Basic Information
VIS ID
TVIS20002040
Fusion event
HPV-HDAC4 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
chr2
Cytoband
q37.3
Reference genome
GRCh37/hg19
Start
240111514/239189818 (Hg38)
End
240111514/239189818 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA2J
Target gene
HDAC4
miRNAs that regulate target gene
hsa-mir-29b-3p ; hsa-mir-140-5p ; hsa-mir-1-3p ; hsa-mir-22-3p ; hsa-mir-30c-5p ; hsa-mir-302b-3p ; hsa-mir-9-5p ; hsa-mir-206 ; hsa-mir-3149 ; hsa-mir-587 ; hsa-mir-4686 ; hsa-mir-513c-3p ; hsa-mir-513a-3p ; hsa-mir-3606-3p ; hsa-mir-4282 ; hsa-mir-19b-3p ; hsa-mir-19a-3p ; hsa-mir-381-3p ; hsa-mir-125a-5p ; hsa-mir-675-5p
Nearest miRNA
hsa-mir-10b/Upstream/103892; hsa-mir-149/Downstream/115644;
Nearest TSS
ENST00000437798/Upstream/34243; ENST00000428471/Downstream/1238;
Nearest CpG islands
chr2-CpG: 21/Target, None/Upstream, None/Downstream
Upstream sequence
tatagcctactacacacctaggctatacaggatagcctattgctcctaggctacaaatctgtacagcatgttattgtactgaatactgtaggcaactgca
Downstream sequence
GCACCGCGCCTCACCTTGATGTGCTCGTGGAGCTGCGCCTCGTGCTGCCGGGAGAGCTGCTCGTGCTGCCTCTGGAACTCAGCGATGAGGATCTGCCTCT
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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