miRBase entry: ath-MIR842

Stem-loop ath-MIR842


Accession
MI0005398
Description
Arabidopsis thaliana ath-MIR842 precursor miRNA
Gene family
MIPF0001158; MIR842

Literature search
3 open access papers mention ath-MIR842
(8 sentences)

Sequence

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 Not enough data
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Genome context
chr1: 22577067-22577265 [+]
Clustered miRNAs
1 other miRNA is < 10 kb from ath-MIR842
Name Accession Chromosome Start End Strand Confidence




Database links

Mature ath-miR842

Accession MIMAT0004264
Description Arabidopsis thaliana ath-miR842 mature miRNA
Sequence 128 - UCAUGGUCAGAUCCGUCAUCC - 148
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