Stem-loop bdi-MIR319a

Accession

MI0018137

Description

Brachypodium distachyon bdi-MIR319a precursor miRNA

Literature search

2 open access papers mention bdi-MIR319a
(3 sentences)

Sequence

364197 reads, 2165.0 reads per million, 21 experiments

uuauagcagaaggaggaggagguauucauuUGAGGGAGCUUUCUUCUGUCCacccaugggagguagcggggauugaacgagcugccgacucauucacucgaacacacaguggauaacuggauaugcagacuaauccaaggcauaauaucuacuaguguggaauaauaucuacugugugaaugagcgaaugaagcgggagauuguucucucuuuccuccuccaugcuUGGACUGAAGGGAGCUCCCUCaccucucaucacuuucucccucuucuccuugau
....((.((((((.(((((((((.......((((((((((((((((.(((((..(((((.(((.((.(((((..((((((.((.(((..((((((.((((..(((((((((((((..(((((..........)))))..........(((((....)))))....)))))))))))))..)))).))))))..))).)).))))))..))))).))))))))))..))))).)))))))))))))))).........))))))))).)))))).))....

Structure

uuau  c      a         --auucauu                U     cc     g   u  c     uu      g  g   ac      a    aa             --------------------------ac     augc 
    ag agaagg ggaggaggu         UGAGGGAGCUUUCUUC GUCCa  caugg agg ag gggga  gaacga cu ccg  ucauuc cucg  cacacaguggaua                            uggau    a
    || |||||| |||||||||         |||||||||||||||| |||||  ||||| ||| || |||||  |||||| || |||  |||||| ||||  |||||||||||||                            |||||     
    uc ucuucu ccucuuuca         aCUCCCUCGAGGGAAG CAGGU  guacc ucc uc uuucu  cuuguu ga ggc  aguaag gagu  gugugucaucuau                            accua    g
uagu  c      c         cuacucucc                U     uc     -   -  c     cu      a  g   ga      c    aa             aauaaggugugaucaucuauaauacgga     auca 

Annotation confidence Medium

Genome context

4: 31253293-31253572 [+]

Clustered miRNAs

1 other miRNA is < 10 kb from bdi-MIR319a

Mature bdi-miR319a-5p

• Accession: MIMAT0020712
• Description: Brachypodium distachyon bdi-miR319a-5p mature miRNA
• Sequence: 31 - UGAGGGAGCUUUCUUCUGUCC - 51
• Evidence: experimental ; Illumina [1]

Mature bdi-miR319a-3p

• Accession: MIMAT0057007
• Description: Brachypodium distachyon bdi-miR319a-3p mature miRNA
• Sequence: 227 - UGGACUGAAGGGAGCUCCCUC - 247
• Evidence: experimental ; unknown

References

1. PubMed ID: 21371551
   Implementation of a de novo genome-wide computational approach for updating Brachypodium miRNAs
   "Baev V, Milev I, Naydenov M, Apostolova E, Minkov G, Minkov I, Yahubyan G"
   "Genomics (2011) 97:282-293


2. PubMed ID: 19772667
   Deep sequencing of Brachypodium small RNAs at the global genome level identifies microRNAs involved in cold stress response
   Zhang J, Xu Y, Huan Q, Chong K
   BMC Genomics (2009) 10:449