MIR5590 (microRNA 5590) - Rat Genome Database

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Pathways
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Gene: MIR5590 (microRNA 5590) Homo sapiens
Analyze
Symbol: MIR5590
Name: microRNA 5590
RGD ID: 6483959
HGNC Page HGNC:43541
Description: microRNAs (miRNAs) are short (20-24 nt) non-coding RNAs that are involved in post-transcriptional regulation of gene expression in multicellular organisms by affecting both the stability and translation of mRNAs. miRNAs are transcribed by RNA polymerase II as part of capped and polyadenylated primary transcripts (pri-miRNAs) that can be either protein-coding or non-coding. The primary transcript is cleaved by the Drosha ribonuclease III enzyme to produce an approximately 70-nt stem-loop precursor miRNA (pre-miRNA), which is further cleaved by the cytoplasmic Dicer ribonuclease to generate the mature miRNA and antisense miRNA star (miRNA*) products. The mature miRNA is incorporated into a RNA-induced silencing complex (RISC), which recognizes target mRNAs through imperfect base pairing with the miRNA and most commonly results in translational inhibition or destabilization of the target mRNA. The RefSeq represents the predicted microRNA stem-loop. [provided by RefSeq, Sep 2009]
Type: ncrna (Ensembl: miRNA)
RefSeq Status: PROVISIONAL
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382134,857,820 - 134,857,873 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2134,857,820 - 134,857,873 (+)EnsemblGRCh38hg38GRCh38
GRCh372135,615,390 - 135,615,443 (+)NCBIGRCh37GRCh37hg19GRCh37
Cytogenetic Map2q21.3NCBI
CHM1_12135,620,199 - 135,620,252 (+)NCBICHM1_1
T2T-CHM13v2.02135,298,067 - 135,298,120 (+)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:16381832   PMID:21911355   PMID:30391930   PMID:31402556   PMID:32432733   PMID:32964964   PMID:37318197  


Genomics


Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 2q14.3-22.1(chr2:123445762-140592538)x1 copy number loss See cases [RCV000136714] Chr2:123445762..140592538 [GRCh38]
Chr2:124203338..141350107 [GRCh37]
Chr2:123919808..141066577 [NCBI36]
Chr2:2q14.3-22.1		 pathogenic
GRCh38/hg38 2q14.1-21.3(chr2:118086324-134964738)x1 copy number loss See cases [RCV000054058] Chr2:118086324..134964738 [GRCh38]
Chr2:118843900..135722308 [GRCh37]
Chr2:118560370..135438778 [NCBI36]
Chr2:2q14.1-21.3		 pathogenic
miRNA Target Status

Predicted Targets
Summary Value
Count of predictions:28576
Count of gene targets:9802
Count of transcripts:19624
Interacting mature miRNAs:hsa-miR-5590-3p, hsa-miR-5590-5p
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 exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage entire extraembryonic component
High
Medium 1
Low 9 2 52 46 48 46 10 2 13 39 27 19 2
Below cutoff 3 1 1

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000577826
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl2134,857,820 - 134,857,873 (+)Ensembl
RefSeq Acc Id: NR_049856
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh382134,857,820 - 134,857,873 (+)NCBI
GRCh372135,615,390 - 135,615,443 (+)NCBI
CHM1_12135,620,199 - 135,620,252 (+)NCBI
T2T-CHM13v2.02135,298,067 - 135,298,120 (+)NCBI
Sequence:

Additional Information

Database Acc Id Source(s)
COSMIC MIR5590 COSMIC
Ensembl Genes ENSG00000263783 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000577826 ENTREZGENE
GTEx ENSG00000263783 GTEx
HGNC ID HGNC:43541 ENTREZGENE
Human Proteome Map MIR5590 Human Proteome Map
miRBase MI0019150 ENTREZGENE
NCBI Gene MIR5590 ENTREZGENE
RNAcentral URS0000759C72 RNACentral
  URS000075D290 RNACentral
  URS000075E858 RNACentral