ABOUT THIS RECORDspecies: Arabidopsis thaliana
miRNA family: MIR397
source: miRBase, original name: ath-MIR397a (MI0001015)
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 TCATTGAGTGCAGCGTTGATG miRNA* CCAGCGTTGCGCTCAATTATG mismatches: 2 bulges: 0 |
pre-miRNA
TGAATGAACATCATTGAGTGCAGCGTTGATGTAATTTCGTTTTGTTTTTCATTGTTGAATGGATTAAAAGAATTTATACCAGCGTTGCGCTCAATTATGT
TTTTCTA
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, PCR, cloned, 454
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] Sunkar R, Zhu JK, Plant Cell. 16:2001-2019(2004)., "Novel and stress-regulated microRNAs and other small RNAs from Arabidopsis"
[3] 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"
[4] Xie Z, Allen E, Fahlgren N, Calamar A, Givan SA, Carrington JC, Plant Physiol. 138:2145-2154(2005)., "Expression of Arabidopsis MIRNA genes"
[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"
TGAATGAACATCATTGAGTGCAGCGTTGATGTAATTTCGTTTTGTTTTTCATTGTTGAATGGATTAAAAGAATTTATACCAGCGTTGCGCTCAATTATGT
TTTTCTA
dot-bracket secondary structure
.(((.((((((.((((((((((((((((.(((((.(((.(((((...((((((....)))))).)))))))).))))).)))))))))))))))).))))
)))))..
SIMILARITIES| miRBase aly-MIR397a: 2e-39 PMRD ath-miR397a: 4e-56 microPC miR397: 0.00008 | UniProt no hits RFAM MIR397: 1e-53 |
Identical with: ath-miR397a from PMRD (MNEST047010) |
MOREmiRNEST target predictions: none
non-miRNEST targets
HuntMi prediction: true miRNA
additional data
degradome data
download this record
evidence: 5'RACE, PCR, cloned, 454
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] Sunkar R, Zhu JK, Plant Cell. 16:2001-2019(2004)., "Novel and stress-regulated microRNAs and other small RNAs from Arabidopsis"
[3] 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"
[4] Xie Z, Allen E, Fahlgren N, Calamar A, Givan SA, Carrington JC, Plant Physiol. 138:2145-2154(2005)., "Expression of Arabidopsis MIRNA genes"
[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"
