Stem-loop ptc-MIR398a

Accession

MI0002335

Description

Populus trichocarpa ptc-MIR398a precursor miRNA

Literature search

6 open access papers mention ptc-MIR398a
(15 sentences)

Sequence

209 reads, 4.0 reads per million, 9 experiments

guacaccccagaGGAGUGGCUCCAGAGAACACAGGggguugguuuucuagcuguaagcuacaagauggacaaagcacucUGUGUUCUCAGGUCACCCCUUuggggcacc
.....(((((((((.((((((...((((((((((((((((.(((((.(((((...))))).))))).)))....).)))))))))))).)))))).)))))))))....

Structure

guaca         A      CCA            - ----   g     c     g 
     ccccagaGG GUGGCU   GAGAACACAGGg g    guu guuuu uagcu  
     ||||||||| ||||||   |||||||||||| |    ||| ||||| ||||| u
     gggguUUCC CACUGG   CUCUUGUGUcuc c    cag uagaa aucga  
-ccac         C      --A            a gaaa   g     c     a 

Annotation confidence Medium

Genome context

CM000346.2: 15683184-15683292 [+]

Mature ptc-miR398a-5p

• Accession: MIMAT0055640
• Description: Populus trichocarpa ptc-miR398a-5p mature miRNA
• Sequence: 13 - GGAGUGGCUCCAGAGAACACAGG - 35
• Evidence: experimental ; unknown

Mature ptc-miR398a-3p

• Accession: MIMAT0002041
• Description: Populus trichocarpa ptc-miR398a-3p mature miRNA
• Sequence: 80 - UGUGUUCUCAGGUCACCCCUU - 100
• Evidence: not_experimental

References

1. PubMed ID: 16973872
   The genome of black cottonwood, Populus trichocarpa (Torr. & Gray)
   "Tuskan GA, Difazio S, Jansson S, Bohlmann J, Grigoriev I, Hellsten U, Putnam N, Ralph S, Rombauts S, Salamov A, Schein J, Sterck L, Aerts A, Bhalerao RR, Bhalerao RP, Blaudez D, Boerjan W, Brun A, Brunner A, Busov V, Campbell M, Carlson J, Chalot M, Chapm"
   "Science (2006) 313:1596-1604