Basic Information
VIS ID
TVIS20000871
Fusion event
HPV-C4orf50 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
Subtype
HPV16
Reference genome
NC_001526.2
Host Sequence
Chromosome
chr4
Cytoband
p16.1
Reference genome
GRCh37/hg19
Start
6012881/6011154 (Hg38)
End
6012881/6011154 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA4A
Target gene
C4orf50
miRNAs that regulate target gene
hsa-mir-192-3p ; hsa-mir-4312 ; hsa-mir-489-3p ; hsa-mir-4317
Nearest miRNA
hsa-mir-378d-1/Upstream/87826; hsa-mir-12113/Downstream/1299296;
Nearest TSS
ENST00000502981/Upstream/21090; ENST00000507424/Downstream/7353;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/2596, chr4-CpG: 58/Downstream/94249
Upstream sequence
aacaaaaattagctgggtgtggtggtgctcgcttgtagttccagctacttgggaggctgaggaggaaggatggcttgagcctcagaggcggaggctgcag
Downstream sequence
CCCCAAATGACCATCTGACCCTGAGGCTTCCCTACTTAAGTCCCCTAAAGCTTGTTCCCCATTGTATTCAGAATTGGGCCATGCAGCGGAGTTGGCCACC
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.
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