Basic Information
VIS ID
TVIS20000647
Fusion event
HPV-C4orf36 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
q21.3
Reference genome
GRCh37/hg19
Start
87805068/86883915 (Hg38)
End
87805068/86883915 (Hg38)
Location type
Intronic
Target gene
C4orf36
miRNAs that regulate target gene
hsa-mir-3674 ; hsa-mir-135b-3p ; hsa-mir-7156-3p ; hsa-mir-6516-3p ; hsa-mir-1206 ; hsa-mir-3121-5p ; hsa-mir-7845-5p ; hsa-mir-5692a ; hsa-mir-1238-3p ; hsa-mir-670-3p ; hsa-mir-3591-5p ; hsa-mir-6881-3p ; hsa-mir-6780a-3p ; hsa-mir-7111-3p ; hsa-mir-4473 ; hsa-mir-4671-3p ; hsa-mir-3185 ; hsa-mir-4778-3p ; hsa-mir-877-3p ; hsa-mir-513c-3p ; hsa-mir-513a-3p ; hsa-mir-3606-3p ; hsa-mir-301a-3p ; hsa-mir-130a-3p ; hsa-mir-130b-3p ; hsa-mir-301b-3p ; hsa-mir-3666 ; hsa-mir-4295 ; hsa-mir-454-3p
Nearest miRNA
hsa-mir-12113/Upstream/341363; hsa-mir-1243/Downstream/416580;
Nearest TSS
ENST00000502981/Upstream/34652; ENST00000511996/Downstream/8405;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/289096, chr4-CpG: 72/Downstream/8104
Upstream sequence
aattatcttaaaagtaagtgaaacaaagtacagaggcttcaagatttataagatgagaaaagacaccactatatgcttccataaaagacttaAGCTGAAG
Downstream sequence
ccactcgtgttactgaagcatgagaattgcttgaacccaggaggcagaggttacagtgaaacttccactccagcctgggtgGGAAAAAAAAAATACCAGa
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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