Basic Information
VIS ID
TVIS20003929
Fusion event
HPV-LINC01206 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
HPV33
Reference genome
Not given
Gene
E6
Start
3380
Host Sequence
Chromosome
chr3
Cytoband
q26.33
Reference genome
GRCh37/hg19
Start
181708720/181990932 (Hg38)
End
181708720/181990932 (Hg38)
Location type
Intronic
Target gene
LINC01206
Nearest miRNA
hsa-let-7g/Upstream/5475781; hsa-mir-1224/Downstream/1895868;
Nearest TSS
ENST00000440867/Upstream/6562; ENST00000631282/Downstream/8857;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/263720, chr3-CpG: 70/Downstream/691358
Nearby gene
LINC01994(+456037) ;
Upstream sequence
AAATCAGACCAGTCCACTCTCAAATGTGAATATTTTTAGAAGAGCAAAAAGACTAAAGGCACTTTGGTTCCACATAACAAAACAGCTCTTTCATTCTGTG
Downstream sequence
gcaaagtaagtgatcaataaatatttgttacttttGTCATTTATATTTTTATTCATGTTAAATTTGCTGAAGTGTGATTTTTTTCCTCTTCATATTCCAA
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