Basic Info

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Basic Information for the CNV-ceRNA event

Cytoband

6p22.3

lncRNA

RP4-625H18.2 ( ENSG00000228412)

miRNA

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

mRNA

TUSC2 (ENSG00000114383)

Disease

UVM

FDR

2.60E-2

Reported as biomarkers
0

Circulating
0

Drug resistent
0

Survival

Binding Info

miRNA Binding site information on lncRNA

miRanda target site prediction
miRNA  3' cggaAGACU-GAGGUUCAGGUCa 5' hsa-miR-378a-3p
              ||||| || ::||||||| 
target 5' tttgTCTGATCTATGAGTCCAGa 3' RP4-625H18.2
Start: 290  End: 312
Energy: -22.42 kcal/mol
Align Score: 165
miRNA  3' cggaAGACU-GAGGUUCAGGUCa 5' hsa-miR-378a-3p
              ||||| || ::||||||| 
target 5' tttgTCTGATCTATGAGTCCAGa 3' RP4-625H18.2
Start: 583  End: 605
Energy: -22.42 kcal/mol
Align Score: 165
miRNA  3' cggaAGACU-GAGGUUCAGGUCa 5' hsa-miR-378a-3p
              ||||| || ::||||||| 
target 5' tttgTCTGATCTATGAGTCCAGa 3' RP4-625H18.2
Start: 175  End: 197
Energy: -22.42 kcal/mol
Align Score: 165
miRNA  3' cggaAGACU-GAGGUUCAGGUCa 5' hsa-miR-378a-3p
              ||||| || ::||||||| 
target 5' tttgTCTGATCTATGAGTCCAGa 3' RP4-625H18.2
Start: 292  End: 314
Energy: -22.42 kcal/mol
Align Score: 165
miRNA  3' cggaAGACU-GAGGUUCAGGUCa 5' hsa-miR-378a-3p
              ||||| || ::||||||| 
target 5' tttgTCTGATCTATGAGTCCAGa 3' RP4-625H18.2
Start: 305  End: 327
Energy: -22.42 kcal/mol
Align Score: 165
TargetScan target site prediction
miRNA  3' CGGAAGACUGAGGU-UCAGGUCA 5' hsa-miR-378a-3p
              |||||      ||||||| 
target 5' UUUGUCUGAUCUAUGAGUCCAGA RP4-625H18.2
Start: 190  End: 197
Site type: 8mer-1a
Context++ Score: -0.41
miRNA  3'   CGGAAGACUGAGGUUCAGGUCA 5' hsa-miR-378a-3p
                          ||||||| 
target 5'  CCCUUUUCUUUUGUCAGUCCAGA RP4-625H18.2
Start: 273  End: 280
Site type: 8mer-1a
Context++ Score: -0.412
miRNA  3' CGGAAGACUGAGGU-UCAGGUCA 5' hsa-miR-378a-3p
              |||||      ||||||| 
target 5' UUUGUCUGAUCUAUGAGUCCAGA RP4-625H18.2
Start: 307  End: 314
Site type: 8mer-1a
Context++ Score: -0.428
miRNA  3'   CGGAAGACUGAGGUUCAGGUCA 5' hsa-miR-378a-3p
                          ||||||| 
target 5'  CCCUUUUCUUUUGUCAGUCCAGA RP4-625H18.2
Start: 390  End: 397
Site type: 8mer-1a
Context++ Score: -0.424
miRNA  3' CGGAAGACUGAGGU-UCAGGUCA 5' hsa-miR-378a-3p
              |||||      ||||||| 
target 5' UUUGUCUGAUCUAUGAGUCCAGA RP4-625H18.2
Start: 320  End: 327
Site type: 8mer-1a
Context++ Score: -0.437
RNAbybrid target site prediction
miRNA  3'             A        UCA 5' hsa-miR-378a-3p
           CGGA AGACUG GGUUCAGG      
           GUCU UCUGAC CCAGGUCU      
target 5' U    C               G   3' RP4-625H18.2
Start: 159  End: 179
Energy: -29.6 kcal/mol
Align Score: 0.009511
miRNA  3             A        UCA 5 hsa-miR-378a-3p
           CGGA AGACUG GGUUCAGG      
           GUCU UCUGAC CCAGGUCU      
target 5 U    C               G   3 RP4-625H18.2
Start: 159  End: 179
Energy: -29.6 kcal/mol
Align Score: 0.009511

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 RP4-625H18.2

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 TUSC2

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: 6p22.3

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.