hsa-mir-362-3p _CESC.png
TNFSF4 _CESC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS20004713
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
E7
Start
577
Host Sequence
Chromosome
chr1
Cytoband
q25.1
Reference genome
GRCh37/hg19
Start
173176043/173206904 (Hg38)
End
173176043/173206904 (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/1062260; hsa-mir-1182/Downstream/2761466;
Nearest TSS
ENST00000473358/Upstream/1180; ENST00000460950/Downstream/409;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/673499, chr1-CpG: 100/Downstream/269935
Upstream sequence
aacctggccaacccaactcctatatctacttctggtggggagaaaacagtgttcttcagctatagcacagggcagatgtgcacagaccgtctccctgtat
Downstream sequence
agactattgggcaagaccaactggccatgggagacctatgttcactgttggtgatcttgtgctttatttctctatgtgagtaaagcattgttttatttgg
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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