Basic Information
VIS ID
TVIS20000187
Fusion event
HPV-ITSN1 integration
Validated
No
Detection method
HIVID
Data source
Curated
Sample type
Tumor
Disease
Squamous-cell carcinoma (SCC)
Quality evaluation
Normal
Reported year
2015
PubMed ID
25581428
Virus Sequence
Virus name
HPV
Reference genome
NC_001526.2;AY262282.1;EF202167.1
Host Sequence
Chromosome
chr21
Cytoband
q22.11
Reference genome
GRCh37/hg19
Start
35068381/33696076 (Hg38)
End
35068381/33696076 (Hg38)
Location type
Intronic
Target gene
ITSN1
miRNAs that regulate target gene
hsa-mir-296-3p ; hsa-mir-194-5p
Nearest miRNA
hsa-let-7c/Upstream/145348; hsa-mir-3197/Downstream/2024639;
Nearest TSS
ENST00000624081/Upstream/52150; ENST00000456489/Downstream/22721;
Nearest CpG islands
None/Target, chr21-CpG: 261/Upstream/52698, chr21-CpG: 36/Downstream/219423
Upstream sequence
GTTGGCTGCAGTCTATTTAGTGTTTTAGTGATGCTAATGTTATTGAATGGTTTTTAGTTCTAAAACTTCTAGTAGTGATAAATCTTGTGCATAGAAGTCC
Downstream sequence
CCTAGGTCACTTAGCAGAGCGCAGTTGGTTTTTGTTAATGACTGCATTGTCCTTTGCTCTCATTCGTGATACCCAGTGACTTTTCATTGATGTTGCAGTA
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