Basic Information
VIS ID
TVIS20002217
Fusion event
HPV-SDK2 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
chr17
Cytoband
q25.1
Reference genome
GRCh37/hg19
Start
71340436/73344297 (Hg38)
End
71340436/73344297 (Hg38)
Location type
Intronic
Target gene
SDK2
miRNAs that regulate target gene
hsa-mir-574-5p ; hsa-mir-147a ; hsa-mir-6788-5p ; hsa-mir-30c-2-3p ; hsa-mir-30c-1-3p ; hsa-mir-6867-5p ; hsa-mir-644a ; hsa-mir-3911 ; hsa-mir-6731-5p ; hsa-mir-8085 ; hsa-mir-6878-5p ; hsa-mir-6871-5p ; hsa-mir-576-3p ; hsa-mir-629-3p ; hsa-mir-6759-5p ; hsa-mir-6796-5p ; hsa-mir-4322 ; hsa-mir-4296 ; hsa-mir-4265 ; hsa-mir-7109-5p ; hsa-mir-6867-3p ; hsa-mir-4713-5p ; hsa-mir-6742-5p ; hsa-mir-4472 ; hsa-mir-4447 ; hsa-mir-3151-5p ; hsa-mir-491-5p ; hsa-mir-193b-5p ; hsa-mir-6885-5p ; hsa-mir-328-5p ; hsa-mir-6887-5p ; hsa-mir-6795-5p ; hsa-mir-3162-3p ; hsa-mir-128-3p ; hsa-mir-188-3p ; hsa-mir-216a-3p ; hsa-mir-3681-3p ; hsa-mir-3922-5p ; hsa-mir-4480 ; hsa-mir-4753-5p ; hsa-mir-6729-3p ; hsa-mir-1179 ; hsa-mir-297 ; hsa-mir-4422 ; hsa-mir-511-3p ; hsa-mir-548e-5p ; hsa-mir-567
Nearest miRNA
hsa-mir-10226/Upstream/4244641; hsa-mir-1250/Downstream/1404316;
Nearest TSS
ENST00000595228/Upstream/32122; ENST00000583547/Downstream/24916;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/31754, chr17-CpG: 22/Downstream/91185
Upstream sequence
AGTGGAGtgaggcctggaggaggcagggaagctgcctggagtcactcagcacatcactggccccgctgggtcatccagaaccctgaacttgaccttcatc
Downstream sequence
CCCCCCACACCCACAACCGGCTGTCAGAGATGTCTGTGGTCAGGAGGCTCAAGGGAGGTCACTGGGGTGGGGTTGGAGGCAGTGAAGGCCTCTTTCCTTC
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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