Basic Information
VIS ID
TVIS20001226
Fusion event
HPV-AFF3 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
Reference genome
NC_001526.2;HQ537777.1
Host Sequence
Chromosome
chr2
Cytoband
q11.2
Reference genome
GRCh37/hg19
Start
100650342/100033880 (Hg38)
End
100650342/100033880 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA2S ; FRA2A
Target gene
AFF3
miRNAs that regulate target gene
hsa-mir-574-5p ; hsa-mir-6881-3p ; hsa-mir-6780a-3p ; hsa-mir-7111-3p ; hsa-mir-6867-5p ; hsa-mir-3177-5p ; hsa-mir-7703 ; hsa-mir-6720-5p ; hsa-mir-6512-3p ; hsa-mir-1227-3p ; hsa-mir-4252 ; hsa-mir-4793-3p ; hsa-mir-766-3p ; hsa-mir-1273g-3p ; hsa-mir-508-5p ; hsa-mir-6849-3p
Nearest miRNA
hsa-mir-1285-2/Upstream/3235527; hsa-mir-10b/Downstream/1275570;
Nearest TSS
ENST00000437798/Upstream/25929; ENST00000434301/Downstream/70650;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/439851, chr2-CpG: 138/Downstream/70043
Nearest cancer related gene
AFF3(OG, No orient, 0)
Upstream sequence
gttcaacacacacaaattaataaatgtgatacatcacattaacaaaatcaagaataagaacaaaaatcatatggttatttcaataaatacagaaaaaaaa
Downstream sequence
TTCAACCTCTAACTAAAGTCATATGATTCTTCAACATTTATCCACTGCTACACCACAGTACATAAATCATGCAGGCTAATTCTCACAATACATATTATAT
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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