Basic Info

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Basic Information for the CNV-ceRNA event

Cytoband

11q13.1

lncRNA

MALAT1 ( ENSG00000251562)

miRNA

hsa-miR-296-3p (MIMAT0004679)

mRNA

CX3CR1 (ENSG00000168329)

Disease

TGCT

FDR

6.18E-3

Reported as biomarkers
24

Circulating
20

Drug resistent
83

Survival

Binding Info

miRNA Binding site information on lncRNA

miRanda target site prediction
                                           
                       NA                  
                                           
                         
            NA
TargetScan target site prediction
                                           
                       NA                  
                                           
                         
            NA
RNAbybrid target site prediction
miRNA  3             A                 U        5 hsa-miR-296-3p
           CCU   CUCGG GGUG           GG UGGGAG    
           GGA   GGGCC CCGC           CC GCCCUC    
target 5 A   CUG          AACUGGCCUCU  U      U 3 MALAT1
Start: 1  End: 21
Energy: -31.7 kcal/mol
Align Score: 0.00816
miRNA  3 CC   C         UU        5 hsa-miR-296-3p
            UCU GGAGGUGGG  G GGAG    
            AGA CCUUCACCC  C CCUC    
target 5  A   C         CU A    G 3 MALAT1
Start: 439  End: 459
Energy: -31.3 kcal/mol
Align Score: 0.006644
miRNA  3 CC   C         UU        5 hsa-miR-296-3p
            UCU GGAGGUGGG  G GGAG    
            AGA CCUUCACCC  C CCUC    
target 5  C   C         CU A    G 3 MALAT1
Start: 160  End: 180
Energy: -31.3 kcal/mol
Align Score: 0.002902
miRNA  3 CC   C         UU        5 hsa-miR-296-3p
            UCU GGAGGUGGG  G GGAG    
            AGA CCUUCACCC  C CCUC    
target 5  C   C         CU A    G 3 MALAT1
Start: 382  End: 402
Energy: -31.3 kcal/mol
Align Score: 0.006561

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 MALAT1

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-296-3p

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 CX3CR1

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.