Basic Information
VIS ID
TVIS20003794
Fusion event
HPV-TPRG1 integration
Validated
Yes
Detection method
PCR and Sanger sequencing
Data source
Curated
Sample type
Tumor
Disease
Not given
Quality evaluation
Perfect
Reported year
2015
PubMed ID
25581428
Virus Sequence
Virus name
HPV
Subtype
HPV16
Reference genome
NC_001526.2
Start
1743
End
1815
Orient
-
Integrated sequence
TGTCTAAACTATTATGTGTGTCTCCAATGTGTATGATGATAGAGCCTCCAAAATTGCGTAGTACAGCAGCAGC
Host Sequence
Chromosome
chr3
Cytoband
q28
Reference genome
GRCh37/hg19
Start
188953683/189235894 (Hg38)
End
188953683/189235894 (Hg38)
Location type
Intronic
Target gene
TPRG1
miRNAs that regulate target gene
hsa-mir-145-5p
Nearest miRNA
hsa-let-7g/Upstream/547028; hsa-mir-3137/Downstream/594028;
Nearest TSS
ENST00000440867/Upstream/20594; ENST00000481307/Downstream/4700;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/288131, chr3-CpG: 99/Downstream/884397
Upstream sequence
TGTTTGTTGGGTGCAGAGCATTGAACAAGTCATTTTAAGGATCTGTAGACCTTAGTTTGTCTTCAAAATGAGGGTAATAACATTTAGACCAAAGGGTT
Junction sequence
TGTTTGTTGGGTGCAGAGCATTGAACAAGTCATTTTAAGGATCTGTAGACCTTAGTTTGTCTTCAAAATGAGGGTAATAACATTTAGACCAAAGGGTTGCTGCTGTACTACGCAATTTTGGAGGCTCTATCATCATACACATTGGAGACACACATTATATTTTAGACAGC
* Color:  Human Sequence / Virus Sequence / Overlapped sequence / Unknown sequence
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