Basic Information
VIS ID
TVIS20005054
Fusion event
HPV-SNX30 integration
Validated
Yes
Detection method
RNA-Seq+RT-PCR
Data source
Curated
Sample type
Tumor
Disease
Squamous-cell carcinoma (SCC)
Quality evaluation
Good
Reported year
2014
PubMed ID
24390348
Virus Sequence
Virus name
HPV
Subtype
HPV16
Reference genome
HQ644271.1
Host Sequence
Chromosome
chr9
Cytoband
q32
Reference genome
GRCh37/hg19
Start
115585103/112822823 (Hg38)
End
115618350/112856070 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA9E
Target gene
SNX30
miRNAs that regulate target gene
hsa-mir-21-5p ; hsa-mir-133a-3p
Nearest miRNA
hsa-let-7a-1/Upstream/890654; hsa-mir-12126/Downstream/1353364;
Nearest TSS
ENST00000422679/Upstream/71985; ENST00000604751/Downstream/638;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/71346, chr9-CpG: 79/Downstream/34096
Nearby gene
INIP ; ZNF883(+) ;
Upstream sequence
TCAATTTTGCCATAATCTTTCAACTTTTAATCTGCCTTGGCACTTTGACTTTCTGTAAGTCTACTTGTTCTTGAGTTTCTTTGACTGTATAGGAGGAAGA
Downstream sequence
CACTTGGTATAACTAGCTCCAAAAAGAACAAAGAAGGGATGCCAGGGAGAAGGCTTCACAGAATTCCTAGTTATCTTCAAAAAGTAAATAAAAAAAGCAG
Reference
Ojesina, A. I., et al. Landscape of genomic alterations in cervical carcinomas. Nature,2014,506(7488): 371-375.
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