miRNEST 2.0: an integrative microRNA resource miRNEST 2.0, an integrative microRNA resource :: Browse

Species belonging to selected taxon:

Arachis duranensis, Arachis hypogaea, Arachis ipaensis, Brassica napus, Brassica oleracea var. alboglabra, Brassica rapa, Citrus aurantium, Citrus reticulata, Citrus sinensis, Citrus unshiu, Cucumis melo subsp. melo, Eucalyptus globulus, Eucalyptus gunnii, Euonymus alatus, Euphorbia esula, Fagus sylvatica, Fragaria vesca, Fragaria x ananassa, Glycine soja, Glycyrrhiza uralensis, Gossypium arboreum, Gossypium hirsutum, Gossypium raimondii, Hevea brasiliensis, Humulus lupulus, Jatropha curcas, Juglans hindsii x Juglans regia, Limnanthes alba, Linum usitatissimum, Lotus japonicus, Manihot esculenta, Medicago sativa, Paullinia cupana var. sorbilis, Phaseolus acutifolius, Phaseolus coccineus, Pisum sativum, Populus deltoides, Populus euphratica, Populus nigra, Populus tremula, Populus tremula x Populus alba, Populus tremula x Populus tremuloides, Populus tremuloides, Populus trichocarpa x Populus nigra, Populus x canadensis, Prunus armeniaca, Prunus persica, Quercus petraea, Quercus robur, Raphanus raphanistrum, Raphanus raphanistrum subsp. landra, Raphanus raphanistrum subsp. maritimus, Raphanus sativus, Raphanus sativus var. oleiformis, Thellungiella halophila, Theobroma cacao, Trifolium pratense, Tropaeolum majus, Vitis shuttleworthii, Bruguiera gymnorhiza, Cajanus cajan, Carica papaya, Cicer arietinum, Citrus clementina, Glycine max, Arabidopsis thaliana, Vigna unguiculata, Vitis vinifera, Medicago truncatula, Brassica oleracea, Populus trichocarpa, Phaseolus vulgaris, Ricinus communis, Populus trichocarpa x Populus deltoides



ABOUT THIS RECORD

ID: MNEST040149
species: Arabidopsis thaliana
source: miRBase, original name: ath-MIR830 (MI0005386)

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
 TAACTATTTTGAGAAGAAGTG

miRNA*
 CCTCTTCTCCAAATAGTTTAGG

mismatches: 3
bulges: 1
View larger
pre-miRNA
 CAGAGTCTCGCTAGTGTCTTTACTAAACACAAAATCTGTAAACGCCTCGATCTCCTCTTCTCCAAATAGTTTAGGTTAGCTGACATATAATAATTCAATA
GACCCCAGTTTCTCCAGATAACCTAACTATTTTGAGAAGAAGTGAACGAAGAGCGATTACAAGTTAGGAGAGTGCTTGAATTTTGAAGAACATCG

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


SIMILARITIES
miRBase no hits

PMRD ath-miR830: 2e-108

microPC no hits		UniProt no hits

RFAM no hits

Identical with: ath-miR830 from PMRD (MNEST047062)

MORE

miRNEST target predictions: none
non-miRNEST targets
HuntMi prediction: not a miRNA
additional data
degradome data
download this record
evidence: 454, cloned, Solexa
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] Fahlgren N, Howell MD, Kasschau KD, Chapman EJ, Sullivan CM, Cumbie JS, Givan SA, Law TF, Grant SR, Dangl JL, Carrington JC, PLoS One. 2:e219(2007)., "High-throughput sequencing of Arabidopsis microRNAs: evidence for frequent birth and death of MIRNA genes"



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