Basic Info

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Basic Information for the CNV-ceRNA event

Cytoband

20q11.23

lncRNA

SNHG17 ( ENSG00000196756)

miRNA

hsa-miR-346 (MIMAT0000773)

mRNA

EFEMP2 (ENSG00000172638)

Disease

THCA

FDR

2.93E-2

Reported as biomarkers
0

Circulating
0

Drug resistent
1

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    U              A G          G   5 hsa-miR-346
           UC CCG      UCCGU C    CCCGUCU U    
           GG GGU      GGGCA G    GGGCAGA A    
target 5 U  U   GUUUGU     C AGAG       G A 3 SNHG17
Start: 212  End: 232
Energy: -30.4 kcal/mol
Align Score: 0.008322
miRNA  3              U                            5 hsa-miR-346
           UCUC C GUCCG  ACGCCCG             UCUGU    
           AGGG G CGGGC  UGUGGGC             GGACG    
target 5 C    C C     CU       UGUGCUGCACCUC     G 3 SNHG17
Start: 127  End: 147
Energy: -32.5 kcal/mol
Align Score: 0.008142
miRNA  3        U    U                    5 hsa-miR-346
           UCUCCG C CG ACGCC CG     UCUGU    
           AGAGGC G GC UGCGG GC     AGGCA    
target 5 A      U A        U  UUGUA     G 3 SNHG17
Start: 335  End: 355
Energy: -34.2 kcal/mol
Align Score: 0.003947
miRNA  3 U            GUA    C    G   5 hsa-miR-346
           CUCCG    UCC   CGCC GUCU U    
           GAGGC    GGG   GCGG CAGA A    
target 5 U     CCCG   AAG    C    G G 3 SNHG17
Start: 211  End: 231
Energy: -30.8 kcal/mol
Align Score: 0.009408
miRNA  3 UCU       U                            5 hsa-miR-346
             CCGUCCG  ACGCCCG             UCUGU    
             GGCAGGC  UGUGGGC             GGACG    
target 5   U       CU       UGUGCUGCACCUC     G 3 SNHG17
Start: 302  End: 322
Energy: -36 kcal/mol
Align Score: 0.001069

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 SNHG17

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-346

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 EFEMP2

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: 20q11.23

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.