Basic Information
VIS ID
TVIS20004533
Fusion event
HPV-LINC00470 integration
Validated
Yes
Detection method
Multiplex RT-PCR, APOT assay
Data source
Curated
Sample type
Tumor
Disease
Cervical carcinoma (CC)
Quality evaluation
Normal
Reported year
2014
PubMed ID
23824673
Virus Sequence
Virus name
HPV
Subtype
HPV16
Reference genome
K02718
Gene
E1
Start
1027
Integrated sequence
ATGGTTTTATGTAGAGGCTGTAGTGGAAAAAAAAACAGGGGATGCTATATCAGATGACGAGAACGA AAATGACAGTGATACAGGTGAAGATTTGGTAGA| |TTTTATAGTAAATGATAATGATTATTTAACACAGGCA GAAACAGAGACAGCACATGCGTTGTTTACTGCACAGGAAGCAAAACAACATAGAGATGCAGT
Host Sequence
Chromosome
chr18
Cytoband
p11.32
Reference genome
GRCh37/hg19
Start
1506143/1506142 (Hg38)
End
1506143/1506142 (Hg38)
Location type
Intronic
Target gene
LINC00470
miRNAs that regulate target gene
hsa-mir-335-5p
Nearest miRNA
hsa-mir-8078/Upstream/1393803; hsa-mir-1-2/Downstream/2379211;
Nearest TSS
ENST00000575820/Upstream/97798; ENST00000583163/Downstream/3041;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/596569, chr18-CpG: 33/Downstream/1065145
Upstream sequence
ataaaacccaattgttcatgatgaattatcttttaatatttttatatattttttgcaactatattcatcaaggatattggcccgcagttttctttcttct
Downstream sequence
tatgttaagcgtctgaggtctgggCTGGGAGGAGTGTTTTTTTTCCCTAAAACAAGGATCTAGCTTATCAAGATGAAATCAGTTATGTTTGGTAAAGCTG
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.
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