Stem-loop ath-MIR842

Accession

MI0005398

Description

Arabidopsis thaliana ath-MIR842 precursor miRNA MIR842

Gene
family

RF03461; MIR842

Literature search

5 open access papers mention ath-MIR842
(10 sentences)

Sequence

29629 reads, 156.0 reads per million, 171 experiments

caguaccguucagggugacagaaacauuuucgaaaagagaggcuauaagcggGAUGAUGAAUCCGACCAUGAUgguguugcagaaauuuauguaugauguaguuauuguccagggaucgaaacaccaUCAUGGUCAGAUCCGUCAUCCCAcuuauguuuucuuaggucaacaaauauggacaauugaaaagugaagcuc
...((((......))))......((.(((((((...((((((.((((((.(((((((((.(((.(((((((((((((((...((..(((.((.((((((....)))))).)).)))))..))))))))))))))).))).))))))))).)))))).))))))..(((..........)))..))))))))).......

Structure

caguaccguucagggugacagaa  a       -----------------aaa      c      c         A   C               gca  aa   a  u      u 
                       ac uuuucga                    gagagg uauaag ggGAUGAUG AUC GACCAUGAUgguguu   ga  uuu ug augaug a
                       || |||||||                    |||||| |||||| ||||||||| ||| |||||||||||||||   ||  ||| || ||||||  
                       ug aaaaguu                    uucuuu guauuc CCCUACUGC UAG CUGGUACUaccacaa   cu  agg ac uguuau g
----------------cucgaag  -       aacagguauaaacaacugga      u      A         C   A               -ag  --   g  c      u 

Annotation confidence High

Genome context

chr1: 22577067-22577265 [+]

Clustered miRNAs

1 other miRNA is < 10 kb from ath-MIR842

Mature ath-miR842-5p

• Accession: MIMAT0053869
• Description: Arabidopsis thaliana ath-miR842-5p mature miRNA
• Sequence: 53 - GAUGAUGAAUCCGACCAUGAU - 73
• Evidence: experimental ; unknown

Mature ath-miR842-3p

• Accession: MIMAT0004264
• Description: Arabidopsis thaliana ath-miR842-3p mature miRNA
• Sequence: 128 - UCAUGGUCAGAUCCGUCAUCCCA - 150
• Evidence: experimental ; 454 [1-2], cloned [2], Illumina [3]

References

1. 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


2. 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


3. PubMed ID: 17299599
   High-throughput sequencing of Arabidopsis microRNAs: evidence for frequent birth and death of MIRNA genes
   Fahlgren N, Howell MD, Kasschau KD, Chapman EJ, Sullivan CM, Cumbie JS, Givan SA, Law TF, Grant SR, Dangl JL, Carrington JC
   PLoS One (2007) 2:e219