Basic Information
VIS ID
TVIS20003777
Fusion event
HPV-FAT4 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
3061
End
3093
Orient
-
Integrated sequence
TAACTGCACCAACAGGATGTATAAAAAAACATG
Host Sequence
Chromosome
chr4
Cytoband
q28.1
Reference genome
GRCh37/hg19
Start
126444342/125523187 (Hg38)
End
126444342/125523187 (Hg38)
Location type
Intronic
Target gene
FAT4
miRNAs that regulate target gene
hsa-mir-132-3p
Nearest miRNA
hsa-mir-12113/Upstream/15880; hsa-mir-1305/Downstream/17820273;
Nearest TSS
ENST00000502981/Upstream/77076; ENST00000507203/Downstream/153531;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/205412, chr4-CpG: 86/Downstream/2099689
Nearest cancer related gene
FAT4(TSG, No orient, 0)
Upstream sequence
TCGAGCTCAAACCTTTTGTGGCAGCAGGCGCACCCAGGGAGTGGGCGGGTGAGGGAGCCGGAGTGAGTGCCTTTAGGCTCCGGCAGGAATGACTCCTGTACCAGCCA
Junction sequence
TCGAGCTCAAACCTTTTGTGGCAGCAGGCGCACCCAGGGAGTGGGCGGGTGAGGGAGCCGGAGTGAGTGCCTTTAGGCTCCGGCAGGAATGACTCCTGTACCAGCCATGTTTTTTTATACATCCTGTTGGTGCAGTTAAAATCGTCGACCTGCAGGCATGCAAGC
* 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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