Basic Information
VIS ID
TVIS20003748
Fusion event
HPV-IFT43 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
7282
End
7359
Orient
-
Integrated sequence
TTTAAATGCTTGTGTAACTATTGTGTCATGCAACATAAATAAACTTATTGTTTCAACACCTACTAATTGTGTTGTGGT
Host Sequence
Chromosome
chr14
Cytoband
q24.3
Reference genome
GRCh37/hg19
Start
76530024/76063681 (Hg38)
End
76530024/76063681 (Hg38)
Location type
Intronic
Target gene
IFT43
Nearest miRNA
hsa-mir-208a/Upstream/1583477; hsa-mir-1185-1/Downstream/1202537;
Nearest TSS
ENST00000550708/Upstream/5357; ENST00000557207/Downstream/88235;
Nearest CpG islands
None/Target, chr14-CpG: 35/Upstream/77482, chr14-CpG: 22/Downstream/67624
Upstream sequence
CCATTTCCCGCCATGAGAGAGTATGTG
Junction sequence
CCATTTCCCGCCATGAGAGAGTATGTGTTTTTCAATGCTTGTGTAACTATTCTGTCATGCAACATAAATAAACTTATTGTTTCAACACCTACTAATTGTGTTGTG
* 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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