Basic Information
VIS ID
TVIS20001858
Fusion event
HPV-NEDD9 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
chr6
Cytoband
p24.2
Reference genome
GRCh37/hg19
Start
11289580/11289347 (Hg38)
End
11289580/11289347 (Hg38)
Location type
Intronic
Target gene
NEDD9
miRNAs that regulate target gene
hsa-mir-18a-5p ; hsa-mir-145-5p ; hsa-mir-30c-5p ; hsa-mir-218-5p ; hsa-mir-6803-5p ; hsa-mir-6751-5p ; hsa-mir-642a-5p ; hsa-mir-4477a ; hsa-mir-5682 ; hsa-mir-7110-5p ; hsa-mir-6842-5p ; hsa-mir-6752-5p ; hsa-mir-6835-5p ; hsa-mir-5702 ; hsa-mir-520h ; hsa-mir-520g-3p ; hsa-mir-6871-3p ; hsa-mir-29c-3p ; hsa-mir-29b-3p ; hsa-mir-29a-3p ; hsa-mir-4506 ; hsa-mir-548ah-5p ; hsa-mir-3609 ; hsa-mir-6756-3p ; hsa-mir-3127-3p ; hsa-mir-3912-3p
Nearest miRNA
hsa-mir-3691/Upstream/849553; hsa-mir-10398/Downstream/4852209;
Nearest TSS
ENST00000381078/Upstream/56665; ENST00000419796/Downstream/92925;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/194913, chr6-CpG: 182/Downstream/247957
Nearest cancer related gene
NEDD9(OG, No orient, 0)
Upstream sequence
TACAAACTTCCTATTATATTGTTAATTCTTAGGTATTTTCTATTTTGGAGGGCTACAAATGAGATCTTCTATTTTATTTTATAACTGGTTATTACTGGTG
Downstream sequence
GCTATAAACCTATTTTCTATTATTATTGTTATTTGATTTTATGTGGTAATATTCAGGTTAAATCAGCACCATACTTTGCAGCCAAATGGCAGAtatttta
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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