Basic Information
VIS ID
TVIS20002760
Fusion event
HPV-GALNT2 integration
Validated
No
Detection method
HIVID
Data source
Curated
Sample type
Tumor
Disease
Squamous-cell carcinoma (SCC)
Quality evaluation
Normal
Reported year
2015
PubMed ID
25581428
Virus Sequence
Virus name
HPV
Subtype
HPV16
Reference genome
NC_001526.2
Host Sequence
Chromosome
chr1
Cytoband
q42.13
Reference genome
GRCh37/hg19
Start
230334505/230198759 (Hg38)
End
230334505/230198759 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA1H
Target gene
GALNT2
miRNAs that regulate target gene
hsa-mir-7-5p ; hsa-mir-98-5p ; hsa-let-7b-5p ; hsa-mir-1226-3p ; hsa-mir-99b-3p ; hsa-mir-7855-5p ; hsa-mir-6515-5p ; hsa-mir-4443 ; hsa-mir-6514-3p ; hsa-mir-7977 ; hsa-mir-550a-5p ; hsa-mir-550a-3-5p ; hsa-mir-1271-3p ; hsa-mir-4710 ; hsa-mir-4792 ; hsa-mir-650 ; hsa-mir-3612 ; hsa-mir-6811-3p ; hsa-mir-214-5p ; hsa-mir-1909-5p ; hsa-mir-432-5p ; hsa-mir-5690 ; hsa-mir-519e-3p ; hsa-mir-515-3p ; hsa-mir-33b-3p ; hsa-mir-6813-3p ; hsa-mir-3200-3p ; hsa-mir-6884-5p ; hsa-mir-485-5p
Nearest miRNA
hsa-mir-101-1/Upstream/1736607; hsa-mir-1182/Downstream/821069;
Nearest TSS
ENST00000473358/Upstream/131500; ENST00000492568/Downstream/56599;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/130297, chr1-CpG: 24/Downstream/80837
Upstream sequence
ttatctgggtggtagctacatgactatatagaaacgcaaaaagcactgggctgtagacataaaatttatgtattttacttatgtaaattgctcaataaat
Downstream sequence
caaacatttaaaaaTATTTAATTAAAATATTAAACATTTCATGTAAAATATTAAAGCTGTTAAGCTCAAAATAAAGATTTTGCCAAGGGTTAGCAACCAA
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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