Basic Information
VIS ID
TVIS20003798
Fusion event
HPV-ATP11B 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
HPV18
Reference genome
AY262282.1
Start
957
End
997
Orient
-
Integrated sequence
CGGCTGGTTTTATGTACAAGCTATTGTAGACAAAAAAACAG
Host Sequence
Chromosome
chr3
Cytoband
q26.33
Reference genome
GRCh37/hg19
Start
182115664/182397876 (Hg38)
End
182115664/182397876 (Hg38)
Location type
Intronic
Target gene
ATP11B
miRNAs that regulate target gene
hsa-mir-21-5p ; hsa-mir-652-3p ; hsa-mir-222-3p
Nearest miRNA
hsa-let-7g/Upstream/5882725; hsa-mir-1224/Downstream/1488924;
Nearest TSS
ENST00000440867/Upstream/32729; ENST00000492416/Downstream/88488;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/670664, chr3-CpG: 70/Downstream/284414
Upstream sequence
TGGGCTTTCTTCCCAACATAAAAGAGACTGGGGCAAATAATATCACTAACATAGAAGGGATTGGGCCAAACAATATCATTAAAACATGTTCATGGTTGAGCTTAACATAAGCTAGGCATTGTCTTAAACTCACAGCTTTCCCTTAAGTGCAGTGGTTTCCAAACACTCAGCTAAACCTAATCTGTGACACAGCACTGTGGCTCCCTTCTTTAAGAGATGGTGCTCTATTATTCTTCTTCACTTAGAGTATTGATT
Junction sequence
TGGGCTTTCTTCCCAACATAAAAGAGACTGGGGCAAATAATATCACTAACATAGAAGGGATTGGGCCAAACAATATCATTAAAACATGTTCATGGTTGAGCTTAACATAAGCTAGGCATTGTCTTAAACTCACAGCTTTCCCTTAAGTGCAGTGGTTTCCAAACACTCAGCTAAACCTAATCTGTGACACAGCACTGTGGCTCCCTTCTTTAAGAGATGGTGCTCTATTATTCTTCTTCACTTAGAGTATTGATT
* 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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