Basic Info

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Basic Information for the CNV-ceRNA event

Cytoband

11q13.1

lncRNA

NEAT1 ( ENSG00000245532)

miRNA

hsa-miR-328-3p (MIMAT0000752)

mRNA

CD44 (ENSG00000026508)

Disease

SKCM

FDR

4.19E-6

Reported as biomarkers
7

Circulating
6

Drug resistent
41

Survival

Binding Info

miRNA Binding site information on lncRNA

miRanda target site prediction
miRNA  3' ugcCUUCCCGUCUCUCCCGGUc 5' hsa-miR-328-3p
             |:||||| |:||||||:| 
target 5' gcaGGAGGGCCGGGAGGGCTAa 3' NEAT1
Start: 461  End: 482
Energy: -32.02 kcal/mol
Align Score: 163
miRNA  3' ugCCUUCCCGUCUCUCCCGGUc 5' hsa-miR-328-3p
            ||:|| || || ||||||| 
target 5' gaGGGAGAGCTGA-AGGGCCAg 3' NEAT1
Start: 22394  End: 22414
Energy: -29.88 kcal/mol
Align Score: 166
miRNA  3' ugcCUUCCCGUCUCUCCCGGUc 5' hsa-miR-328-3p
             |:||||| |:||||||:| 
target 5' gcaGGAGGGCCGGGAGGGCTAa 3' NEAT1
Start: 437  End: 458
Energy: -32.02 kcal/mol
Align Score: 163
miRNA  3' ugCCUUCCCGUCUC--UCCCGGUc 5' hsa-miR-328-3p
            ||:  |||||:|  ||||||| 
target 5' tgGGGCTGGCAGGGACAGGGCCAa 3' NEAT1
Start: 19689  End: 19712
Energy: -30.82 kcal/mol
Align Score: 163
TargetScan target site prediction
                                           
                       NA                  
                                           
                         
            NA
RNAbybrid target site prediction
miRNA  3'    C       U          C 5' hsa-miR-328-3p
           UG CUUCCCG CUCUCCCGGU    
           GC GGAGGGC GGGAGGGCUA    
target 5' U  A       C          A 3' NEAT1
Start: 460  End: 480
Energy: -39.6 kcal/mol
Align Score: 0.001407
miRNA  3' UG                    G      5' hsa-miR-328-3p
            CCUUC  CCGUCUCUC CCG   UC    
            GGAGG  GGCAGGGAG GGU   AG    
target 5'  A     AA         A   AGA  G 3' NEAT1
Start: 334  End: 354
Energy: -33.7 kcal/mol
Align Score: 0.002058
miRNA  3' UG       G               C   UC 5' hsa-miR-328-3p
            CCUUCCC          UCUCUC CGG     
            GGAGGGG          GGAGAG GCC     
target 5'  A       AGACCCUGGA      A   C  3' NEAT1
Start: 200  End: 220
Energy: -31.3 kcal/mol
Align Score: 0.006352
miRNA  3    C       U          C 5 hsa-miR-328-3p
           UG CUUCCCG CUCUCCCGGU    
           GC GGAGGGC GGGAGGGCUA    
target 5 U  A       C          A 3 NEAT1
Start: 460  End: 480
Energy: -39.6 kcal/mol
Align Score: 0.001407
miRNA  3 UG                    G      5 hsa-miR-328-3p
            CCUUC  CCGUCUCUC CCG   UC    
            GGAGG  GGCAGGGAG GGU   AG    
target 5  A     AA         A   AGA  G 3 NEAT1
Start: 334  End: 354
Energy: -33.7 kcal/mol
Align Score: 0.002058

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 NEAT1

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-328-3p

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 CD44

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: 11q13.1

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.