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Species belonging to selected taxon:

Arabidopsis thaliana



ABOUT THIS RECORD

ID: MNEST040078
species: Arabidopsis thaliana
miRNA family: MIR394
source: miRBase, original name: ath-MIR394b (MI0001006)

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
TTGGCATTCTGTCCACCTCC

miRNA*
AGGTGGGCATACTGCCAATA

mismatches: 2
bulges: 0

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pre-miRNA
CTTACAGAGATCTTTGGCATTCTGTCCACCTCCTCTCTCTATATTTATGTGTAATAAGTGTACGTATCTACGGTGTGTTTCGTAAGAGGAGGTGGGCATA
CTGCCAATA
GAGATCTGTTAG


dot-bracket secondary structure
((.(((((..(((((((((.(.(((((((((((((....(((((((((.....)))))))))......(((((......))))).))))))))))))).)
.)))))).)
))..))))).))



SIMILARITIES
miRBase aly-MIR394b: 4e-19

PMRD ath-miR394b: 2e-64

microPC miR394: 0.0004
UniProt no hits

RFAM MIR394: 3e-63

Identical with: ath-miR394b from PMRD (MNEST047001)

MORE

miRNEST target predictions: none
non-miRNEST targets
HuntMi prediction: true miRNA
additional data
degradome data
download this record
evidence: 5'RACE, Northern, PCR, 454
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] 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"




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