Basic Information
VIS ID
TVIS20002844
Fusion event
HPV-RABGEF1 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
chr7
Cytoband
q11.21
Reference genome
GRCh37/hg19
Start
66218696/66753709 (Hg38)
End
66218696/66753709 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA7J
Target gene
RABGEF1
miRNAs that regulate target gene
hsa-mir-122-5p ; hsa-mir-507 ; hsa-mir-557 ; hsa-mir-4282 ; hsa-mir-3646 ; hsa-mir-4731-3p ; hsa-mir-4801 ; hsa-mir-578 ; hsa-mir-1263 ; hsa-mir-526b-5p ; hsa-mir-4775 ; hsa-mir-4635 ; hsa-mir-6512-5p ; hsa-mir-590-3p ; hsa-mir-4436b-5p ; hsa-mir-6509-3p ; hsa-mir-1273g-3p ; hsa-mir-181a-2-3p ; hsa-mir-3154 ; hsa-mir-6864-3p ; hsa-mir-3672 ; hsa-mir-8064 ; hsa-mir-4524a-3p ; hsa-mir-4742-3p ; hsa-mir-1252-3p ; hsa-mir-5010-3p ; hsa-mir-2113 ; hsa-mir-6759-5p ; hsa-mir-6796-5p ; hsa-mir-4322 ; hsa-mir-4296 ; hsa-mir-4265 ; hsa-mir-4769-5p ; hsa-mir-4654 ; hsa-mir-6778-5p ; hsa-mir-1233-5p ; hsa-mir-4648 ; hsa-mir-3140-3p ; hsa-mir-3613-3p ; hsa-mir-208b-5p ; hsa-mir-208a-5p ; hsa-mir-6739-3p ; hsa-mir-4677-5p ; hsa-mir-7156-5p ; hsa-mir-4273 ; hsa-mir-6818-5p ; hsa-mir-3611 ; hsa-mir-573 ; hsa-mir-3616-5p ; hsa-mir-4777-5p ; hsa-mir-526a ; hsa-mir-523-5p ; hsa-mir-522-5p ; hsa-mir-520c-5p ; hsa-mir-519c-5p ; hsa-mir-519b-5p ; hsa-mir-519a-5p ; hsa-mir-518f-5p ; hsa-mir-518e-5p ; hsa-mir-518d-5p ; hsa-mir-5687 ; hsa-mir-4795-5p ; hsa-mir-8067 ; hsa-mir-6508-5p
Nearest miRNA
hsa-mir-1183/Upstream/2074533; hsa-mir-10399/Downstream/360613;
Nearest TSS
ENST00000635602/Upstream/12976; ENST00000461017/Downstream/2173;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/12131, chr7-CpG: 58/Downstream/90807
Upstream sequence
GGAGCTCCCCGTTCCTACCACAGTAGCGGAGTCCCTACCTCTCGCCTCCTCCTCATCTCCATGGTAAGCCCAGCCTTGCAAGGCTGCTGCAGCTGCCTCT
Downstream sequence
tttttttttttttttgagacagagtctcacactgtcacctgggctggtgtgcagtggcacgatcttggctcgctgcaacctctgcctcccgggttcaagc
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.
Curate