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Species belonging to selected taxon:

Arabidopsis thaliana



ABOUT THIS RECORD

ID: MNEST040062
species: Arabidopsis thaliana
miRNA family: MIR171
source: miRBase, original name: ath-MIR171c (MI0000990)

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
TTGAGCCGTGCCAATATCACG

miRNA*
CTATCGGACATCAAATACGAGATATTGGTGCGGTTCAATC

mismatches: 4
bulges: 0

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pre-miRNA
TGAGCGCACTATCGGACATCAAATACGAGATATTGGTGCGGTTCAATCAGAAAACCGTACTCTTTTGTTTTAAAGATCGGTTTATTTGATTGAGCCGTGC
CAATATCACG
CGTTTA


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



SIMILARITIES
miRBase aly-MIR171c: 4e-44

PMRD ath-miR171c: 2e-61

microPC miR171: 0.00000009
UniProt no hits

RFAM MIR171_1: 2e-49

Identical with: ath-miR171c from PMRD (MNEST046979)

MORE

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




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