Basic Info

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Basic Information for the CNV-ceRNA event

Cytoband

9q34.11

lncRNA

RP11-228B15.4 ( ENSG00000225032)

miRNA

hsa-miR-378a-3p (MIMAT0000732)

mRNA

MSC (ENSG00000178860)

Disease

KIRC

FDR

3.53E-4

Reported as biomarkers
0

Circulating
0

Drug resistent
0

Survival

Binding Info

miRNA Binding site information on lncRNA

miRanda target site prediction
miRNA  3' cggaaGACUGAGGUUCAGGUCa 5' hsa-miR-378a-3p
               | |:| |||||||||| 
target 5' acggaCGGGCCCCAAGTCCAGg 3' RP11-228B15.4
Start: 1370  End: 1391
Energy: -23.49 kcal/mol
Align Score: 165
miRNA  3' cgGAAGACUGAGGUUCAGGUCa 5' hsa-miR-378a-3p
            | || |:| |||||||||| 
target 5' tcCCTCAGGCCCCAAGTCCAGg 3' RP11-228B15.4
Start: 185  End: 206
Energy: -27.1 kcal/mol
Align Score: 172
TargetScan target site prediction
                                           
                       NA                  
                                           
                         
            NA
RNAbybrid target site prediction
miRNA  3'           A   A          A 5' hsa-miR-378a-3p
           CGGA   AG CUG GGUUCAGGUC    
           GCCU   UC GGC CCAAGUCCAG    
target 5' U    CCC  A   C          G 3' RP11-228B15.4
Start: 181  End: 201
Energy: -33.5 kcal/mol
Align Score: 0.00244
miRNA  3           A   A          A 5 hsa-miR-378a-3p
           CGGA   AG CUG GGUUCAGGUC    
           GCCU   UC GGC CCAAGUCCAG    
target 5 U    CCC  A   C          G 3 RP11-228B15.4
Start: 181  End: 201
Energy: -33.5 kcal/mol
Align Score: 0.00244

Functions

Dysregulated fucntions of CNV-ceRNA event

Hallmarks

Dysregulated hallmarks of CNV-ceRNA event

Network

Related ceRNA network disturbed by CNV

Survival

Survival status of ceRNA interaction

Samples

Samples with different CNV status

Annotations

External Annotation for RP11-228B15.4

LncRNA-associated competing triplets and functions.

Comprehensive experimentally supported associations between lncRNA and human cancer.

An open-source platform for studying the RNA-RNA interactions from CLIP-seq data.

An integrated knowledge database dedicated to non-coding RNAs.

An integrated database of human annotated lncRNA transcripts.

Comprehensive annotations of eukaryotic long non-coding RNAs.



External Annotation for hsa-miR-378a-3p

A high quality database of published miRNA sequences and annotation.

A curated miRNA-target database developed by DIANA LAB.

A miRNA-target database by manually filter research articles related to functional studies of miRNAs.

A comprehensive of microRNA diversity, expression profiles, target relationships, and various supporting tools.



External Annotation for MSC

Information on all annotated and predicted human genes.

Gene nomenclature, gene families and associated resources (genomic, proteomic, phenotypic information).

Genome browser for vertebrate genomes.

An annotated collection of all publicly available DNA sequences.



External Annotation for variation: 9q34.11

A comprehensive, authoritative compendium of human genes and genetic phenotypes.

A database of human single nucleotide variations, microsatellites, and small-scale insertions and deletions

The catalogue of somatic mutations in cancer.