Basic Information
VIS ID
TVIS20002778
Fusion event
HPV-SNX29 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
chr16
Cytoband
p13.13
Reference genome
GRCh37/hg19
Start
12265876/12172019 (Hg38)
End
12265876/12172019 (Hg38)
Location type
Intronic
Target gene
SNX29
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-7-5p ; hsa-mir-6811-5p ; hsa-mir-6511b-5p ; hsa-mir-377-3p ; hsa-mir-6077 ; hsa-mir-4722-5p ; hsa-mir-1286 ; hsa-mir-873-5p ; hsa-mir-6128 ; hsa-mir-216b-3p
Nearest miRNA
hsa-mir-1225/Upstream/865492; hsa-mir-11401/Downstream/548302;
Nearest TSS
ENST00000527434/Upstream/42322; ENST00000562510/Downstream/184234;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/54580, chr16-CpG: 68/Downstream/89137
Upstream sequence
ggcacatgcctgtaatcccagctacttgggaggctgagcagaagaatcacttgaactagggaggcggaggttgcagtgaaccgagattgttccactgcac
Downstream sequence
TGGTGTTCTACGTTACCACTTATTTTTCTAAATTACACCAAAAGCTTTGAGTCTTTATTCTGGAAGTGTTACTCTCTGTTTTAGCAGTGTTTTTATAGAC
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