Basic Information
VIS ID
TVIS20004284
Fusion event
HPV-RPS14P7 integration
Validated
Yes
Detection method
WGS, RNA-seq, Whole-Exome sequencing, PCR
Data source
Curated
Sample type
Tumor
Disease
Head and neck squamous cell carcinoma (HNSCC)
Quality evaluation
Perfect
Reported year
2014
PubMed ID
25313082
Virus Sequence
Virus name
HPV
Subtype
HPV16
Reference genome
AY686584
Gene
E1
Start
1420
Integrated sequence
ACTGAAACACCATGTAGTCAGTATAGTGGTGGAAGTGGGGGTGGTTGCAGTCAGTACAGTAGTGGAAGTGGGGGAGAGGGTGTTAGTGAAAGACACACTA| |TATGCCAAACACCACTTACAAATATTTTAAATGTACTAAAAACTAGTAATGCAAAGGCAGCAATGTTAGCAAAATTTAAAGAGTTATACGGGGTGAGTTT
Host Sequence
Chromosome
chr4
Cytoband
q32.1
Reference genome
GRCh37/hg19
Start
161739760/160818608 (Hg38)
End
161739760/160818608 (Hg38)
Location type
Intronic
Target gene
RPS14P7
Nearest miRNA
hsa-mir-12113/Upstream/1689714; hsa-mir-1305/Downstream/2274966;
Nearest TSS
ENST00000502981/Upstream/279354; ENST00000508189/Downstream/560345;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/1714625, chr4-CpG: 71/Downstream/2347701
Junction sequence
TATCTGCTCCATGACTGGGGGATGAAGAATAAGGGTG---TAAGCGAAACACCACTTACAAATCTTTTAAATGTACTAAAAACTAGTAATGCAAAGGCAGCAAT
* Color:  Human Sequence / Virus Sequence / Overlapped sequence / Unknown sequence
Reference
Parfenov, M., et al. Characterization of HPV and host genome interactions in primary head and neck cancers. Proc Natl Acad Sci U S A,2014,111(43): 15544-15549.
Curate