Basic Information
VIS ID
TVIS20004140
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
E6
Start
412
Host Sequence
Chromosome
chr14
Cytoband
q21.1
Reference genome
GRCh37/hg19
Start
38066899/37597694 (Hg38)
End
38066899/37597694 (Hg38)
Location type
Intron1
Target gene
TTC6
miRNAs that regulate target gene
hsa-mir-335-5p
Nearest miRNA
hsa-mir-208a/Upstream/645303; hsa-mir-1185-1/Downstream/10163301;
Nearest TSS
ENST00000550708/Upstream/1635; ENST00000554555/Downstream/13557;
Nearest CpG islands
None/Target, chr14-CpG: 35/Upstream/1234, chr14-CpG: 123/Downstream/547
Upstream sequence
ggatataagcctggagctccttgtggctgtctttgccaccatatgaaggaactcacctcagaatgacaataaatcaacgtagagaaaaacaagagattga
Downstream sequence
CAGGTTCGCAGCCGGGGGATTTCCACGAAAACAGCGCCTCCTGTCGTGGAGAGGGAAAGCTGAATTTTCCCGCAGGCGCCTCCGGGGAGCACCGCCAGGC
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