Basic Information
VIS ID
TVIS20004574
Fusion event
HPV-chr7:p21.3 integration
Validated
Yes
Detection method
FISH, WGS, RNA-seq, qPCR
Data source
Curated
Sample type
Cell line
Disease
Cervical carcinoma (CC)
Quality evaluation
Perfect
Reported year
2014
PubMed ID
24201445
Virus Sequence
Virus name
HPV
Subtype
HPV16
Reference genome
NC_001526.2
Gene
L2
Start
4564
End
4593
Integrated sequence
AGAAACTAGTTTTATTGATGCTGGTGCACC
Host Sequence
Chromosome
chr7
Cytoband
p21.3
Reference genome
GRCh37/hg19
Start
7680926/7641295 (Hg38)
End
7680957/7641326 (Hg38)
Location type
Intronic
Target gene
RPA3 ; UMAD1
miRNAs that regulate target gene
hsa-mir-26b-5p ; hsa-mir-615-3p
Nearest miRNA
hsa-mir-339/Upstream/574250; hsa-mir-10399/Downstream/10485894;
Nearest TSS
ENST00000635602/Upstream/323; ENST00000406829/Downstream/77281;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/247, chr7-CpG: 81/Downstream/327900
Downstream sequence
GCACTTAAGGATGGGTAACGGGAAGAACCAC
Target sequence
CACTTAAGGATGGGTAACGGGGAAGAACCAC
Junction sequence
AAGAAACTAGTTTTATTGATGCTGGTGCACTTAAGGATGGGTAACGGGAAGAACCAC
* Color:  Human Sequence / Virus Sequence / Overlapped sequence / Unknown sequence
Reference
Akagi, K., et al.Genome-wide analysis of HPV integration in human cancers reveals recurrent, focal genomic instability. Genome Res ,2014,24(2): 185-199.
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