Basic Information
VIS ID
TVIS20004139
Fusion event
HPV-LOC102724680 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
612
Host Sequence
Chromosome
chr12
Cytoband
q21.31
Reference genome
GRCh37/hg19
Start
85382550/84988771 (Hg38)
End
85382550/84988771 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA12B
Target gene
LOC102724680
Nearest miRNA
hsa-let-7i/Upstream/3830310; hsa-mir-1178/Downstream/1756297;
Nearest TSS
ENST00000382841/Upstream/75156; ENST00000393212/Downstream/27530;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/75721, chr12-CpG: 56/Downstream/291329
Nearby gene
TSPAN19(+25543) ;
Upstream sequence
GAAATATGACAATAGGTCCATTTCACATGTTACTGTGTGAAATAATTTTCCAGCCTTTCCTAGCACAATGCCCACAACATACTTGGACTTCAAAAAATGT
Downstream sequence
GTTTTTCTTATTTCTATGGAGGGTCACAAGACTTTCATGCAGCATTATCTGATGAGTTAAATTGAATGGATttcattcattcattcattcattcaCTTGC
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