Basic Information
VIS ID
TVIS20003333
Fusion event
HPV-RBFOX1 integration
Validated
No
Detection method
HIVID
Data source
Curated
Sample type
Tumor
Disease
Not given
Quality evaluation
Normal
Reported year
2015
PubMed ID
25581428
Virus Sequence
Virus name
HPV
Reference genome
HE574705.1;NC_001526.2;AY262282.1;HQ537777.1;EU918767.1
Host Sequence
Chromosome
chr16
Cytoband
p13.3
Reference genome
GRCh37/hg19
Start
6297003/6247002 (Hg38)
End
6297003/6247002 (Hg38)
Location type
Intronic
Target gene
RBFOX1
miRNAs that regulate target gene
hsa-mir-30a-5p ; hsa-let-7b-5p ; hsa-mir-3157-5p ; hsa-mir-153-5p ; hsa-mir-935 ; hsa-mir-4691-3p ; hsa-mir-1305 ; hsa-mir-6809-3p ; hsa-mir-6833-3p ; hsa-mir-4768-5p ; hsa-mir-498 ; hsa-mir-4753-3p ; hsa-mir-627-3p ; hsa-mir-6832-3p ; hsa-mir-562
Nearest miRNA
hsa-mir-1225/Upstream/614436; hsa-mir-11401/Downstream/5059438;
Nearest TSS
ENST00000527434/Upstream/227299; ENST00000547427/Downstream/236177;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/226602, chr16-CpG: 85/Downstream/236016
Upstream sequence
ataaatgtcttcttctgagaagtgtctgttcatgtccttcacccactttttgatggggttgtttgtttttttcctgtaaatttgtttgagtttattgtag
Downstream sequence
gaggttgtggtgagtcgagattgcaccattttactccagcctgggcaacaagagtggaactccatctcaaactaacaaactaaaaaaaaTTCTGACCACT
Reference
Hu, Z., et al. Genome-wide profiling of HPV integration in cervical cancer identifies clustered genomic hot spots and a potential microhomology-mediated integration mechanism. Nat Genet,2015, 47(2): 158-163.
Curate