ABOUT THIS RECORDspecies: Arabidopsis thaliana
miRNA family: MIR399
source: miRBase, original name: ath-MIR399e (MI0001024)
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 TGCCAAAGGAGATTTGCCTCG miRNA* GGGCGAATCCTCTATTGGCAGT mismatches: 3 bulges: 1 |
pre-miRNA
GAAAGCATTACAGGGCGAATCCTCTATTGGCAGTGGAAGTTGATGACCCTTATATGTTATTTTCTCATCATTTTCCTCTGCCAAAGGAGATTTGCCTCGC
AATGCTTCA
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: PCR, MPSS, Solexa
references
[1] 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"
[2] 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"
[3] Jones-Rhoades MW, Bartel DP, Mol Cell. 14:787-799(2004)., "Computational identification of plant microRNAs and their targets, including a stress-induced miRNA"
GAAAGCATTACAGGGCGAATCCTCTATTGGCAGTGGAAGTTGATGACCCTTATATGTTATTTTCTCATCATTTTCCTCTGCCAAAGGAGATTTGCCTCGC
AATGCTTCA
dot-bracket secondary structure
(((.(((((.(..((((((((.(((.(((((((.(((((.((((((....((.....)).....)))))).))))).))))))).)))))))))))..).
)))))))).
SIMILARITIES| miRBase aly-MIR399e: 1e-28 PMRD ath-miR399e: 3e-57 microPC miR399: 0.00008 | UniProt no hits RFAM mir-399: 4e-56 |
Identical with: ath-miR399e from PMRD (MNEST047019) |
MOREmiRNEST target predictions: none
non-miRNEST targets
HuntMi prediction: true miRNA
additional data
degradome data
download this record
evidence: PCR, MPSS, Solexa
references
[1] 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"
[2] 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"
[3] Jones-Rhoades MW, Bartel DP, Mol Cell. 14:787-799(2004)., "Computational identification of plant microRNAs and their targets, including a stress-induced miRNA"
