Basic Information
VIS ID
TVIS20005095
Fusion event
HPV-chr18:q21.33 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
HPV56
Reference genome
Not given
Host Sequence
Chromosome
chr18
Cytoband
q21.33
Reference genome
GRCh37/hg19
Start
61302266/63635032 (Hg38)
End
61351034/63683800 (Hg38)
Location type
Intronic
Target gene
SERPINB3 ; SERPINB4
miRNAs that regulate target gene
hsa-mir-6807-5p ; hsa-mir-556-5p ; hsa-mir-3123 ; hsa-mir-4517 ; hsa-mir-6807-5p ; hsa-mir-556-5p ; hsa-mir-3123 ; hsa-mir-4517
Nearest miRNA
hsa-mir-1-2/Upstream/5183874; hsa-mir-5011/Downstream/3397784;
Nearest TSS
ENST00000575820/Upstream/46301; ENST00000613567/Downstream/18504;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/211908, chr18-CpG: 63/Downstream/252366
Nearby gene
SERPINB13 ; SERPINB11(+) ;
Upstream sequence
GGCAGCCAGGACGGAGCGGTGGGTCCGATACTCCTGCTCCTGCACCACCAGGAGCACGTCACACAGCAGGCCATCGTGCCGTTGCTCATTGAGGCTGCAC
Downstream sequence
TGCAGATGGAAACTCAGAATTTTCTATAATAAACGAGTAACATGGACTTCTCaattttaatttttattatttagttatttttataaCAGCAGCATTAGGA
Reference
Ojesina, A. I., et al. Landscape of genomic alterations in cervical carcinomas. Nature,2014,506(7488): 371-375.
Curate