Stem-loop sequence ptc-MIR396a

Accession

MI0002325 (change log)

Description

Populus trichocarpa miR396a stem-loop

Gene family

MIPF0000047; MIR396

Literature search

6 open access papers mention ptc-MIR396a
(16 sentences)

Stem-loop

   cuug    uc            c          ccu  uu      ugu     -    ---     
5'     guau  uuccacagcuuu uugaacugca   au  gaauau   uguug augu   ugcc 
       ||||  |||||||||||| ||||||||||   ||  ||||||   ||||| ||||   ||| g
3'     caua  agggugucgaaa aacuuggcgu   ug  uuuaug   acagu uaca   acgu 
   --aa    ga            u          ---  uu      -uu     a    ugu     

Confidence

Annotation confidence: not enough data

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Genome context

• Coordinates (Poptr2_0; GCA_000002775.2): CM000342.2: 4636167-4636289 [+]
• Overlapping transcripts:

  intergenic

Clustered miRNAs

< 10kb from ptc-MIR396a

• ptc-MIR396a: CM000342.2: 4636167-4636289 [+]
• ptc-MIR396d: CM000342.2: 4642885-4643050 [-]

Database links

• RNAcentral:URS00007B8C17_3694
• miRBase Tracker:MI0002325

Mature sequence ptc-miR396a

• Accession: MIMAT0002031
• Sequence: 11 - uuccacagcuuucuugaacug - 31
• Evidence: by similarity; MI0001014

References

1. "Conservation and divergence of microRNA families in plants" Dezulian T, Palatnik JF, Huson DH, Weigel D http://genomebiology.com/2005/6/11/p13 (2005).
2. PMID: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. 313:1596-1604(2006).