Basic Information
VIS ID
TVIS20004142
Fusion event
HPV-TTC6 integration
Validated
No
Detection method
RNA-Seq
Data source
Curated
Sample type
Tumor
Disease
Head and neck squamous cell carcinoma (HNSCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
28928286
Virus Sequence
Virus name
HPV
Subtype
HPV16
Reference genome
Not given
Gene
E7
Start
599
Host Sequence
Chromosome
chr14
Cytoband
q21.1
Reference genome
GRCh37/hg19
Start
38093279/37624074 (Hg38)
End
38093279/37624074 (Hg38)
Location type
Intron3
Target gene
TTC6
miRNAs that regulate target gene
hsa-mir-335-5p
Nearest miRNA
hsa-mir-208a/Upstream/671683; hsa-mir-1185-1/Downstream/10136921;
Nearest TSS
ENST00000550708/Upstream/2009; ENST00000554555/Downstream/148309;
Nearest CpG islands
None/Target, chr14-CpG: 35/Upstream/1103, chr14-CpG: 43/Downstream/583875
Upstream sequence
ttggcacagtgttctggagctaatgcatggcagagctgggattccaccccaggcagtctcatccaagacACTGAGCTGGAACCATGCCCAGGACAGCCCA
Downstream sequence
TCAGCCCCAGAATACACTCTTGGCTGTGATTTAAGGAATGTGACCATAAAGGGAAGCAAAAACAGGTATGAACAAGAGTCTCTGGTGTTGCCTTTGGCCT
Reference
Koneva, L. A., et al. HPV Integration in HNSCC Correlates with Survival Outcomes, Immune Response Signatures, and Candidate Drivers. Mol Cancer Res ,2018,16(1): 90-102.
Curate