MIR518D (microRNA 518d) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: MIR518D (microRNA 518d) Homo sapiens
Analyze
Symbol: MIR518D
Name: microRNA 518d
RGD ID: 1603734
HGNC Page HGNC:32121
Description: Enables mRNA base-pairing translational repressor activity. Involved in miRNA-mediated post-transcriptional gene silencing.
Type: ncrna (Ensembl: miRNA)
RefSeq Status: PROVISIONAL
Previously known as: MIRN518D
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381953,734,877 - 53,734,963 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1953,734,877 - 53,734,963 (+)EnsemblGRCh38hg38GRCh38
GRCh371954,238,131 - 54,238,217 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361958,929,942 - 58,930,028 (+)NCBINCBI36Build 36hg18NCBI36
Celera1951,279,228 - 51,279,314 (+)NCBICelera
Cytogenetic Map19q13.42NCBI
HuRef1950,557,705 - 50,557,791 (+)NCBIHuRef
CHM1_11954,239,930 - 54,240,016 (+)NCBICHM1_1
T2T-CHM13v2.01956,814,371 - 56,814,457 (+)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

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:15965474   PMID:16381832   PMID:17604727   PMID:24639097   PMID:31079917   PMID:33123597  


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 19q13.42(chr19:53692245-53808292)x3 copy number gain See cases [RCV000141357] Chr19:53692245..53808292 [GRCh38]
Chr19:54195499..54311546 [GRCh37]
Chr19:58887311..59003358 [NCBI36]
Chr19:19q13.42		 uncertain significance
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 19q13.33-13.43(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
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
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

Predicted Targets
Summary Value
Count of predictions:17379
Count of gene targets:7698
Count of transcripts:14123
Interacting mature miRNAs:hsa-miR-518d-3p, hsa-miR-518d-5p
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 hemolymphoid system integumental system musculoskeletal system nervous system reproductive system respiratory system adipose tissue appendage
High
Medium
Low 4 2 3 5 4 3 1 4 1 3
Below cutoff 3 4 1 2 5 1 7 1 1 1 3

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000385014
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1953,734,877 - 53,734,963 (+)Ensembl
RefSeq Acc Id: NR_030211
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381953,734,877 - 53,734,963 (+)NCBI
GRCh371954,238,131 - 54,238,217 (+)RGD
Celera1951,279,228 - 51,279,314 (+)RGD
HuRef1950,557,705 - 50,557,791 (+)ENTREZGENE
CHM1_11954,239,930 - 54,240,016 (+)NCBI
T2T-CHM13v2.01956,814,371 - 56,814,457 (+)NCBI
Sequence:

Additional Information

Database Acc Id Source(s)
COSMIC MIR518D COSMIC
Ensembl Genes ENSG00000283330 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000385014 ENTREZGENE
GTEx ENSG00000283330 GTEx
HGNC ID HGNC:32121 ENTREZGENE
Human Proteome Map MIR518D Human Proteome Map
miRBase MI0003171 ENTREZGENE
NCBI Gene 574489 ENTREZGENE
OMIM 620618 OMIM
PharmGKB PA164722783 PharmGKB
RNAcentral URS0000087207 RNACentral
  URS00001B6361 RNACentral
  URS00006DAC3B RNACentral