ABOUT THIS RECORDspecies: Arabidopsis thaliana
miRNA family: MIR393
source: miRBase, original name: ath-MIR393a (MI0001003)
Taxonomy by NCBI:
Arabidopsis thaliana Arabidopsis Brassicaceae Brassicales malvids rosids core eudicotyledons eudicotyledons Magnoliophyta Spermatophyta Euphyllophyta Tracheophyta Embryophyta Streptophytina Streptophyta Viridiplantae Eukaryota cellular organisms
SEQUENCE & STRUCTURE| miRNA TCCAAAGGGATCGCATTGATCC miRNA* ATCATGCTATCTCTTTGGATT mismatches: 1 bulges: 1 |
pre-miRNA
AGAGGAAGGATCCAAAGGGATCGCATTGATCCTAATTAAGGTGAATTCTCCCCATATTTTCTTTATAATTGGCAAATAAATCACAAAAATTTGCTTGGTT
TTGGATCATGCTATCTCTTTGGATTCATCCTTC
dot-bracket secondary structure
.(((((.((((((((((((((.((((.(((((.(((((.((.((....)).)).................(((((((...........))))))))))))
..))))))))).)))))))))))))).))))).
SIMILARITIES
MORE
miRNEST target predictions: none
non-miRNEST targets
HuntMi prediction: true miRNA
additional data
degradome data
download this record
evidence: 5'RACE, Northern, PCR, cloned
deep sequencing data evidence
references
[1] Rajagopalan R, Vaucheret H, Trejo J, Bartel DP, Genes Dev. 20:3407-3425(2006)., "A diverse and evolutionarily fluid set of microRNAs in Arabidopsis thaliana"
[2] Wang XJ, Reyes JL, Chua NH, Gaasterland T, Genome Biol. 5:R65(2004)., "Prediction and identification of Arabidopsis thaliana microRNAs and their mRNA targets"
[3] Sunkar R, Zhu JK, Plant Cell. 16:2001-2019(2004)., "Novel and stress-regulated microRNAs and other small RNAs from Arabidopsis"
[4] Lu C, Kulkarni K, Souret FF, MuthuValliappan R, Tej SS, Poethig RS, Henderson IR, Jacobsen SE, Wang W, Green PJ, Meyers BC, Genome Res. 16:1276-1288(2006)., "MicroRNAs and other small RNAs enriched in the Arabidopsis RNA-dependent RNA polymerase-2 mutant"
[5] Jones-Rhoades MW, Bartel DP, Mol Cell. 14:787-799(2004)., "Computational identification of plant microRNAs and their targets, including a stress-induced miRNA"
AGAGGAAGGATCCAAAGGGATCGCATTGATCCTAATTAAGGTGAATTCTCCCCATATTTTCTTTATAATTGGCAAATAAATCACAAAAATTTGCTTGGTT
TTGGATCATGCTATCTCTTTGGATTCATCCTTC
dot-bracket secondary structure
.(((((.((((((((((((((.((((.(((((.(((((.((.((....)).)).................(((((((...........))))))))))))
..))))))))).)))))))))))))).))))).
SIMILARITIES| miRBase aly-MIR393a: 4e-50 PMRD ath-miR393a: 1e-71 microPC miR393: 0.000006 | UniProt no hits RFAM no hits |
Identical with: ath-miR393a from PMRD (MNEST046998) |
MOREmiRNEST target predictions: none
non-miRNEST targets
HuntMi prediction: true miRNA
additional data
degradome data
download this record
evidence: 5'RACE, Northern, PCR, cloned
deep sequencing data evidence
references
[1] Rajagopalan R, Vaucheret H, Trejo J, Bartel DP, Genes Dev. 20:3407-3425(2006)., "A diverse and evolutionarily fluid set of microRNAs in Arabidopsis thaliana"
[2] Wang XJ, Reyes JL, Chua NH, Gaasterland T, Genome Biol. 5:R65(2004)., "Prediction and identification of Arabidopsis thaliana microRNAs and their mRNA targets"
[3] Sunkar R, Zhu JK, Plant Cell. 16:2001-2019(2004)., "Novel and stress-regulated microRNAs and other small RNAs from Arabidopsis"
[4] Lu C, Kulkarni K, Souret FF, MuthuValliappan R, Tej SS, Poethig RS, Henderson IR, Jacobsen SE, Wang W, Green PJ, Meyers BC, Genome Res. 16:1276-1288(2006)., "MicroRNAs and other small RNAs enriched in the Arabidopsis RNA-dependent RNA polymerase-2 mutant"
[5] Jones-Rhoades MW, Bartel DP, Mol Cell. 14:787-799(2004)., "Computational identification of plant microRNAs and their targets, including a stress-induced miRNA"
