Stem-loop sequence ath-MIR169c

Accession

MI0000977 (change log)

Description

Arabidopsis thaliana miR169c stem-loop

Gene family

MIPF0000037; MIR169_2

Literature search

34 open access papers mention ath-MIR169c
(157 sentences)

Stem-loop

   ucguccauuaugaguauuaauuaugguuagggaaucuuacagaaugaaaaugaaggugugaauggauu  c     ua      u     -u     aa    cauu     uc     a              --       uauuaugauuacucuauauucgauuuauauuauggagaugaugguuuauauauauuuacuuaucuacauaguuuuag 
5'                                                                     gu ucauc  aagccu gaaug  gggaa  aggc    guugu  agcca ggaugacuugccgg  uagcuug                                                                             u
                                                                       || |||||  |||||| |||||  |||||  ||||    |||||  ||||| ||||||||||||||  |||||||                                                                              
3'                                                                     ca aguag  uucgga cuuac  uccuu  ucug    caacg  ucggu ucuacugaacggcc  aucgaac                                                                             u
   ------------------------aguagguauaaguauaguauaaucacuauaaacccuaaaaaaug  c     ca      u     uc     -c    ---u     ua     a              cg       caaugugaagaacgggguuguguguauauauuuauucauuuaugaaaaagcauaauauaaugcaugcuuuuuuuuag 

Confidence

Annotation confidence: not enough data

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Comments

This sequence is a predicted paralogue of the previously identified miR169 family [1], later experimentally verified [2]. It is predicted to target mRNAs coding for the CCAAT Binding Factor (CBF) and HAP2-like transcription factors.

Genome context

• Coordinates (TAIR10; GCA_000001735.1): chr5: 15870590-15871000 [-]
• Overlapping transcripts:

  intergenic

Database links

• RNAcentral:URS0000130A6B_3702
• miRBase Tracker:MI0000977

Mature sequence ath-miR169c

• Accession: MIMAT0000907
• Sequence: 113 - cagccaaggaugacuugccgg - 133
• Evidence: experimental; 5'RACE [2], cloned [2], 454 [3-4], MPSS [3], Illumina [5]

References

1. PMID:15200956 "Computational identification of plant microRNAs and their targets, including a stress-induced miRNA" Jones-Rhoades MW, Bartel DP Mol Cell. 14:787-799(2004).
2. PMID:16040653 "Expression of Arabidopsis MIRNA genes" Xie Z, Allen E, Fahlgren N, Calamar A, Givan SA, Carrington JC Plant Physiol. 138:2145-2154(2005).
3. PMID: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. 16:1276-1288(2006).
4. PMID:17182867 "A diverse and evolutionarily fluid set of microRNAs in Arabidopsis thaliana" Rajagopalan R, Vaucheret H, Trejo J, Bartel DP Genes Dev. 20:3407-3425(2006).
5. PMID: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. 61:165-177(2010).