MIR520E (microRNA 520e) - Rat Genome Database

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Pathways
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Gene: MIR520E (microRNA 520e) Homo sapiens
Analyze
Symbol: MIR520E
Name: microRNA 520e
RGD ID: 1603761
HGNC Page HGNC:32093
Description: Enables mRNA base-pairing translational repressor activity. Involved in miRNA-mediated gene silencing by inhibition of translation; positive regulation of complement activation, alternative pathway; and positive regulation of protein localization to cell surface.
Type: ncrna (Ensembl: miRNA)
RefSeq Status: PROVISIONAL
Previously known as: MIRN520E
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381953,675,711 - 53,675,797 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1953,675,711 - 53,675,797 (+)EnsemblGRCh38hg38GRCh38
GRCh371954,178,965 - 54,179,051 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361958,870,776 - 58,870,862 (+)NCBINCBI36Build 36hg18NCBI36
Celera1951,220,054 - 51,220,140 (+)NCBICelera
Cytogenetic Map19q13.42NCBI
HuRef1950,498,618 - 50,498,704 (+)NCBIHuRef
CHM1_11954,180,760 - 54,180,846 (+)NCBICHM1_1
T2T-CHM13v2.01956,755,224 - 56,755,310 (+)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

References
Additional References at PubMed
PMID:15965474   PMID:16381832   PMID:20574151   PMID:22105365   PMID:22537031   PMID:25822230   PMID:27997901   PMID:28242196   PMID:30521133   PMID:30826062   PMID:36473367  


Genomics


Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 19q13.41-13.43(chr19:52612432-58581203)x3 copy number gain See cases [RCV000134174] Chr19:52612432..58581203 [GRCh38]
Chr19:53115685..59092570 [GRCh37]
Chr19:57807497..63784382 [NCBI36]
Chr19:19q13.41-13.43		 pathogenic
GRCh38/hg38 19q13.41-13.43(chr19:52955056-58581203)x3 copy number gain See cases [RCV000134139] Chr19:52955056..58581203 [GRCh38]
Chr19:53458309..59092570 [GRCh37]
Chr19:58150121..63784382 [NCBI36]
Chr19:19q13.41-13.43		 pathogenic
GRCh38/hg38 19q13.33-13.43(chr19:50152520-58581203)x3 copy number gain See cases [RCV000135843] Chr19:50152520..58581203 [GRCh38]
Chr19:50655777..59092570 [GRCh37]
Chr19:55347589..63784382 [NCBI36]
Chr19:19q13.33-13.43		 pathogenic
GRCh38/hg38 19q13.41-13.43(chr19:52143873-58445521)x3 copy number gain See cases [RCV000142008] Chr19:52143873..58445521 [GRCh38]
Chr19:52647126..58956888 [GRCh37]
Chr19:57338938..63648700 [NCBI36]
Chr19:19q13.41-13.43		 pathogenic
GRCh38/hg38 19q13.33-13.43(chr19:50191219-58535818)x3 copy number gain See cases [RCV000050883] Chr19:50191219..58535818 [GRCh38]
Chr19:50694476..59047185 [GRCh37]
Chr19:55386288..63738997 [NCBI36]
Chr19:19q13.33-13.43		 pathogenic
GRCh38/hg38 19q13.41-13.43(chr19:51141518-58539965)x3 copy number gain See cases [RCV000052926] Chr19:51141518..58539965 [GRCh38]
Chr19:51644775..59051332 [GRCh37]
Chr19:56336587..63743144 [NCBI36]
Chr19:19q13.41-13.43		 pathogenic
GRCh38/hg38 19q13.42(chr19:53553042-53899466)x3 copy number gain See cases [RCV000052593] Chr19:53553042..53899466 [GRCh38]
Chr19:54056296..54402720 [GRCh37]
Chr19:58748108..59094532 [NCBI36]
Chr19:19q13.42		 uncertain significance
GRCh38/hg38 19q13.42(chr19:53601298-53773028)x3 copy number gain See cases [RCV000052594] Chr19:53601298..53773028 [GRCh38]
Chr19:54104552..54276282 [GRCh37]
Chr19:58796364..58968094 [NCBI36]
Chr19:19q13.42		 uncertain significance
GRCh38/hg38 19q13.33-13.43(chr19:47908540-58539965)x3 copy number gain See cases [RCV000052914] Chr19:47908540..58539965 [GRCh38]
Chr19:48411797..59051332 [GRCh37]
Chr19:53103609..63743144 [NCBI36]
Chr19:19q13.33-13.43		 pathogenic
GRCh38/hg38 19q13.33-13.43(chr19:47929575-58572206)x3 copy number gain See cases [RCV000052915] Chr19:47929575..58572206 [GRCh38]
Chr19:48432832..59083573 [GRCh37]
Chr19:53124644..63775385 [NCBI36]
Chr19:19q13.33-13.43		 pathogenic
GRCh38/hg38 19q13.33-13.43(chr19:49907832-58557889)x3 copy number gain See cases [RCV000052925] Chr19:49907832..58557889 [GRCh38]
Chr19:50411089..59069256 [GRCh37]
Chr19:55102901..63761068 [NCBI36]
Chr19:19q13.33-13.43		 pathogenic
NC_000019.10:g.53536530_53981185dup duplication Silver Russell Syndrome-related disorder [RCV000785667] Chr19:53536530..53981185 [GRCh38]
Chr19:54039784..54484439 [GRCh37]
Chr19:19q13.42		 uncertain significance
miRNA Target Status

Confirmed Targets
Gene TargetMature miRNAMethod NameResult TypeData TypeSupport TypePMID
CD46hsa-miR-520eMirtarbaseexternal_infoELISA//Luciferase reporter assay//qRT-PCR//WesternFunctional MTI20574151
PFKPhsa-miR-520eMirtarbaseexternal_infoLuciferase reporter assay//qRT-PCR//Western blotFunctional MTI23389994
CD46hsa-miR-520eTarbaseexternal_infoReporter GenePOSITIVE
CD46hsa-miR-520eTarbaseexternal_infoqPCRPOSITIVE
CD46hsa-miR-520eTarbaseexternal_infoWesternblitPOSITIVE
CD46hsa-miR-520eTarbaseexternal_infoOtherPOSITIVE
MAP4K4hsa-miR-520eOncomiRDBexternal_infoNANA22105365
CD46hsa-miR-520eOncomiRDBexternal_infoNANA20574151

Predicted Targets
Summary Value
Count of predictions:20667
Count of gene targets:8899
Count of transcripts:16114
Interacting mature miRNAs:hsa-miR-520e
Prediction methods:Microtar, Miranda, Pita, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system sensory system adipose tissue appendage entire extraembryonic component
High
Medium 1 3 3
Low 7 4 5 12 21 2 1 3 14 9 3
Below cutoff 4 6 2 1 7 1 3 4 12 1 2 2 1 2 1

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000384867
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1953,675,711 - 53,675,797 (+)Ensembl
RefSeq Acc Id: NR_030183
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381953,675,711 - 53,675,797 (+)NCBI
GRCh371954,178,965 - 54,179,051 (+)RGD
Celera1951,220,054 - 51,220,140 (+)RGD
HuRef1950,498,618 - 50,498,704 (+)ENTREZGENE
CHM1_11954,180,760 - 54,180,846 (+)NCBI
T2T-CHM13v2.01956,755,224 - 56,755,310 (+)NCBI
Sequence:

Additional Information

Database Acc Id Source(s)
COSMIC MIR520E COSMIC
Ensembl Genes ENSG00000207599 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000384867 ENTREZGENE
GTEx ENSG00000207599 GTEx
HGNC ID HGNC:32093 ENTREZGENE
Human Proteome Map MIR520E Human Proteome Map
miRBase MI0003143 ENTREZGENE
NCBI Gene 574461 ENTREZGENE
OMIM 620573 OMIM
PharmGKB PA164722796 PharmGKB
RNAcentral URS00001A5F54 RNACentral
  URS00006EE977 RNACentral
  URS0000D4F992 RNACentral