event
HPV-PHF21B integration
Validated
Yes
Detection method
APOT-PCR
Data source
Curated
Sample type
Tumor
Disease
Oropharyngeal squamous cell carcinoma (OSCC)
Quality evaluation
Normal
Reported year
2014
PubMed ID
24586376
Virus Sequence
Virus name
HPV
Subtype
HPV16
Reference genome
NC_001526.1
Host Sequence
Chromosome
chr22
Cytoband
q13.31
Reference genome
GRCh37.p5
Start
45346809/44950929 (Hg38)
End
45346809/44950929 (Hg38)
Orient
+
Location type
Intron3
Fragile sites / regions
FRA22A
Target gene
PHF21B
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-4707-3p ; hsa-mir-7108-3p ; hsa-mir-6764-5p ; hsa-mir-1915-3p ; hsa-mir-6798-5p ; hsa-mir-6794-5p ; hsa-mir-4716-3p ; hsa-mir-4747-3p ; hsa-mir-483-3p ; hsa-mir-4279 ; hsa-mir-6780a-3p ; hsa-mir-7111-3p ; hsa-mir-6749-3p ; hsa-mir-6792-3p ; hsa-mir-4691-5p ; hsa-mir-1236-3p ; hsa-mir-6845-3p ; hsa-mir-4469 ; hsa-mir-6769b-3p ; hsa-mir-4723-3p ; hsa-mir-3183 ; hsa-mir-5193 ; hsa-mir-4667-3p ; hsa-mir-1470 ; hsa-mir-4267 ; hsa-mir-6888-3p ; hsa-mir-6744-3p ; hsa-mir-4757-5p ; hsa-mir-3120-5p
Nearest miRNA
hsa-mir-1281/Upstream/3027632; hsa-let-7a-3/Downstream/250025;
Nearest TSS
ENST00000624155/Upstream/91268; ENST00000432340/Downstream/18154;
Nearest CpG islands
None/Target, chr22-CpG: 279/Upstream/34334, chr22-CpG: 344/Downstream/56079
Upstream sequence
GTTGCAATGAATCCATAATTGAAGCAGGGCTCTTGCTGTTTCCTTTTAAATGCAACTTTCTTTGAGTCTTCTGCTGTTTCACCATTGGGCCTTTCCCCCT
Downstream sequence
AGTGTGGGAAAGAGGCATGGACAGAAGTGGTAAGTAACATCACAGGCGGGCCACACGCAGCCTAAAATAAGCATCAGGTTCTGACGTAAAGCCTGCCGCC
Target sequence
TTTCAAAGAAGCTCTCCAGAGACGCTTGATTTTTTTCTTACTCATTCTGGCTAGGGTTAGCCGGTGGACTTACCCAAACTGTGACTGAGACACGTGCTG
Reference
Olthof, N. C., et al.Comprehensive analysis of HPV16 integration in OSCC reveals no significant impact of physical status on viral oncogene and virally disrupted human gene expression.2014, PLoS One 9(2): e88718.
Curate