Basic Information
VIS ID
TVIS20004396
Fusion event
HPV-GOLT1A 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
E2
Start
3005
Integrated sequence
TTAAACATATTAACCACCAAGTGGTGCCAACACTGGCTGTATCAAAGAATAAAGCATTACAAGCAATTGAACTGCAACTAACGTTAGAAACAATATATAA| |CTCACAATATAGTAATGAAAAGTGGACATTACAAGACGTTAGCCTTGAAGTGTATTTAACTGCACCAACAGGATGTATAAAAAAACATGGATATACAGTG
Host Sequence
Chromosome
chr1
Cytoband
q32.1
Reference genome
GRCh37.p5
Start
204168342/204199214 (Hg38)
End
204168342/204199214 (Hg38)
Orient
-
Location type
Exon4
Target gene
GOLT1A
miRNAs that regulate target gene
hsa-mir-378a-3p
Nearest miRNA
hsa-mir-101-1/Upstream/2195978; hsa-mir-1182/Downstream/1249088;
Nearest TSS
ENST00000473358/Upstream/2728; ENST00000437919/Downstream/2487;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/8509, chr1-CpG: 25/Downstream/58202
Upstream sequence
CAAATGGAGAAGGTGCGGGGGGAAGAGGAGCCTAAAGCACCAAACCTGGGCTAGGGGGTCTGAGGGGAGACAGGGGAGAGGCCACTGCCCCTGGGGCAGC
Downstream sequence
TGCAGACATTGCCCAGGAAGCCGAAGGCGACAGGGAAAAAGCCCCTAGGAGCAGAGGGGAGAAGGGAGGAGTCAGTGATGGCCCAGGAAGAGAGGATAGA
Target sequence
AGTTTTACCAGCTCCCCTCCGTGTGCTCCCCCTCACTCCCCAGGGTACGCCCGCAGGGCTGCAGGCATCATCTGCTTACCGCACCCAGGAAGGGGATGT
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