Basic Information
VIS ID
TVIS20001382
Fusion event
HPV-CDK5RAP2 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
Reference genome
NC_001526.2;HQ537777.1
Host Sequence
Chromosome
chr9
Cytoband
q33.2
Reference genome
GRCh37/hg19
Start
123185828/120423550 (Hg38)
End
123185828/120423550 (Hg38)
Location type
Intronic
Target gene
CDK5RAP2
miRNAs that regulate target gene
hsa-mir-1301-3p ; hsa-mir-324-3p ; hsa-mir-149-5p
Nearest miRNA
hsa-let-7a-1/Upstream/178500; hsa-mir-12126/Downstream/1696532;
Nearest TSS
ENST00000422679/Upstream/19888; ENST00000437707/Downstream/16869;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/1053614, chr9-CpG: 40/Downstream/71209
Upstream sequence
ATTAATCTCTCCAAACTAGTCCTCTTATCTAGCTCATTCCTAAGAATCAATATTCTTTAAAAAAATTTTCCAATATATAATCATTTAAATATTTTAGGGG
Downstream sequence
CGAGAGACCCTCTAGGAACACCTGGGAGGCTCAGCTTCTAGGCTCAAAGAATGCCTGGAGCTTTGAGAATGTGGTCTTGTGGAGAGGATCTGTCAGATCA
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