Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS20004525
Fusion event
HPV-LIPC integration
Validated
Yes
Detection method
Multiplex RT-PCR, APOT assay
Data source
Curated
Sample type
Disease
Cervical carcinoma (CC)
Quality evaluation
Normal
Reported year
2014
PubMed ID
Virus Sequence
Virus name
HPV
Subtype
HPV16
Reference genome
Gene
E1
Start
2725
Integrated sequence
G GCCTTATTTACATAATAGATTGGTGGTGTTTACATTTCCTAATGAGTTTCCATTTGACGAAAACGGAAAT CCAGTGTATGAGCTTAATGATAAGAAC| |TGGAAATCCTTTTTCTCAAGGACGTGGTCCAGATTAAGTTTGC ACGAGGACGAGGACAAGGAAAACGATGGAGACTCTTTGCCAACGTTTAAATGTGTG
Host Sequence
Chromosome
chr15
Cytoband
q22.2
Reference genome
Start
End
58836257/58544058 (Hg38)
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-148b-3p ; hsa-mir-1-3p ; hsa-mir-5006-3p ; hsa-mir-4755-5p ; hsa-mir-1273e ; hsa-mir-4709-3p ; hsa-mir-623 ; hsa-mir-4635 ; hsa-mir-4699-5p ; hsa-mir-6734-3p ; hsa-mir-6780b-3p ; hsa-mir-4780 ; hsa-mir-204-5p ; hsa-mir-211-5p ; hsa-mir-650 ; hsa-mir-3612 ; hsa-mir-1827 ; hsa-mir-219b-3p ; hsa-mir-4649-3p ; hsa-mir-3919 ; hsa-mir-1247-3p ; hsa-mir-6511a-5p ; hsa-mir-1910-3p ; hsa-mir-3123 ; hsa-mir-302f ; hsa-mir-2355-3p ; hsa-mir-676-3p ; hsa-mir-6749-3p ; hsa-mir-6852-3p ; hsa-mir-3909 ; hsa-mir-6766-3p ; hsa-mir-4782-3p ; hsa-mir-219a-5p ; hsa-mir-3922-3p ; hsa-mir-3176 ; hsa-mir-3190-5p ; hsa-mir-4685-3p ; hsa-mir-4287 ; hsa-mir-1248 ; hsa-mir-5088-3p ; hsa-mir-6764-5p ; hsa-mir-1915-3p ; hsa-mir-7113-5p ; hsa-mir-665 ; hsa-mir-7977 ; hsa-mir-7160-5p ; hsa-mir-4722-5p ; hsa-mir-6884-5p ; hsa-mir-485-5p ; hsa-mir-3664-3p ; hsa-mir-4433a-3p ; hsa-mir-4459 ; hsa-mir-4768-3p ; hsa-mir-5690 ; hsa-mir-4478 ; hsa-mir-4419b ; hsa-mir-3929 ; hsa-mir-940 ; hsa-mir-6893-5p ; hsa-mir-4695-5p ; hsa-mir-6808-5p ; hsa-mir-510-5p ; hsa-mir-512-5p ; hsa-mir-874-5p ; hsa-mir-6514-3p ; hsa-mir-891a-3p ; hsa-mir-4455 ; hsa-mir-6811-3p ; hsa-mir-214-5p ; hsa-mir-5589-3p ; hsa-mir-6729-3p ; hsa-mir-4704-3p ; hsa-mir-5000-5p ; hsa-mir-5692a
Nearest miRNA
hsa-mir-10393/Upstream/3171024; hsa-mir-11181/Downstream/627125;
Nearest CpG islands
Upstream sequence
ACTTTTTCCAGGAAAATATATTGAAATCATGCTGCTGAGCCTCTATTTTCTTTCTTTGATGTTTTGATTCAGTATTCTTTTATCATAAATTTTTAGCATT
Downstream sequence
catgcttttttgttcatcttgctggtcactggggaagcctggtcacagaccggcGTGTGGCCCCCATGGATTTAACCCACAATAGCCTGGGGATGAGCAG
Reference
Lu, X., et al. Multiple-integrations of HPV16 genome and altered transcription of viral oncogenes and cellular genes are associated with the development of cervical cancer. PLoS One ,2014,9(7): e97588.