Basic Information
VIS ID
TVIS20002803
Fusion event
HPV-ARHGEF3 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
chr3
Cytoband
p14.3
Reference genome
GRCh37/hg19
Start
56929890/56895862 (Hg38)
End
56929890/56895862 (Hg38)
Location type
Intronic
Target gene
ARHGEF3
miRNAs that regulate target gene
hsa-mir-138-5p ; hsa-mir-373-3p ; hsa-mir-335-5p ; hsa-mir-769-5p ; hsa-mir-377-5p ; hsa-mir-485-5p ; hsa-mir-3680-3p ; hsa-mir-557 ; hsa-mir-507 ; hsa-mir-450b-5p ; hsa-mir-889-3p ; hsa-mir-4793-5p ; hsa-mir-5196-3p
Nearest miRNA
hsa-let-7g/Upstream/1043268; hsa-mir-12124/Downstream/3721943;
Nearest TSS
ENST00000440867/Upstream/93895; ENST00000495939/Downstream/20609;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/93680, chr3-CpG: 112/Downstream/182859
Upstream sequence
aaacaaataaacaaacaaacCAAATGTGATTTCTTTATAGAAAAACACAGCCAAGGGATTCAAAATATTTAATATTTGAAAGTGTATAATTTCTTGACTA
Downstream sequence
ATAAACACCCAGCCTCTTGGAAGAGTTTCCAGTTTTGTTTGGAAGAGAGCTATTTTTGATTAAATAATTCTGAAATTATCTTCTTAGGCCTTAGGAATTG
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