| HGNC Family | Non-coding RNAs |
| Name | microRNA 539 |
| 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] |
| Summary |
{"type": "root", "children": [{"type": "p", "children": [{"type": "t", "text": "\nmiR-539 has emerged as a potent tumor‐suppressive microRNA in a broad spectrum of cancers. In thyroid, osteosarcoma, hepatocellular, breast, nasopharyngeal, prostate, pancreatic, colorectal, renal, Wilms’ tumor, epithelial ovarian cancer, B‐cell acute lymphoblastic leukemia, and even in melanoma models, miR-539 is frequently downregulated, and its reduced expression correlates with increased cell proliferation, migration, invasion, epithelial–mesenchymal transition, and overall tumor progression. Mechanistic studies have shown that miR-539 exerts its suppressive functions by directly targeting key oncogenic regulators – for example, modulating molecules including CARMA1 in thyroid cancer; MMP8 in osteosarcoma; FSCN1 and MAP2K1 in hepatocellular carcinoma; EGFR and SP1 in breast cancer; CDK4 in nasopharyngeal carcinoma; TWIST1, SP1, or IGF-1R in pancreatic cancer; DLX1 in prostate cancer; CDK6 and SOX5 in colorectal and gastric cancers; and HMGA2 in renal cell carcinoma. Furthermore, in several settings, long noncoding RNAs such as LOC100129148, CASC21, TP73-AS1, and others have been found to sponge miR-539, thereby releasing its targets and promoting oncogenic pathways."}, {"type": "fg", "children": [{"type": "fg_fs", "start_ref": "1", "end_ref": "22"}]}, {"type": "t", "text": "\n"}]}, {"type": "t", "text": "\n\n"}, {"type": "p", "children": [{"type": "t", "text": "\nBeyond its critical role in cancer, miR-539 participates in several non-malignant cellular processes. In cardiomyocytes, for example, miR-539 targets the mRNA of O-GlcNAcase (OGA), thereby modulating O-GlcNAcylation dynamics that are implicated in heart failure. In ocular tissues, its overexpression has been shown to inhibit experimental choroidal neovascularization through downregulation of CXCR7, while in colon cells, miR-539 attenuates iron influx by targeting the iron-ion transporter SLC11A2. miR-539 also regulates biotin metabolism by suppressing holocarboxylase synthetase (HCS) expression, and in the context of Alzheimer’s disease, enhanced miR-539 levels exert neuroprotective effects by directly targeting APP, caveolin-1, and GSK-3β – thereby reducing amyloid-β accumulation, tau phosphorylation, oxidative stress, and neuronal apoptosis."}, {"type": "fg", "children": [{"type": "fg_fs", "start_ref": "23", "end_ref": "28"}]}, {"type": "t", "text": "\n"}]}, {"type": "t", "text": "\n\n"}, {"type": "p", "children": [{"type": "t", "text": "\nCollectively, these studies underscore that miR-539 is a multifaceted regulatory RNA whose downregulation is frequently associated with the progression of diverse malignancies—through loss of repression of pivotal oncogenes and cell cycle regulators—while its appropriate expression is fundamental for maintaining normal cellular functions in metabolic, vascular, and neurodegenerative contexts. The diverse molecular interactions of miR-539 not only highlight its potential as a diagnostic and prognostic biomarker across diseases but also point to novel therapeutic avenues to restore its function in pathological states.\n"}]}, {"type": "rg", "children": [{"type": "r", "ref": 1, "children": [{"type": "t", "text": "Lixue Gu, Weiming Sun "}, {"type": "b", "children": [{"type": "t", "text": "MiR-539 inhibits thyroid cancer cell migration and invasion by directly targeting CARMA1."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Biochem Biophys Res Commun (2015)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1016/j.bbrc.2015.07.090"}], "href": "https://doi.org/10.1016/j.bbrc.2015.07.090"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "26206083"}], "href": "https://pubmed.ncbi.nlm.nih.gov/26206083"}]}, {"type": "r", "ref": 2, "children": [{"type": "t", "text": "Y Wang, Z Ou, Y Sun, et al. 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| Synonyms | MIR-539, MIRN539, HSA-MIR-539 |
| NCBI Gene ID | 664612 |
| API | |
| Download Associations | |
| Predicted Functions |
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| Co-expressed Genes |
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| Expression in Tissues and Cell Lines |
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MIR539 has 246 functional associations with biological entities spanning 5 categories (molecular profile, disease, phenotype or trait, functional term, phrase or reference, cell line, cell type or tissue, gene, protein or microRNA) extracted from 12 datasets.
Click the + buttons to view associations for MIR539 from the datasets below.
If available, associations are ranked by standardized value
| Dataset | Summary | |
|---|---|---|
| CCLE Cell Line Gene CNV Profiles | cell lines with high or low copy number of MIR539 gene relative to other cell lines from the CCLE Cell Line Gene CNV Profiles dataset. | |
| COSMIC Cell Line Gene CNV Profiles | cell lines with high or low copy number of MIR539 gene relative to other cell lines from the COSMIC Cell Line Gene CNV Profiles dataset. | |
| CTD Gene-Disease Associations | diseases associated with MIR539 gene/protein from the curated CTD Gene-Disease Associations dataset. | |
| ENCODE Histone Modification Site Profiles | histone modification site profiles with high histone modification abundance at MIR539 gene from the ENCODE Histone Modification Site Profiles dataset. | |
| ENCODE Transcription Factor Binding Site Profiles | transcription factor binding site profiles with transcription factor binding evidence at the promoter of MIR539 gene from the ENCODE Transcription Factor Binding Site Profiles dataset. | |
| ENCODE Transcription Factor Targets | transcription factors binding the promoter of MIR539 gene in ChIP-seq datasets from the ENCODE Transcription Factor Targets dataset. | |
| GeneRIF Biological Term Annotations | biological terms co-occuring with MIR539 gene in literature-supported statements describing functions of genes from the GeneRIF Biological Term Annotations dataset. | |
| GeneSigDB Published Gene Signatures | PubMedIDs of publications reporting gene signatures containing MIR539 from the GeneSigDB Published Gene Signatures dataset. | |
| JASPAR Predicted Transcription Factor Targets | transcription factors regulating expression of MIR539 gene predicted using known transcription factor binding site motifs from the JASPAR Predicted Transcription Factor Targets dataset. | |
| Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles | cell lines with high or low copy number of MIR539 gene relative to other cell lines from the Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles dataset. | |
| MotifMap Predicted Transcription Factor Targets | transcription factors regulating expression of MIR539 gene predicted using known transcription factor binding site motifs from the MotifMap Predicted Transcription Factor Targets dataset. | |
| Roadmap Epigenomics Histone Modification Site Profiles | histone modification site profiles with high histone modification abundance at MIR539 gene from the Roadmap Epigenomics Histone Modification Site Profiles dataset. | |