Basic Information
VIS ID
TVIS20000503
Fusion event
HPV-TNFRSF9 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
chr1
Cytoband
p36.23
Reference genome
GRCh37/hg19
Start
8002065/7942005 (Hg38)
End
8002065/7942005 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA1A
Target gene
TNFRSF9
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-98-5p ; hsa-mir-1277-5p ; hsa-mir-190a-3p ; hsa-mir-5011-5p ; hsa-mir-524-5p ; hsa-mir-520d-5p ; hsa-mir-374a-3p ; hsa-mir-3140-3p ; hsa-mir-4267 ; hsa-mir-4733-3p ; hsa-mir-1226-3p ; hsa-mir-1305 ; hsa-mir-607 ; hsa-mir-3671 ; hsa-mir-627-3p ; hsa-mir-4762-5p ; hsa-mir-203a-3p ; hsa-mir-3613-3p
Nearest miRNA
hsa-mir-12136/Upstream/1512109; hsa-mir-101-1/Downstream/924497;
Nearest TSS
ENST00000473358/Upstream/1139; ENST00000460192/Downstream/1160;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/114589, chr1-CpG: 31/Downstream/343
Upstream sequence
AGAATATATTTCTGGCTCTAGGACTTTGACATCCAGGTAATTGAATCTGGGACATTCTCATTAGGTTAGAAAAGGAAAGATGAGAAAATCACTAGCAGGA
Downstream sequence
TATGCAATTCCAGAGACCATCTGCTCCAAAAATTAGTTTTGTTTCTCATTGCTCCTTATTCAGCGACAGTTATTTCAATAAGCTACATTATTTAGCAGAG
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.
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