Basic Information
VIS ID
TVIS20000656
Fusion event
HPV-GDNF-AS1 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
Subtype
HPV16
Reference genome
NC_001526.2
Host Sequence
Chromosome
chr5
Cytoband
p13.2
Reference genome
GRCh37/hg19
Start
37856926/37856824 (Hg38)
End
37856926/37856824 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA5A
Target gene
GDNF-AS1
Nearest miRNA
hsa-mir-10397/Upstream/1708836; hsa-mir-103a-1/Downstream/700678;
Nearest TSS
ENST00000502646/Upstream/16386; ENST00000514532/Downstream/13083;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/16200, chr5-CpG: 104/Downstream/400958
Upstream sequence
gagacagggtctccctatgttgcccaggctagtctcaaactcctgggctcaatcaagcttcctgccttggccttccaaagttctgggattacaggtataa
Downstream sequence
GCAGTGGTAGATGCTGTTGAGTCAGGATCTGAGGACAGTCAGTGACAGTAGTAGGATTTTTCAGTGTGTCTTTTTCAGCAGCAGTCAATTGGTAGGTCTT
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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