Basic Information
VIS ID
TVIS20003735
Fusion event
HPV-GLI2 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
6421
End
6488
Orient
-
Integrated sequence
ATAGGGCTGGTACTGTTGGTGAAAATGTACCAGACGATTTATACATTAAAGGCTCTGGGTCTACTGCA
Host Sequence
Chromosome
chr2
Cytoband
q14.2
Reference genome
GRCh37/hg19
Start
121688207/120930631 (Hg38)
End
121688207/120930631 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA2S
Target gene
GLI2
miRNAs that regulate target gene
hsa-mir-1-3p ; hsa-mir-26b-5p ; hsa-mir-31-5p ; hsa-mir-218-5p ; hsa-mir-574-5p ; hsa-mir-5572 ; hsa-mir-4260 ; hsa-mir-450a-2-3p ; hsa-mir-6855-5p ; hsa-mir-3170 ; hsa-mir-6819-5p ; hsa-mir-6812-5p ; hsa-mir-6737-5p ; hsa-mir-6740-5p ; hsa-mir-6867-5p ; hsa-mir-3650 ; hsa-mir-4455 ; hsa-mir-6747-5p ; hsa-mir-608 ; hsa-mir-4651 ; hsa-mir-4664-5p ; hsa-mir-342-5p ; hsa-mir-4748 ; hsa-mir-4464 ; hsa-mir-466 ; hsa-mir-6793-3p ; hsa-mir-4643 ; hsa-mir-4789-3p ; hsa-mir-95-5p ; hsa-mir-223-5p ; hsa-mir-541-3p ; hsa-mir-654-5p ; hsa-mir-6769a-5p ; hsa-mir-6769b-5p ; hsa-mir-92a-2-5p
Nearest miRNA
hsa-mir-1285-2/Upstream/7209263; hsa-mir-10b/Downstream/6492906;
Nearest TSS
ENST00000437798/Upstream/63228; ENST00000432984/Downstream/158095;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/62997, chr2-CpG: 22/Downstream/53899
Nearest cancer related gene
GLI2(OG, No orient, 0)
Upstream sequence
CGTGGAGTCTCTGACTCAATGGGGCTGGGCTGTGGCCTGAGGATCTGCAGTACCCACAACA
Junction sequence
CGTGGAGTCTCTGACTCAATGGGGCTGGGCTGTGGCCTGAGGATCTGCAGTACCCACAACACACTATATGCCAAACACCACTTACAAA
* 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.
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