Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS20004536
Fusion event
HPV-MOB3A 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
3890
Integrated sequence
TAAAAGTGCAATTGTTACACTTACATATGATAGTGAATGGCAA CGTGACCAATTTTTGTCTCAAGTTAAAATACCAAAAACTATTACAGTGTCTACTGG| |ATTTATGTCTATAT GACAAATCTTGATACTGCATCCACAACATTACTGGCGTGCTTTTTGCTTTGCTTTGTGTGCTTTTGTGTG TCTGCCTATTAATA
Host Sequence
Chromosome
chr19
Cytoband
p13.3
Reference genome
Start
End
2080380/2080381 (Hg38)
Location type
Intronic
Fragile sites / regions
Target gene
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-186-5p ; hsa-mir-665 ; hsa-mir-6836-3p ; hsa-mir-4452 ; hsa-mir-6513-5p ; hsa-mir-887-5p ; hsa-mir-3913-5p ; hsa-mir-3122 ; hsa-mir-450a-1-3p ; hsa-mir-7977 ; hsa-mir-24-3p ; hsa-mir-4284 ; hsa-mir-4743-5p ; hsa-mir-5693 ; hsa-mir-383-3p ; hsa-mir-3681-3p ; hsa-mir-216a-3p ; hsa-mir-128-3p ; hsa-mir-6763-5p ; hsa-mir-3150a-3p ; hsa-mir-4314 ; hsa-mir-6825-5p ; hsa-mir-939-5p ; hsa-mir-1343-5p ; hsa-mir-3175 ; hsa-mir-6799-5p ; hsa-mir-6883-5p ; hsa-mir-6785-5p ; hsa-mir-4728-5p ; hsa-mir-149-3p ; hsa-mir-7106-5p ; hsa-mir-4731-5p ; hsa-mir-7160-5p ; hsa-mir-4722-5p ; hsa-mir-6884-5p ; hsa-mir-485-5p ; hsa-mir-1827 ; hsa-mir-8089 ; hsa-mir-4700-5p ; hsa-mir-4667-5p ; hsa-mir-6506-5p ; hsa-mir-619-5p ; hsa-mir-3192-5p ; hsa-mir-4646-5p ; hsa-mir-204-3p ; hsa-mir-4649-3p ; hsa-mir-1298-3p ; hsa-mir-4478 ; hsa-mir-4419b ; hsa-mir-3929 ; hsa-mir-940 ; hsa-mir-6893-5p ; hsa-mir-6808-5p ; hsa-mir-3152-5p ; hsa-mir-6781-3p ; hsa-mir-2682-3p ; hsa-mir-6829-3p ; hsa-mir-6791-3p ; hsa-mir-6778-3p ; hsa-mir-4749-3p ; hsa-mir-6793-3p ; hsa-mir-6877-3p ; hsa-mir-6819-3p ; hsa-mir-6818-3p ; hsa-mir-548s ; hsa-mir-6864-3p ; hsa-mir-3672 ; hsa-mir-3926 ; hsa-mir-769-5p ; hsa-mir-4786-5p ; hsa-mir-3655 ; hsa-mir-3190-5p ; hsa-mir-6849-3p ; hsa-mir-218-1-3p ; hsa-mir-218-2-3p ; hsa-mir-3180-5p ; hsa-mir-5187-5p ; hsa-mir-520a-5p ; hsa-mir-525-5p ; hsa-mir-8069
Nearest miRNA
hsa-mir-1302-11/Upstream/264143; hsa-let-7e/Downstream/153681;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/1869, chr19-CpG: 30/Downstream/15015
Upstream sequence
tctctgagatcaccttcgttagattccacatatgagtgagatcatgtgatatttgtctttctgtgcctcccttatttcacttaacacaatgttctctgag
Downstream sequence
Ctctttttttttttgaggcagagtctcgctctgtcacccaggctggagtgcagtagcgcgatctcagctcactgcagcctccacctcccgggttcacgcg
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.