Basic Information
VIS ID
TVIS20003089
Fusion event
HPV-LOC105376828 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;HQ537687.1
Host Sequence
Chromosome
chr1
Cytoband
p36.12
Reference genome
GRCh37/hg19
Start
20600367/20273874 (Hg38)
End
20600367/20273874 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA1A
Target gene
LOC105376828
Nearest miRNA
hsa-mir-12136/Upstream/1376726; hsa-mir-101-1/Downstream/359805;
Nearest TSS
ENST00000473358/Upstream/1395; ENST00000530722/Downstream/17045;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/30550, chr1-CpG: 38/Downstream/69199
Upstream sequence
CCTTAGCCCTTCTCAGAGGAAATTCATTTCAAATCTTGATCTCCTTAATTCTAATTTAGTTGTACCCACTAACTATTAGATGGTTCAATGCAGAAGTTCC
Downstream sequence
GTAGTTACTTCAAATACAACAGTAGCAAATCTGAATCCATCATTATCTCACTTAATAATCTCTTCCTGTCAATAACCCCTCACTCCCTGGGCTGCATGGC
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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