Basic Information
VIS ID
TVIS20003805
Fusion event
HPV-LINC01830 integration
Validated
Yes
Detection method
PCR and Sanger sequencing
Data source
Curated
Sample type
Cell line
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
1108
End
1158
Orient
-
Integrated sequence
CAGTACAGGTTCTAAAACGAAAGTATTTGGTAGTCCACTTAGTGATATTAG
Host Sequence
Chromosome
chr2
Cytoband
p24.1
Reference genome
GRCh37/hg19
Start
22639102/22416230 (Hg38)
End
22639102/22416230 (Hg38)
Location type
Intronic
Target gene
LINC01830
Nearest miRNA
hsa-mir-3125/Upstream/3067725; hsa-mir-10b/Downstream/2912410;
Nearest TSS
ENST00000437798/Upstream/38636; ENST00000433429/Downstream/114875;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/1372141, chr2-CpG: 256/Downstream/968628
Upstream sequence
AAATAACCTTAACTGCAGACGTTATGACATACATACATTCTATGAATTCCACCTGAGACCGAAACTGGGAAA
Junction sequence
AAATAACCTTAACTGCAGACGTTATGACATACATACATTCTATGAATTCCACCTGAGACCGAAACTGGGAAA
* 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.
Curate