Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS20003714
Fusion event
HPV-POU5F1B integration
Validated
Yes
Detection method
PCR and Sanger sequencing
Data source
Curated
Sample type
Disease
Cervical carcinoma (CC)
Quality evaluation
Perfect
Reported year
2016
PubMed ID
Virus Sequence
Virus name
HPV
Subtype
HPV18
Reference genome
Start
2497
End
2414
Orient
-
Integrated sequence
TACAAGGAGCAGTAATATCATTTGTGAATTCCACTAGTCATTTTTGGTTGGAACCGTTAACAGATACTAAGGTGGCCATGTTAG
Host Sequence
Chromosome
chr8
Cytoband
q24.21
Reference genome
End
128241531/127229286 (Hg38)
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-7853-5p ; hsa-mir-105-5p ; hsa-mir-8485 ; hsa-mir-6848-3p ; hsa-mir-6843-3p ; hsa-mir-3663-5p ; hsa-mir-372-5p ; hsa-mir-371a-5p ; hsa-mir-616-5p ; hsa-mir-373-5p ; hsa-mir-371b-5p ; hsa-mir-4698 ; hsa-mir-8063 ; hsa-mir-3163 ; hsa-mir-590-3p ; hsa-mir-5692a ; hsa-mir-4282 ; hsa-mir-2681-5p ; hsa-mir-4433b-5p ; hsa-mir-4693-5p ; hsa-mir-4669 ; hsa-mir-3657 ; hsa-mir-4433a-5p ; hsa-mir-4726-3p ; hsa-mir-6764-5p ; hsa-mir-1915-3p ; hsa-mir-6840-3p ; hsa-mir-892a ; hsa-mir-4318
Nearest miRNA
hsa-mir-12123/Upstream/2407228; hsa-mir-10400/Downstream/566676;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/670761, chr8-CpG: 29/Downstream/86356
Upstream sequence
TATGTGCAGCTTCTTAAAGTCCAGCTCACACCTCTGTCAACTCCCTGTATAATATGACTTCCAAAAAAACACCTGTGGTTTGGTTATACATATATATGGA
Junction sequence
TATGTGCAGCTTCTTAAAGTCCAGCTCACACCTCTGTCAACTCCCTGTATAATATGACTTCCAAAAAAACACCTGTGGTTTGGTTATACATATATATGGAACATGGCCACCTTAGTATCTGTTAACGGTTCCGACCAAAAATGACTAGTGGAATTCACAAATGATATTACTGCTCCTTGTAT
* Color:
Human Sequence
/
Virus Sequence
/
Overlapped sequence
/
Unknown sequence
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.