Basic Information
VIS ID
TVIS20001322
Fusion event
HPV-LINC01411 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
chr5
Cytoband
q35.2
Reference genome
GRCh37/hg19
Start
173917346/174490343 (Hg38)
End
173917346/174490343 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA5G
Target gene
LINC01411
Nearest miRNA
hsa-mir-10397/Upstream/1142807; hsa-mir-1229/Downstream/261391;
Nearest TSS
ENST00000502646/Upstream/153848; ENST00000511707/Downstream/13340;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/177812, chr5-CpG: 35/Downstream/230803
Upstream sequence
CACGAGCCCAGAAATTAGAAAGCATGTGATATTAGATGTGGTGCTCAGGGCTTTTTCACTACATGCTGACTTCAGTCAAGAACAAGTCAAGGTAATTTCC
Downstream sequence
TGGCACCTGCAGAGGCAGCAGCAGGGCCGAGGGAGCCTGCCAAGGAAGAGCCTTCCTAACAAGAAAAAGCATGTGTGCTGCTCGGGTGAGGCAGGGGAGG
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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