Basic Information
VIS ID
TVIS20002777
Fusion event
HPV-FMN1 integration
Validated
No
Detection method
HIVID
Data source
Curated
Sample type
Tumor
Disease
Squamous-cell carcinoma (SCC)
Quality evaluation
Normal
Reported year
2015
PubMed ID
25581428
Virus Sequence
Virus name
HPV
Subtype
HPV16
Reference genome
NC_001526.2
Host Sequence
Chromosome
chr15
Cytoband
q13.3
Reference genome
GRCh37/hg19
Start
33261407/32969206 (Hg38)
End
33261407/32969206 (Hg38)
Location type
Intronic
Target gene
FMN1
miRNAs that regulate target gene
hsa-mir-136-3p ; hsa-mir-493-3p ; hsa-mir-432-5p ; hsa-mir-340-5p ; hsa-mir-219b-3p ; hsa-mir-92b-3p ; hsa-mir-92a-3p ; hsa-mir-367-3p ; hsa-mir-363-3p ; hsa-mir-25-3p ; hsa-mir-32-5p ; hsa-mir-6504-3p ; hsa-mir-513c-3p ; hsa-mir-513a-3p ; hsa-mir-3606-3p ; hsa-mir-5698 ; hsa-mir-143-5p ; hsa-mir-3907 ; hsa-mir-4430 ; hsa-mir-3652 ; hsa-mir-122-5p ; hsa-mir-504-3p ; hsa-mir-3135b ; hsa-mir-6499-3p ; hsa-mir-4638-5p ; hsa-mir-1307-3p ; hsa-mir-6833-3p ; hsa-mir-4768-5p ; hsa-mir-6873-3p ; hsa-mir-6515-3p ; hsa-mir-1236-3p ; hsa-mir-6777-3p
Nearest miRNA
hsa-mir-1268a/Upstream/1904065; hsa-mir-10393/Downstream/1412863;
Nearest TSS
ENST00000557528/Upstream/42945; ENST00000634750/Downstream/98678;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/249711, chr15-CpG: 32/Downstream/225516
Upstream sequence
ATTCTGAATTTTGGCACAAATTCGTTAGAAGGCAAAACTATCCTGAGTATCAACTGCTTGGTTACCAAGTTGGATGTAATCCCTTCCGAGGAAAATCAGT
Downstream sequence
TTTTGGGTACTAATTGATTACTTCTGGTTGTCTTGCTTTCACTTTCACAGGGCTTGAGGAAGGTCTCTCTGTCTGTCTGGACGCACACATTTCTGAAGGT
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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