Basic Information
VIS ID
TVIS20003468
Fusion event
HPV-TPM4 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
Reference genome
NC_001526.2;HQ537777.1;EU918767.1
Host Sequence
Chromosome
chr19
Cytoband
p13.12
Reference genome
GRCh37/hg19
Start
16199587/16088777 (Hg38)
End
16199587/16088777 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA19B
Target gene
TPM4
miRNAs that regulate target gene
hsa-mir-1-3p ; hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-940 ; hsa-mir-125a-5p ; hsa-mir-28-5p ; hsa-let-7b-5p ; hsa-mir-651-3p ; hsa-mir-4477b ; hsa-mir-5089-3p ; hsa-mir-3148 ; hsa-mir-4496 ; hsa-mir-6747-3p ; hsa-mir-6752-3p ; hsa-mir-17-5p ; hsa-mir-20a-5p ; hsa-mir-93-5p ; hsa-mir-106a-5p ; hsa-mir-106b-5p ; hsa-mir-376c-5p ; hsa-mir-20b-5p ; hsa-mir-376b-5p ; hsa-mir-526b-3p ; hsa-mir-519d-3p ; hsa-mir-876-5p ; hsa-mir-1290 ; hsa-mir-3167 ; hsa-mir-3609 ; hsa-mir-3691-5p ; hsa-mir-3911 ; hsa-mir-548ah-5p ; hsa-mir-4509 ; hsa-mir-4684-3p ; hsa-mir-4744 ; hsa-mir-4752 ; hsa-mir-4796-3p ; hsa-mir-8056 ; hsa-mir-6790-5p ; hsa-mir-582-5p ; hsa-mir-4696 ; hsa-mir-7151-3p ; hsa-mir-5095 ; hsa-mir-4692 ; hsa-mir-4514 ; hsa-mir-3186-5p ; hsa-mir-6893-5p ; hsa-mir-4438 ; hsa-mir-6808-5p ; hsa-mir-3160-3p ; hsa-mir-24-2-5p ; hsa-mir-24-1-5p ; hsa-mir-10b-5p ; hsa-mir-10a-5p ; hsa-mir-504-5p ; hsa-mir-6510-5p
Nearest miRNA
hsa-mir-10395/Upstream/639169; hsa-let-7e/Downstream/2193300;
Nearest TSS
ENST00000633603/Upstream/66; ENST00000591226/Downstream/10890;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/11312, chr19-CpG: 93/Downstream/22525
Upstream sequence
CTCCCAGTTTCCTTTGTGGGTCTCTCCTTTTCCCCTGTCCCTGAGGCAGCTCTGTCCTTTCTTCAGTTAGACCCTGAGCTCTACAGACCTTCCCACTTTC
Downstream sequence
ACCCTTGGCAAAAGACCAGGAGTGTTTTCCAAGCCCTCCAAATACTCTTCGGGCGCACCTCGCCTCTGCCTGGTATGATAAGCCTTTGATAAGCCCATAG
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