Basic Information
VIS ID
TVIS20005090
Fusion event
HPV-SNIP1 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
HPV18
Reference genome
Not given
Host Sequence
Chromosome
chr1
Cytoband
p34.3
Reference genome
GRCh37/hg19
Start
38006232/37540631 (Hg38)
End
38006339/37540738 (Hg38)
Location type
Intronic
Target gene
SNIP1
miRNAs that regulate target gene
hsa-mir-4518 ; hsa-mir-1266-5p ; hsa-mir-3664-3p ; hsa-mir-4650-5p ; hsa-mir-1972 ; hsa-mir-3613-3p ; hsa-mir-5089-5p ; hsa-mir-6778-3p ; hsa-mir-6506-5p ; hsa-mir-619-5p ; hsa-mir-1976 ; hsa-mir-3653-5p ; hsa-mir-6747-3p ; hsa-mir-6727-3p ; hsa-mir-4722-3p ; hsa-mir-4740-3p ; hsa-mir-301a-3p ; hsa-mir-3190-5p ; hsa-mir-3926 ; hsa-mir-4433a-3p ; hsa-mir-4786-5p ; hsa-mir-548s ; hsa-mir-5583-3p ; hsa-mir-6849-3p
Nearest miRNA
hsa-mir-12136/Upstream/39637; hsa-mir-101-1/Downstream/548493;
Nearest TSS
ENST00000473358/Upstream/25857; ENST00000490312/Downstream/856;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/25667, chr1-CpG: 30/Downstream/13267
Nearby gene
MEAF6 ; DNALI1(+) ;
Upstream sequence
cacacttggttatttctagcttttgatttaaaagtgagagatgtgggactcttcctttcacttgaacacttagagaccactgtaggattattaattggcc
Downstream sequence
GGATGATCCTCACGCTCCTAAAATTCAAACAGATTCTGTAATTTAAACGCAGTGCACAATCTAAAGGCAGCCCAAATCTTGTTCTTTTTgaacgaagtgc
Reference
Ojesina, A. I., et al. Landscape of genomic alterations in cervical carcinomas. Nature,2014,506(7488): 371-375.
Curate