Free for academic non-profit institutions. Other users need a Commercial license

Aliases for MIR539 Gene

Subcategory (RNA class) for MIR539 Gene


Quality Score for this RNA gene is


Aliases for MIR539 Gene

  • MicroRNA 539 2 3 5
  • Hsa-Mir-539 3
  • Mir-539 3
  • MIRN539 3

External Ids for MIR539 Gene

ORGUL Members for MIR539 Gene

Previous HGNC Symbols for MIR539 Gene

  • MIRN539

Previous GeneCards Identifiers for MIR539 Gene

  • GC14P100826
  • GC14P100916
  • GC14P101517
  • GC14P101546
  • GC14P101580
  • GC14P101620
  • GC14P101648
  • GC14P101681
  • GC14P101719
  • GC14P101761
  • GC14P101819
  • GC14P101959
  • GC14P102156
  • GC14P101258
  • GC14P101868
  • GC14P102188
  • GC14P102357

Summaries for MIR539 Gene

Entrez Gene Summary for MIR539 Gene

  • 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]

GeneCards Summary for MIR539 Gene

MIR539 (MicroRNA 539) is an RNA Gene, and is affiliated with the miRNA class.

No data available for UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for MIR539 Gene

Genomics for MIR539 Gene

Regulatory Elements for MIR539 Gene

Enhancers for MIR539 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH14F101008 1 ENCODE 10.9 -38.6 -38623 0.2 ZNF263 KDM1A MIR487A MIR134 MIR323B MIR485 MIR154 MIR377 MIR496 MIR1185-1 MIR300 MIR376C
GH14F101004 1.2 Ensembl ENCODE 10.9 -42.0 -42046 2.3 GATA3 MAX MNT ZIC2 MYC TCF7L2 MIR134 MIR487A MIR154 MIR323B MIR485 MIR377 MIR496 MIR376C MIR654 MIR1185-1
GH14F101096 0.8 FANTOM5 ENCODE 10.7 +51.0 51027 3.2 CTCF SUZ12 JUN ZIC2 ZNF335 GLIS2 ZNF366 POLR2A SCRT2 PATZ1 RTL1 LOC105370670 MEG9 MIR369 MIR409 MIR410 MIR412 MIR541 MIR656 MIR154
GH14F101215 0.7 ENCODE 9.9 +169.4 169404 2.8 HDGF ARID4B ZNF48 GATA2 SSRP1 ZNF658 ETV4 HNF4A KDM1A ZNF785 MIR6764 SNORD113-4 SNORD113-3 SNORD113-6 SNORD113-7 SNORD113-8 SNORD113-9 MIR543 ENSG00000222185 ENSG00000222095
GH14F101286 0.2 ENCODE 9.4 +239.5 239498 0.2 GATAD2A SOX5 FOXA3 MEG3 MIR539 MIR544A MIR655 MIR889 MIR300 MIR376C MIR654 MIR1185-1 MIR1185-2
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around MIR539 on UCSC Golden Path with GeneCards custom track

Genomic Location for MIR539 Gene

101,047,321 bp from pter
101,047,398 bp from pter
78 bases
Plus strand

Genomic View for MIR539 Gene

Genes around MIR539 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
MIR539 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for MIR539 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for MIR539 Gene

Proteins for MIR539 Gene

Post-translational modifications for MIR539 Gene

No Post-translational modifications

No data available for DME Specific Peptides for MIR539 Gene

Domains & Families for MIR539 Gene

Gene Families for MIR539 Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with MIR539: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for MIR539 Gene

Function for MIR539 Gene

Animal Model Products

miRNA Products

Clone Products

Flow Cytometry Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Phenotypes , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for MIR539 Gene

Localization for MIR539 Gene

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from COMPARTMENTS and Gene Ontology (GO) - Cellular Components for MIR539 Gene

Pathways & Interactions for MIR539 Gene

SuperPathways for MIR539 Gene

No Data Available

Interacting Proteins for MIR539 Gene

Gene Ontology (GO) - Biological Process for MIR539 Gene


No data available for Pathways by source and SIGNOR curated interactions for MIR539 Gene

Transcripts for MIR539 Gene

mRNA/cDNA for MIR539 Gene

(1) Ensembl transcripts including schematic representations, and UCSC links where relevant :

miRNA Products

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for MIR539 Gene

No ASD Table

Relevant External Links for MIR539 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for MIR539 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for MIR539 Gene

NURSA nuclear receptor signaling pathways regulating expression of MIR539 Gene:

genes like me logo Genes that share expression patterns with MIR539: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners and mRNA Expression by UniProt/SwissProt for MIR539 Gene

Orthologs for MIR539 Gene

This gene was present in the common ancestor of mammals.

Orthologs for MIR539 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia ptr-mir-539 35
  • 100 (a)
(Bos Taurus)
Mammalia bta-mir-539 35
  • 96 (a)
(Canis familiaris)
Mammalia cfa-mir-539 35
  • 95 (a)
(Mus musculus)
Mammalia Mir539 35
  • 92 (a)
Species where no ortholog for MIR539 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for MIR539 Gene

Gene Tree for MIR539 (if available)
Gene Tree for MIR539 (if available)

Paralogs for MIR539 Gene

No data available for Paralogs for MIR539 Gene

Variants for MIR539 Gene

Sequence variations from dbSNP and Humsavar for MIR539 Gene

SNP ID Clin Chr 14 pos Sequence Context AA Info Type
rs10083405 -- 101,046,163(+) GGGAC(A/G)TCCCC intron-variant, downstream-variant-500B, upstream-variant-2KB
rs10083406 -- 101,046,243(+) GCGGG(A/C)AGTCA intron-variant, downstream-variant-500B, upstream-variant-2KB
rs10137065 -- 101,045,845(+) TCCCC(C/T)GCCAG intron-variant, upstream-variant-2KB
rs10140057 -- 101,046,637(+) TGCCC(A/G)TTGTC intron-variant, downstream-variant-500B, upstream-variant-2KB
rs10140571 -- 101,046,958(+) CTCTT(A/G)ATGCT intron-variant, downstream-variant-500B, upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for MIR539 Gene

Variant ID Type Subtype PubMed ID
esv3635521 CNV gain 21293372
nsv1040993 CNV gain 25217958
nsv565859 CNV gain 21841781
nsv565860 CNV gain 21841781

Relevant External Links for MIR539 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for MIR539 Gene

Disorders for MIR539 Gene

Relevant External Links for MIR539

Atlas of Genetics and Cytogenetics in Oncology and Haematology:

No disorders were found for MIR539 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for MIR539 Gene

Publications for MIR539 Gene

  1. miR-539 inhibits prostate cancer progression by directly targeting SPAG5. (PMID: 27037000) Zhang H. … Xu Y. (J. Exp. Clin. Cancer Res. 2016) 3 64
  2. MiR-539 inhibits thyroid cancer cell migration and invasion by directly targeting CARMA1. (PMID: 26206083) Gu L. … Sun W. (Biochem. Biophys. Res. Commun. 2015) 3 64
  3. MicroRNA-539 suppresses osteosarcoma cell invasion and migration in vitro and targeting Matrix metallopeptidase-8. (PMID: 26339374) Jin H. … Wang W. (Int J Clin Exp Pathol 2015) 3 64
  4. miR-539 induces cell cycle arrest in nasopharyngeal carcinoma by targeting cyclin-dependent kinase 4. (PMID: 26559153) Lv L.Y. … Wang X.J. (Cell Biochem. Funct. 2015) 3 64
  5. MicroRNA-539 is up-regulated in failing heart, and suppresses O-GlcNAcase expression. (PMID: 25183011) Muthusamy S. … Jones S.P. (J. Biol. Chem. 2014) 3 64

Products for MIR539 Gene

Sources for MIR539 Gene

Loading form....