Basic Information
VIS ID
TVIS20000477
Fusion event
HPV-RTN4RL1 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;AY262282.1;HQ537751.1
Host Sequence
Chromosome
chr17
Cytoband
p13.3
Reference genome
GRCh37/hg19
Start
1883998/1980704 (Hg38)
End
1883998/1980704 (Hg38)
Location type
Intronic
Target gene
RTN4RL1
miRNAs that regulate target gene
hsa-mir-6831-5p ; hsa-mir-1277-5p ; hsa-mir-190a-3p ; hsa-mir-4732-5p ; hsa-mir-6832-5p ; hsa-mir-574-5p ; hsa-mir-3668 ; hsa-mir-7852-3p ; hsa-mir-5011-5p ; hsa-mir-5586-3p ; hsa-mir-5010-3p ; hsa-mir-223-5p ; hsa-mir-1257
Nearest miRNA
hsa-mir-22/Upstream/266717; hsa-mir-10226/Downstream/69204;
Nearest TSS
ENST00000595228/Upstream/89054; ENST00000574520/Downstream/14910;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/42789, chr17-CpG: 120/Downstream/17128
Upstream sequence
CCGCTACCCACCACGCCTCGCCGTCTGTCTGTAGACTCAGATCAAGCCTCTCCCCTTGAACCACAAAACCCGCCCAACCCAAATCTCCCTGCAGCCACTG
Downstream sequence
atcacctgaggtcaggagttcaagaccagcctggccaacatggagaaaccccgtctctactaaaaatacacaaaaacagccgagtgtggtggtgtagcct
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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