Basic Info

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Basic Information for the SNP-ceRNA event

Variation

rs3130463  chr6:31198185(A/G)

lncRNA

HCG27 ( ENSG00000206344)

miRNA

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

mRNA

KSR1 (ENSG00000141068)

Population

GBR

FDR

1.24E-3

Reported as biomarkers
0

Circulating
0

Drug resistent
0

Survival

Binding Info

Altered binding affnity between reference and alternative allele

miRanda reference allele   (loss)
                                           
                       NA                  
                                           
                         
            NA
miRanda alternative allele   (gain)
miRNA  3' cgGAAGAC-UGAGGUUCAGGUCa 5' hsa-miR-378a-3p
            | |||| :|| ::||||||| 
target 5' cgCCUCUGUGCUGUGAGUCCAGg 3' HCG27
Start: 31  End: 53
Energy: -26.75 kcal/mol
Align Score: 163
TargetScan reference allele   (loss)
                                           
                       NA                  
                                           
                         
            NA
TargetScan alternative allele   (loss)
                                           
                       NA                  
                                           
                         
            NA
RNAhybrid reference allele   (gain)
miRNA  3'     A        G UU      A 5' hsa-miR-378a-3p
           CGG AGAC UGA G  CAGGUC    
           GCC UCUG GCU U  GUCCAG    
target 5' C        U   G GG      G 3' HCG27
Start: 31  End: 51
Energy: -31.1 kcal/mol
Align Score: 0.000442
RNAhybrid alternative allele   (gain)
miRNA  3'     A        G         A 5' hsa-miR-378a-3p
           CGG AGAC UGA GUUCAGGUC    
           GCC UCUG GCU UGAGUCCAG    
target 5' C        U   G         G 3' HCG27
Start: 31  End: 51
Energy: -31.6 kcal/mol
Align Score: 0.00035

Functions

Dysregulated fucntions of SNP-ceRNA event

Hallmarks

Dysregulated hallmarks of SNP-ceRNA event

Network

The HCG27-associated ceRNA network which were dysregulated by rs3130463

Related ceRNA network disturbed by SNP

Survival

Survival status of ceRNA interaction

Samples

Samples with different genotypes

Annotations

External Annotation for HCG27

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 KSR1

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: rs3130463

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.