Basic Information
VIS ID
TVIS20002200
Fusion event
HPV-RBM33 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
chr7
Cytoband
q36.3
Reference genome
GRCh37/hg19
Start
155528437/155735743 (Hg38)
End
155528437/155735743 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA7I
Target gene
RBM33
miRNAs that regulate target gene
hsa-mir-106b-3p ; hsa-mir-20a-3p ; hsa-mir-221-3p ; hsa-mir-34a-5p ; hsa-mir-33a-5p ; hsa-mir-570-3p ; hsa-mir-586 ; hsa-mir-33b-5p ; hsa-mir-510-3p ; hsa-mir-934 ; hsa-mir-3618 ; hsa-mir-5096 ; hsa-mir-3912-5p ; hsa-mir-6749-3p ; hsa-mir-6802-3p ; hsa-mir-6753-3p ; hsa-mir-7107-3p ; hsa-mir-3667-3p ; hsa-mir-660-3p ; hsa-mir-5193 ; hsa-mir-5088-3p ; hsa-mir-3620-3p ; hsa-mir-6865-3p ; hsa-mir-6866-3p ; hsa-mir-188-5p ; hsa-mir-1292-5p ; hsa-mir-1972 ; hsa-mir-4502 ; hsa-mir-5586-3p ; hsa-mir-759 ; hsa-mir-8075
Nearest miRNA
hsa-mir-10399/Upstream/4302104; hsa-mir-153-2/Downstream/1838593;
Nearest TSS
ENST00000635602/Upstream/28929; ENST00000438356/Downstream/10676;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/90620, chr7-CpG: 19/Downstream/45165
Upstream sequence
gcagcagggaggaaagtggagcagagcaggcaatgaaggccagcagtaagtgaggaggggacgatcctgtagcacctgcgggttgggttcgctctgaata
Downstream sequence
tctctcAGGAAAAGAGATCCATATCAAAGCATTATATCAGTGAATTTTCAAATTAATTAGGGGTAAAAGACCATGTATATGATATGTATTCTCACTTACA
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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