Basic Information
VIS ID
TVIS20000070
Fusion event
HPV-CASC11 integration
Validated
Yes
Detection method
PCR and Sanger sequencing
Data source
Curated
Sample type
Tumor
Disease
Cervical carcinoma (CC)
Quality evaluation
Normal
Reported year
2016
PubMed ID
26735580
Virus Sequence
Virus name
HPV
Subtype
HPV16
Reference genome
NC_001526.4
Region type
E1
Start
2104
Integrated sequence
AGAATGTGCTATTTATTACAAGGCCAGAGAAATGGGATTTAAACATATTAACCACCAGGTGGTGCCAACACTGGCTGTATCAAAGAATAAAGCATTACAA| |GCAATTGAACTGCAACTAACGTTAGAAACAATATATAACTCACAATATAGTAATGAAAAGTGGACATTACAAGACGTTAGCCTTGAAGTGTATTTAACTG
Host Sequence
Chromosome
chr8
Cytoband
q24.21
Reference genome
GRCh37/hg19
Start
128717682/127705437 (Hg38)
End
128717682/127705437 (Hg38)
Location type
Intronic
Target gene
CASC11
Nearest miRNA
hsa-mir-12123/Upstream/2883379; hsa-mir-10400/Downstream/90525;
Nearest TSS
ENST00000518652/Upstream/223298; ENST00000641252/Downstream/28530;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/389544, chr8-CpG: 17/Downstream/28567
Upstream sequence
aagggattttgctgatgactgatctggaattgtacaagggagggtgagggaattagaaagaggtgaagatggggtcagattaggtggtatacagagcagt
Downstream sequence
cgcgcccgccaccacgtccagctaatttttgtatttttagtcgagacggggtttcaccatattgggcaggctggtctcaaactcctgaccttgtgatctg
Reference
Liu, Y., et al. Comprehensive mapping of the human papillomavirus (HPV) DNA integration sites in cervical carcinomas by HPV capture technology. Oncotarget,2016, 7(5): 5852-5864.
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