Basic Information
VIS ID
TVIS20001221
Fusion event
HPV-C2orf42 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
chr2
Cytoband
p13.3
Reference genome
GRCh37/hg19
Start
70396100/70168968 (Hg38)
End
70396100/70168968 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA2S ; FRA2E
Target gene
C2orf42
miRNAs that regulate target gene
hsa-mir-103a-3p ; hsa-mir-16-5p ; hsa-mir-19b-3p ; hsa-mir-195-5p ; hsa-mir-19a-3p ; hsa-mir-15b-5p ; hsa-mir-15a-5p
Nearest miRNA
hsa-mir-1301/Upstream/1065213; hsa-mir-10b/Downstream/83950;
Nearest TSS
ENST00000437798/Upstream/43651; ENST00000422380/Downstream/13027;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/25970, chr2-CpG: 54/Downstream/21646
Upstream sequence
gatacaaaatcaatgtgcaaaaatcgcaagcattcctgtacaccaagaacagacaaacagagagccaaatcatgactgaactcccattcacaattgctac
Downstream sequence
cctcccaaagtgtcggattacaggtgagagtcaccatgcccggccAGTATGTTTAGTAATTCTATATAACTATCTTAGTCTCATGTGTTTAGATTTTCAA
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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