Basic Information
VIS ID
TVIS20001707
Fusion event
HPV-SLC13A3 integration
Validated
No
Detection method
HIVID
Data source
Curated
Sample type
Tumor
Disease
Not given
Quality evaluation
Normal
Reported year
2015
PubMed ID
25581428
Virus Sequence
Virus name
HPV
Subtype
HPV16
Reference genome
NC_001526.2
Host Sequence
Chromosome
chr20
Cytoband
q13.12
Reference genome
GRCh37/hg19
Start
45221582/46592943 (Hg38)
End
45221582/46592943 (Hg38)
Location type
Intronic
Target gene
SLC13A3
Nearest miRNA
hsa-mir-103a-2/Upstream/887763; hsa-mir-1-1/Downstream/574024;
Nearest TSS
ENST00000382410/Upstream/4852; ENST00000606362/Downstream/7673;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/79245, chr20-CpG: 83/Downstream/96109
Upstream sequence
GGTCCTGTAAGATCTTTAAAGTTAGGATTAGAATACTGGTTCTACAGGATACACCTAGAGTTAGGTGGACCTTGGGCCATGTGCTTATAAGTCCCCAAAA
Downstream sequence
tttaaatgttgacaattcatgaaaatgttttaatgaatgtgggagtcacatataacacatctgcaggctgaaACCTTTGCCCTCCTTATTACATATGCTC
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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