Basic Information
VIS ID
TVIS20002676
Fusion event
HPV-EXTL3 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
chr8
Cytoband
p21.1
Reference genome
GRCh37/hg19
Start
28535834/28678317 (Hg38)
End
28535834/28678317 (Hg38)
Location type
Intronic
Target gene
EXTL3
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-500a-5p ; hsa-mir-125b-5p ; hsa-mir-10b-5p ; hsa-mir-10a-5p ; hsa-mir-99a-5p ; hsa-mir-4474-3p ; hsa-mir-644a ; hsa-mir-6505-3p ; hsa-mir-617 ; hsa-mir-4673 ; hsa-mir-4302 ; hsa-mir-4645-5p ; hsa-mir-199a-5p ; hsa-mir-199b-5p ; hsa-mir-6828-3p ; hsa-mir-6749-3p ; hsa-mir-6792-3p ; hsa-mir-4691-5p ; hsa-mir-642a-5p ; hsa-mir-920 ; hsa-mir-6726-5p ; hsa-mir-5591-5p ; hsa-mir-4300 ; hsa-mir-6090 ; hsa-mir-6827-5p ; hsa-mir-505-5p ; hsa-mir-6847-3p ; hsa-mir-767-3p ; hsa-mir-6728-3p ; hsa-mir-4469 ; hsa-mir-6870-3p ; hsa-mir-2276-5p ; hsa-mir-6892-3p ; hsa-mir-4793-5p ; hsa-mir-5196-3p ; hsa-mir-141-5p ; hsa-mir-887-5p ; hsa-mir-6780a-5p ; hsa-mir-6779-5p ; hsa-mir-3689c ; hsa-mir-3689b-3p ; hsa-mir-3689a-3p ; hsa-mir-30b-3p ; hsa-mir-1273h-5p ; hsa-mir-6788-5p ; hsa-mir-30c-2-3p ; hsa-mir-30c-1-3p ; hsa-mir-514b-5p ; hsa-mir-513c-5p ; hsa-mir-566 ; hsa-mir-6789-3p ; hsa-mir-134-3p ; hsa-mir-7114-5p ; hsa-mir-4315 ; hsa-mir-101-3p ; hsa-mir-1276 ; hsa-mir-1323 ; hsa-mir-548o-3p
Nearest miRNA
hsa-mir-124-1/Upstream/173135; hsa-mir-10400/Downstream/1278955;
Nearest TSS
ENST00000518652/Upstream/46885; ENST00000518223/Downstream/22213;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/55036, chr8-CpG: 145/Downstream/22754
Nearest cancer related gene
EXTL3(TSG, No orient, 0)
Upstream sequence
TAAAGGCGTAGGTTCTGTTGGCAGACAGACCTGTCTGGTTACCTCCTGCCTCAGgtggcagtgctgattgccaacctaagagccattctcaatgtatttt
Downstream sequence
ctgtcccctccaaatctcatgttgaaattcgattcccaatgttggaggtgaagcctaatgagagatgcttgggtaatgggggtggatcatttaggaatag
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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