Stem-loop sequence ptc-MIR477a

Accession

MI0002368 (change log)

Description

Populus trichocarpa miR477a stem-loop

Gene family

MIPF0000216; MIR477

Literature search

1 open access papers mention ptc-MIR477a
(1 sentences)

Stem-loop

                    u        -   --a    au   a 
5' caaucucccucagaggc uccaauau cuc   guuu  agu a
   ||||||||||||||||| |||||||| |||   ||||  |||  
3' guuagaggggguuuccg agguugua gag   uaaa  ucg u
                    u        a   caa    cu   u 

Confidence

Annotation confidence: not enough data

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Genome context

• Coordinates (Poptr2_0; GCA_000002775.2): CM000348.2: 11669997-11670081 [-]
• Overlapping transcripts:

  intergenic

Clustered miRNAs

< 10kb from ptc-MIR477a

• ptc-MIR477b: CM000348.2: 11674627-11674711 [-]
• ptc-MIR1446a: CM000348.2: 11674408-11674512 [-]
• ptc-MIR477a: CM000348.2: 11669997-11670081 [-]
• ptc-MIR1446b: CM000348.2: 11669781-11669883 [-]

Database links

• RNAcentral:URS000002EC5C_3694
• miRBase Tracker:MI0002368

Mature sequence ptc-miR477a-5p

• Accession: MIMAT0002074
• Previous IDs: ptc-miR477a
• Sequence: 3 - aucucccucagaggcuuccaa - 23
• Evidence: experimental; cloned [1], Northern [1], miRNAseq [2]

Mature sequence ptc-miR477a-3p

• Accession: MIMAT0022918
• Sequence: 65 - ggaugccuuugggggagauug - 85
• Evidence: experimental; miRNAseq [2]

References

1. PMID:15994906 "Novel and mechanical stress-responsive MicroRNAs in Populus trichocarpa that are absent from Arabidopsis" Lu S, Sun YH, Shi R, Clark C, Li L, Chiang VL Plant Cell. 17:2186-2203(2005).
2. PMID:22442676 "Deep annotation of Populus trichocarpa microRNAs from diverse tissue sets" Puzey JR, Karger A, Axtell M, Kramer EM PLoS One. 7:e33034(2012).