Basic Information
VIS ID
TVIS20004407
Fusion event
HPV-HDAC2 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
3097
Integrated sequence
ATATATAACTCACAATATAGTAATGAAAAGTGGACATTACAAGACGTTAGCCTTGAAGTGTATTTAACTGCACCAACAGGATGTATAAAAAAACATGGAT| |ATACAGTGGAAGTGCAGTTTGATGGAGACATATGCAATACAATGCATTATACAAACTGGACACATATATATATTTGTGAAGAAGCATCAGTAACTGTGGT
Host Sequence
Chromosome
chr6
Cytoband
q21
Reference genome
GRCh37.p5
Start
114267275/113946111 (Hg38)
End
114267275/113946111 (Hg38)
Orient
+
Location type
Exon9
Fragile sites / regions
FRA6F
Target gene
HDAC2
miRNAs that regulate target gene
hsa-mir-145-5p ; hsa-mir-1-3p ; hsa-mir-149-5p ; hsa-let-7f-5p ; hsa-mir-92a-3p ; hsa-mir-455-3p
Nearest miRNA
hsa-mir-10398/Upstream/7161891; hsa-mir-1202/Downstream/5122936;
Nearest TSS
ENST00000381078/Upstream/41973; ENST00000521888/Downstream/3212;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/85600, chr6-CpG: 128/Downstream/24136
Upstream sequence
TATGATGGGTTTATCAGGACCTAATTGCAACATAATTAGAGGAGCATCTGTATTGACAGTTCATACAATAAAGATATTGTAATGAGAACACTTACCATTG
Downstream sequence
TTAAAAGTTTTTACAACTTCTACACATTTAGCATGACCTAAGACAAGAAGATTTGGGTAACAACAAAATCTGCATACTGCAACAGTTCGAAAAATAAATT
Target sequence
GGAATCTCACAATCAAGGGCAACTGCAGTCTCATATGTCCAACATCGAGCAACATTACGGATTGTGTAGCCACCTCCTCCAAGCATCAGTAATGGTAAG
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.
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