Basic Information
VIS ID
TVIS20002524
Fusion event
HPV-TCF4 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
chr18
Cytoband
q21.2
Reference genome
GRCh37/hg19
Start
53152580/55485349 (Hg38)
End
53152580/55485349 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA18B
Target gene
TCF4
miRNAs that regulate target gene
hsa-mir-204-5p ; hsa-mir-130b-3p ; hsa-mir-19b-3p ; hsa-let-7e-5p ; hsa-mir-203a-3p ; hsa-mir-452-5p ; hsa-mir-126-3p ; hsa-mir-20a-5p ; hsa-mir-106b-5p ; hsa-mir-155-5p ; hsa-mir-519d-3p ; hsa-mir-93-5p ; hsa-mir-20b-5p ; hsa-mir-17-5p ; hsa-mir-181a-5p
Nearest miRNA
hsa-mir-1-2/Upstream/6051; hsa-mir-122/Downstream/2965725;
Nearest TSS
ENST00000575820/Upstream/15688; ENST00000586467/Downstream/6826;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/525731, chr18-CpG: 80/Downstream/102473
Nearest cancer related gene
TCF4(TSG, No orient, 0)
Upstream sequence
AAAATCTTTCTCAATGCAGTAAGCCTCAAATAACAAGTTAATTCATTAAAATTTTATTTTGGTTAATAAAGGAGGTTGGGGTTTTTTTTATGGATATTGA
Downstream sequence
AGGTTTATGAACTTACTGCTCACTGAGGTTCTTTAACAAGAAATACCAACTCTGGATAAATCTAGACTTCATCTATCCAACGGCAATCCTCTCCTGGCCA
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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