RBM4 _CESC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS20000137
Fusion event
HPV-RBM4 integration
Validated
Yes
Detection method
PCR and Sanger sequencing
Data source
Curated
Sample type
Tumor
Disease
Cervical carcinoma (CC)
Quality evaluation
Normal
Reported year
2016
PubMed ID
26735580
Virus Sequence
Virus name
HPV
Subtype
HPV58
Reference genome
NC_001357.1
Region type
E7
Start
661
Integrated sequence
CAACGA CGCAGAGAAACACAAGTATAATATTAAGTATGCATGGACCTAAGGCAACATTGCAAGACATTGTATTGCA TTTAGAGCCCCAAAATGAAATT| |CCGGTTGACCTTCTATGTCACGAGCAATTAAGCGACTCAGAGGAAGAA AACGATGAAATAGATGGAGTTAATCATCAACATTTACCAGCCCGACGAGCC
Host Sequence
Chromosome
chr11
Cytoband
q13.2
Reference genome
GRCh37/hg19
Start
66426391/66658920 (Hg38)
End
66426391/66658920 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA11H
Target gene
RBM4
miRNAs that regulate target gene
hsa-mir-197-3p ; hsa-let-7e-5p ; hsa-mir-218-5p
Nearest miRNA
hsa-mir-10392/Upstream/1009667; hsa-let-7a-2/Downstream/275514;
Nearest TSS
ENST00000527297/Upstream/15170; ENST00000550837/Downstream/7116;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/14804, chr11-CpG: 55/Downstream/18606
Nearest cancer related gene
RBM4(TSG, No orient, 0)
Upstream sequence
gtgtatattcatacaaaatttagtgtgtgtgtgtacatagatatatatgtatatacacacacataGACACACACACTCTAAGTTTATAGGCTATTTTTGC
Downstream sequence
TGGTAAAGTTTCCTGAACACTATGTAGGTAGTAACtataaaaaatataaaatttgttttttttCCTGAAAGGTTTATTGTTTGCACTTCTAGATAGTGAA
Reference
Liu, Y., et al. Comprehensive mapping of the human papillomavirus (HPV) DNA integration sites in cervical carcinomas by HPV capture technology. Oncotarget,2016, 7(5): 5852-5864.
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