Basic Information
VIS ID
TVIS20002921
Fusion event
HPV-FAM228A 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
chr2
Cytoband
p23.3
Reference genome
GRCh37/hg19
Start
24399130/24176261 (Hg38)
End
24399130/24176261 (Hg38)
Location type
Intronic
Target gene
FAM228A
miRNAs that regulate target gene
hsa-mir-1268b ; hsa-mir-4730 ; hsa-mir-1268a ; hsa-mir-25-5p ; hsa-mir-4644 ; hsa-mir-4306 ; hsa-mir-185-5p ; hsa-mir-3202 ; hsa-mir-4533 ; hsa-mir-3179 ; hsa-mir-5739 ; hsa-mir-6783-5p ; hsa-mir-3123
Nearest miRNA
hsa-mir-3125/Upstream/4827756; hsa-mir-10b/Downstream/1152379;
Nearest TSS
ENST00000437798/Upstream/776; ENST00000415196/Downstream/7281;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/461, chr2-CpG: 120/Downstream/183490
Upstream sequence
cccaccaggataaagaaatattccagctgggcatggtggctcacgcctgtaatcccagcactttgggaggctgacgcaggcagatcacctgaggtcagga
Downstream sequence
ATAAATAAATAGATTCTAAATTTTTATTGTAGTGTCAGGATACATGTTTAATTGTTTTACATACTTTTTCAGTTGCCATCTTCATTTTAATTAAAAAAAA
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