Stem-loop ath-MIR167d

Accession

MI0000975

Description

Arabidopsis thaliana ath-MIR167d precursor miRNA

Literature search

43 open access papers mention ath-MIR167d
(204 sentences)

Sequence

1690908 reads, 5422.0 reads per million, 185 experiments

uguugguuuuuagaagcUGAAGCUGCCAGCAUGAUCUGGuaaucgcuacauacgacauacacacaucacuaaacuucuuuauaauuuaugcacacacauacagcucuuaauggccacaacucaaaguuauaauuagugcaugaucucuaguuauuugacugcuuuuaauauauguuuauggauucacgcauguguguguauguacauaauuuacaugcaugcacuuuguguaugguacacaucaauuugaacccguucaaaauucuguuuuuauuaguauauauauagauguauguggugugugugucaguguguguguguguuuauagauaguaguacuAGGUCAUCCUGCAGCUUCAGucacuaaaucaccaaca
(((((((.(((((..(((((((((((.((.(((((((((((...((((..((.((((((((((((.((((................(((((((((((((((((((......)))..........((((((((((((.(......).))))))))..))))((......((((....)))).......))..(((((((((((((.......)))))))))))))..((((((...))))))....((((((....))))))..(((((...(((....)))...)))))))))))).)))))))))..))))))))))))))))..))..))))..))))))))))).)))))))))))))..)))))..)))))))

Structure

       -u     aa           C  C           auc    ca  -c            u    aaacuucuuuauaauu         -       -----------------------------------------------------------------------------------------------------------gcucuuaauggccacaacucaa    --        u ca 
uguuggu  uuuag  gcUGAAGCUGC AG AUGAUCUGGua   gcua  ua  gacauacacaca cacu                uaugcacac acauaca                                                                                                                                 aguu  auaauuag g  u
|||||||  |||||  ||||||||||| || |||||||||||   ||||  ||  |||||||||||| ||||                ||||||||| |||||||                                                                                                                                 ||||  |||||||| |   
acaacca  aaauc  uGACUUCGACG UC UACUGGAucau   ugau  au  uugugugugugu guga                gugugugug uguaugu                                                                                                                                 ucag  uauugauc c  g
       cu     ac           -  C           -ga    ag  au            -    --------------cu         g       agauauauauaugauuauuuuugucuuaaaacuugcccaaguuuaacuacacaugguauguguuucacguacguacauuuaauacauguauguguguguacgcacuuagguauuuguauauaauuuucg    uu        u ua 

Annotation confidence High

Comments

This sequence is a predicted paralogue of the previously identified miR167 family [1], later experimentally verified [2]. It is predicted to target mRNAs coding for Auxin Response Factors (ARF transcription factors).

Genome context

chr1: 11137539-11137915 [+]

Mature ath-miR167d-5p

• Accession: MIMAT0000905
• Description: Arabidopsis thaliana ath-miR167d-5p mature miRNA
• Sequence: 18 - UGAAGCUGCCAGCAUGAUCUGG - 39
• Evidence: experimental ; cloned [2], 454 [3-4], MPSS [3], Illumina [5]

Mature ath-miR167d-3p

• Accession: MIMAT0053807
• Description: Arabidopsis thaliana ath-miR167d-3p mature miRNA
• Sequence: 341 - AGGUCAUCCUGCAGCUUCAG - 360
• Evidence: experimental ; unknown

References

1. PubMed ID: 16040653
   Expression of Arabidopsis MIRNA genes
   "Xie Z, Allen E, Fahlgren N, Calamar A, Givan SA, Carrington JC"
   "Plant Physiol (2005) 138:2145-2154


2. PubMed ID: 16954541
   MicroRNAs and other small RNAs enriched in the Arabidopsis RNA-dependent RNA polymerase-2 mutant
   "Lu C, Kulkarni K, Souret FF, MuthuValliappan R, Tej SS, Poethig RS, Henderson IR, Jacobsen SE, Wang W, Green PJ, Meyers BC"
   "Genome Res (2006) 16:1276-1288


3. PubMed ID: 17182867
   A diverse and evolutionarily fluid set of microRNAs in Arabidopsis thaliana
   "Rajagopalan R, Vaucheret H, Trejo J, Bartel DP"
   "Genes Dev (2006) 20:3407-3425


4. PubMed ID: 19815687
   Hypoxia-responsive microRNAs and trans-acting small interfering RNAs in Arabidopsis
   "Moldovan D, Spriggs A, Yang J, Pogson BJ, Dennis ES, Wilson IW"
   "J Exp Bot (2010) 61:165-177


5. PubMed ID: 15200956
   Computational identification of plant microRNAs and their targets, including a stress-induced miRNA
   "Jones-Rhoades MW, Bartel DP"
   "Mol Cell (2004) 14:787-799