ABOUT THIS RECORDspecies: Arabidopsis thaliana
miRNA family: MIR400
source: miRBase, original name: ath-MIR400 (MI0001069)
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 TATGAGAGTATTATAAGTCAC miRNA* GACTTATGATAATCTCATGAA mismatches: 1 bulges: 0 |
pre-miRNA
TGAGGATTGTTTATGAGAGTATTATAAGTCACTACATTTGGTAAGCAAAGTGTTGTTTCTCAAACGAAGTGACTTATGATAATCTCATGAATGGATTTTG
CA
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: cloned, Northern, 454, MPSS
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] Moldovan D, Spriggs A, Yang J, Pogson BJ, Dennis ES, Wilson IW, J Exp Bot. 61:165-177(2010)., "Hypoxia-responsive microRNAs and trans-acting small interfering RNAs in Arabidopsis"
[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"
TGAGGATTGTTTATGAGAGTATTATAAGTCACTACATTTGGTAAGCAAAGTGTTGTTTCTCAAACGAAGTGACTTATGATAATCTCATGAATGGATTTTG
CA
dot-bracket secondary structure
.((((.(..(((((((((.((((((((((((((.(.((((..((((((....))))))..)))).).)))))))))))))).)))))))))..).)))).
..
SIMILARITIES| miRBase aly-MIR400: 5e-37 PMRD ath-miR400: 4e-53 microPC miR400: 0.0000000000003 | UniProt no hits RFAM no hits |
Identical with: ath-miR400 from PMRD (MNEST047021) |
MOREmiRNEST target predictions: none
non-miRNEST targets
HuntMi prediction: true miRNA
additional data
degradome data
download this record
evidence: cloned, Northern, 454, MPSS
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] Moldovan D, Spriggs A, Yang J, Pogson BJ, Dennis ES, Wilson IW, J Exp Bot. 61:165-177(2010)., "Hypoxia-responsive microRNAs and trans-acting small interfering RNAs in Arabidopsis"
[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"
