Basic Information
VIS ID
TVIS20002957
Fusion event
HPV-GABRA3 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
chrX
Cytoband
q28
Reference genome
GRCh37/hg19
Start
151500916/152332444 (Hg38)
End
151500916/152332444 (Hg38)
Location type
Intronic
Fragile sites / regions
FRAXE ; FRAXF
Target gene
GABRA3
miRNAs that regulate target gene
hsa-mir-26b-5p ; hsa-mir-1273e ; hsa-mir-5692a ; hsa-mir-34c-5p
Nearest miRNA
hsa-let-7f-2/Upstream/372732; hsa-mir-105-1/Downstream/59775;
Nearest TSS
ENST00000429181/Upstream/76446; ENST00000598523/Downstream/57053;
Nearest CpG islands
None/Target, chrX-CpG: 62/Upstream/357545, chrX-CpG: 68/Downstream/305310
Upstream sequence
GTAATATGGATGAGAAATACTAATGAAGACCTAAATATTCCTTGGTGAGCCTACAACGTATCGTTCCTTTAAAACCAGGGTGTTACCAAAGAGGAGCTAG
Downstream sequence
CTTTCTCAAGCACTTTCTTTCCCAGTACTTAGGTGGAAGAAAGGGAAGAAAACAaactcccacttactgagcatctatttgataggttatttacataatt
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