Basic Information
VIS ID
TVIS20004510
Fusion event
HPV-LINC00583 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
999
Integrated sequence
TGGGGAAGAGGGTACGGGATGTA ATGGATGGTTTTATGTAGAGGCTGTAGTGGAAAAAAAAACAGGGGATGCTATATCAGATGACGAGAACGA AAATG| |ACAGTGATACAGGTGAAGATTTGGTAGATTTTATAGTAAATGATAATGATTATTTAACACAGGCA GAAACAGAGACAGCACATGCGTTGTTTACTGCAC
Host Sequence
Chromosome
chr9
Cytoband
p23
Reference genome
GRCh37/hg19
Start
13858043/13858044 (Hg38)
End
13858043/13858044 (Hg38)
Location type
Intronic
Target gene
LINC00583
Nearest miRNA
hsa-mir-101-2/Upstream/7850140; hsa-let-7a-1/Downstream/4715262;
Nearest TSS
ENST00000422679/Upstream/411553; ENST00000381010/Downstream/69927;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/534693, chr9-CpG: 242/Downstream/454909
Upstream sequence
actagtaatatattctcagtgtctccttttccccctacaccatttcattgctttgcatatgtaatctagctttttctttcactcattctctcataaatca
Downstream sequence
GACGCCCCCAGCACTTCCCAGGCtgcctgtgcttccgccaagactgcaggccccttgtgggcagggatcatggtctgtcccctgctatatcccagcaacc
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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