Basic Information
VIS ID
TVIS20004402
Fusion event
HPV-EPHA7 integration
Validated
Yes
Detection method
DIPS-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
Gene
E1
Start
2119
Integrated sequence
ATAGTAATGCAAGTGCCTTTCTAAAAAGTAATTCACAGGCAAAAATTGTAAAGGATTGTGCAACAATGTGTAGACATTATAAACGAGCAGAAAAAAAACA| |AATGAGTATGAGTCAATGGATAAAATATAGATGTGATAGGGTAGATGATGGAGGTGATTGGAAGCAAATTGTTATGTTTTTAAGGTATCAAGGTGTAGAG
Host Sequence
Chromosome
chr6
Cytoband
q16.1
Reference genome
GRCh37.p5
Start
94112296/93402578 (Hg38)
End
94112296/93402578 (Hg38)
Orient
+
Location type
Intron3
Target gene
EPHA7
miRNAs that regulate target gene
hsa-mir-196a-5p ; hsa-mir-93-5p ; hsa-mir-455-3p ; hsa-mir-615-3p ; hsa-mir-331-3p ; hsa-mir-125b-5p ; hsa-mir-92a-3p ; hsa-mir-548c-3p ; hsa-mir-590-3p ; hsa-mir-8061 ; hsa-mir-4775 ; hsa-mir-4760-5p ; hsa-mir-3934-3p ; hsa-mir-4330 ; hsa-mir-10b-3p ; hsa-mir-577 ; hsa-mir-6757-3p ; hsa-mir-141-3p ; hsa-mir-200a-3p
Nearest miRNA
hsa-mir-10398/Upstream/1880841; hsa-mir-1202/Downstream/4621953;
Nearest TSS
ENST00000381078/Upstream/332191; ENST00000424678/Downstream/16948;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/2791078, chr6-CpG: 92/Downstream/13976
Upstream sequence
TTTTTAAGGAAGGTAAGAGCAATTATCTTTGCAAGGTACACAAGAAACTAATAACAATAGTTGTACCTGGAAAAATATACTGTGGAACTGGGTCACAGGG
Downstream sequence
AAAATTGTAAAGGTAATATGTGTAGGTATAACTCAAATAGGAGAAAAATGTTTTGACATAATATGGAATTTATGTAATTTCCCACTTACAGAGACAATAG
Target sequence
ATGACATTTGTTCTAGATCTGTGTATGTTACCTATCCAAAAATGTCTTAAAACAAGTATTTTGAGTTTCTGAATGTGAATAATTTAATGAAGGACATAA
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