Basic Information
VIS ID
TVIS20003998
Fusion event
HPV-TOB1-AS1 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
489
Host Sequence
Chromosome
chr17
Cytoband
q21.33
Reference genome
GRCh37/hg19
Start
48944854/50867493 (Hg38)
End
48944854/50867493 (Hg38)
Location type
Exon2
Target gene
TOB1-AS1
Nearest miRNA
hsa-mir-10226/Upstream/98763; hsa-mir-1250/Downstream/6023777;
Nearest TSS
ENST00000595228/Upstream/1139; ENST00000506394/Downstream/485;
Nearest CpG islands
chr17-CpG: 183/Target, None/Upstream, None/Downstream
Upstream sequence
CTTCTCCCTGTCTGAGGTGGCATGACTTGGAGTGAGTTTGGATGGGGTGGCCAGGTCTGAGAAGGTCCCCCGCCAGTGTCCTCTGACCCATCTGCTCTCT
Downstream sequence
AGGTAGCAACGACGCCTGATTGGCTGCGCTGGTCCCTTCGCAACGAGGCGATTGGCTGCCTGGTATCCAGGAGACCGACGTCAAACTCGGACTGGGAAAA
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