LnCeVar:Detail

Basic Info

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Basic Information for the CNV-ceRNA event

Cytoband

11p15.5

lncRNA

H19 ( ENSG00000130600)

miRNA

hsa-miR-339-5p (MIMAT0000764)

mRNA

MDM2 (ENSG00000135679)

Disease

LGG

FDR

1.50E-2

Reported as biomarkers

Circulating

Drug resistent

Survival

Binding Info

miRNA Binding site information on lncRNA

miRanda target site prediction

NA

NA

TargetScan target site prediction

miRNA  3' GCACUCGAGGACCUC--CUGUCCCU 5' hsa-miR-339-5p
                  |||||    ||||||| 
target 5'   CCCAGGCCUGGGUCAGACAGGGA H19

Start: 102  End: 109

Site type: 8mer-1a
Context++ Score: -0.406

miRNA  3' GCACUCGAGGACCUC--CUGUCCCU 5' hsa-miR-339-5p
                  |||||    ||||||| 
target 5'   CCCAGGCCUGGGUCAGACAGGGA H19

Start: 102  End: 109

Site type: 8mer-1a
Context++ Score: -0.406

RNAbybrid target site prediction

miRNA  3' GC        A                            5' hsa-miR-339-5p
            ACUCGAGG      CCUCC         UGUCCCU    
            UGAGCUCU      GGAGG         GCAGGGG    
target 5'  A        CAGGAG     AUGGUGCAG       U 3' H19

Start: 545  End: 565
Energy: -35.8 kcal/mol
Align Score: 0.005185

miRNA  3' GC        A                            5' hsa-miR-339-5p
            ACUCGAGG      CCUCC         UGUCCCU    
            UGAGCUCU      GGAGG         GCAGGGG    
target 5'  A        CAGGAG     AUGGUGCAG       U 3' H19

Start: 788  End: 808
Energy: -35.8 kcal/mol
Align Score: 0.005707

miRNA  3'        G                  C            5' hsa-miR-339-5p
           GCACUC A           GGACCU   CUGUCCCU    
           CGUGGG U           CCUGGG   GACAGGGA    
target 5' A      G GGUACCCCAGG      UCA        C 3' H19

Start: 653  End: 673
Energy: -34.4 kcal/mol
Align Score: 0.008418

miRNA  3' GC        A                            5' hsa-miR-339-5p
            ACUCGAGG      CCUCC         UGUCCCU    
            UGAGCUCU      GGAGG         GCAGGGG    
target 5'  A        CAGGAG     AUGGUGCAG       U 3' H19

Start: 507  End: 527
Energy: -35.8 kcal/mol
Align Score: 0.004656

miRNA  3' GC        A                            5' hsa-miR-339-5p
            ACUCGAGG      CCUCC         UGUCCCU    
            UGAGCUCU      GGAGG         GCAGGGG    
target 5'  A        CAGGAG     AUGGUGCAG       U 3' H19

Start: 353  End: 373
Energy: -35.8 kcal/mol
Align Score: 0.004096

Functions

Dysregulated fucntions of CNV-ceRNA event

Top of functions:

Hallmarks

Dysregulated hallmarks of CNV-ceRNA event

Network

Related ceRNA network disturbed by CNV

Network scale:

Survival

Survival status of ceRNA interaction

Disease(TCGA):

Samples

Samples with different CNV status

Annotations

External Annotation for H19

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-339-5p

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 MDM2

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: 11p15.5

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.