Basic Information
VIS ID
TVIS20000499
Fusion event
HPV-chr1:p35.3 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
NC_001526.2;EU918767.1
Host Sequence
Chromosome
chr1
Cytoband
p35.3
Reference genome
GRCh37/hg19
Start
28833837/28507325 (Hg38)
End
28833837/28507325 (Hg38)
Location type
Intronic
Target gene
RCC1 ; SNHG3
miRNAs that regulate target gene
hsa-mir-193b-3p ; hsa-mir-124-3p ; hsa-mir-941 ; hsa-mir-18a-3p ; hsa-mir-149-5p ; hsa-mir-92a-3p ; hsa-mir-107 ; hsa-mir-103a-3p ; hsa-mir-199b-5p ; hsa-mir-199a-5p ; hsa-mir-1825 ; hsa-mir-7157-5p ; hsa-mir-4310 ; hsa-mir-5692a ; hsa-mir-548c-3p ; hsa-mir-5190
Nearest miRNA
hsa-mir-12136/Upstream/1952732; hsa-mir-101-1/Downstream/2231831;
Nearest TSS
ENST00000473358/Upstream/1268; ENST00000486790/Downstream/2752;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/137105, chr1-CpG: 78/Downstream/10816
Upstream sequence
caattatgtgtcttggagttgctcttctcgaggagtatctttgtggcgttctctgtatttcctgaatctgaacgttggcctgccttgctagattggggat
Downstream sequence
gttctcctggataatatcctgcagagtgttttccaacttggttccattctccacatcactttcaggtacaccaatcagacgtagatttggtcttttcaca
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