Stem-loop sequence csi-MIR399a

Accession

MI0016712 (change log)

Description

Citrus sinensis miR399a stem-loop

Gene family

MIPF0000015; MIR399

Literature search

4 open access papers mention csi-MIR399a
(12 sentences)

Stem-loop

   cauugaggugcaugcaugcaguugcauauuaca      c      a        cu       u   acauccaucu     a 
5'                                  gggcaa aucucc uuggcagg  gcauacu auu          cauau u
                                    |||||| |||||| ||||||||  ||||||| |||          |||||  
3'                                  cccguu uagagg aaccgucu  cguguga uga          guaug a
   ----------uuuuauuuacgucuccuuaacgg      -      a        uc       c   ----cuucuu     c 

Confidence

Annotation confidence: not enough data

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Genome context

• Coordinates (Csi_valencia_1.0; GCA_000317415.1): chr2: 2292782-2292936 [+]
• Overlapping transcripts:

  intergenic

Clustered miRNAs

< 10kb from csi-MIR399a

• csi-MIR399a: chr2: 2292782-2292936 [+]
• csi-MIR399f: chr2: 2298474-2298644 [-]

Database links

• miRBase Tracker:MI0016712

Mature sequence csi-miR399a-5p

• Accession: MIMAT0037403
• Sequence: 34 - gggcaacaucuccauuggcagg - 55
• Evidence: experimental; Illumina [2]

Mature sequence csi-miR399a-3p

• Accession: MIMAT0018469
• Sequence: 114 - ugccaaaggagauuugcccgg - 134
• Evidence: experimental; Illumina [1-2]

References

1. PMID:20398412 "Discovery and comparative profiling of microRNAs in a sweet orange red-flesh mutant and its wild type" Xu Q, Liu Y, Zhu A, Wu X, Ye J, Yu K, Guo W, Deng X BMC Genomics. 11:246(2010).
2. PMID:28054378 "MicroRNA annotation of plant genomes - Do it right or not at all" Taylor RS, Tarver JE, Foroozani A, Donoghue PC Bioessays. [Epub prior to print](2017).