Basic Information
VIS ID
TVIS20003788
Fusion event
HPV-FTMT integration
Validated
Yes
Detection method
PCR and Sanger sequencing
Data source
Curated
Sample type
Tumor
Disease
Not given
Quality evaluation
Perfect
Reported year
2015
PubMed ID
25581428
Virus Sequence
Virus name
HPV
Subtype
HPV16
Reference genome
NC_001526.2
Start
1576
End
1598
Orient
-
Integrated sequence
TGCTGCATTTGGACTTACACCCA
Host Sequence
Chromosome
chr5
Cytoband
q23.1
Reference genome
GRCh37/hg19
Start
120807850/121472155 (Hg38)
End
120807850/121472155 (Hg38)
Location type
Intronic
Target gene
FTMT
Nearest miRNA
hsa-mir-10397/Upstream/2317439; hsa-mir-103a-1/Downstream/7625533;
Nearest TSS
ENST00000502646/Upstream/149568; ENST00000321339/Downstream/379800;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/1007782, chr5-CpG: 71/Downstream/379537
Upstream sequence
TGCTGGTCTTGTTTGTTCCTCTCTTGTTAAGCTCAAAACTGCTGAAGCAAAAACAATTGAGGGTGACCTCACCTTTTCCCACTTCCACAGGATAACAATTTTGTGCTG
Junction sequence
TGCTGGTCTTGTTTGTTCCTCTCTTGTTAAGCTCAAAACTGCTGAAGCAAAAACAATTGAGGGTGACCTCACCTTTTCCCACTTCCACAGGATAACAATTTTGTGCTGGGTGTAAGTCCAAATGCAGCAATCACCAAT
* Color:  Human Sequence / Virus Sequence / Overlapped sequence / Unknown sequence
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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