hsa-mir-362-3p _CESC.png
TNFSF4 _CESC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS20004712
Fusion event
HPV-TNFSF4 integration
Validated
No
Detection method
RNA-Seq
Data source
download(HPVbase)
Sample type
Tumor
Disease
Cervical carcinoma (CC)
Quality evaluation
Normal
Reported year
2013
PubMed ID
23740984
Virus Sequence
Virus name
HPV
Subtype
HPV16
Reference genome
Not given
Gene
E6
Start
106
Host Sequence
Chromosome
chr1
Cytoband
q25.1
Reference genome
GRCh37/hg19
Start
173176246/173207107 (Hg38)
End
173176246/173207107 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA1G
Target gene
TNFSF4
miRNAs that regulate target gene
hsa-mir-6869-5p ; hsa-mir-4303 ; hsa-mir-3182 ; hsa-mir-4682 ; hsa-mir-8485 ; hsa-mir-3941 ; hsa-mir-603 ; hsa-mir-362-3p ; hsa-mir-329-3p
Nearest miRNA
hsa-mir-101-1/Upstream/1062463; hsa-mir-1182/Downstream/2761263;
Nearest TSS
ENST00000473358/Upstream/1383; ENST00000460950/Downstream/206;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/673702, chr1-CpG: 100/Downstream/269732
Upstream sequence
ttttctatttttagtagagacggggttGGTATATTTTGCTTCAATGAGCTAGAGTAGATTTGTTTGTTGCTTACAAAAACCATTGATGATACAGGTACAT
Downstream sequence
AAAATGTTGTTTATGTAATtgttataaactgtgtgtttcttgcccctctccaaaatattcatgtgatgaaattcaaactcccaatgggatggccttatga
Reference
Khoury, J. D., et al. Landscape of DNA virus associations across human malignant cancers: analysis of 3,775 cases using RNA-Seq. J Virol,2013, 87(16): 8916-8926.
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