Stem-loop sequence osa-MIR399d

Accession

MI0001056 (change log)

Description

Oryza sativa miR399d stem-loop

Gene family

MIPF0000015; MIR399

Literature search

60 open access papers mention osa-MIR399d
(235 sentences)

Stem-loop

           a     -          c        gcauucua     uuuuguaauuguauaugcauccaagguauauacaguccggccauggugcuacauugcaaucauccauaugugauugcauuguguauauauauacau 
5' aagacagu guagg cagcucuccu uggcaggu        gguga                                                                                                g
   |||||||| ||||| |||||||||| ||||||||        |||||                                                                                                g
3' uucuguca cgucc guugagagga accguccg        ccacu                                                                                                u
           g     c          a        --gcaaaa     uaaguuagcgauguaccgcuagcuaguuucgaucaucgucgaccauauauguauguacguguauugguuggcuauauacuaccagauaguuuccgg 

Deep sequencing

15 reads, 0 reads per million, 2 experiments

Confidence

Annotation confidence: not enough data

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Comments

This sequence belongs to the miR399 family of miRNAs, which are predicted to target mRNAs coding for a phosphatase transporter [1].

Genome context

• Coordinates (MSU7): Chr6: 1561789-1562074 [+]
• Overlapping transcripts:

  intergenic

Clustered miRNAs

< 10kb from osa-MIR399d

• osa-MIR439h: Chr6: 1553119-1553217 [-]
• osa-MIR399d: Chr6: 1561789-1562074 [+]

Database links

• miRBase Tracker:MI0001056

Mature sequence osa-miR399d

• Accession: MIMAT0000987
• Sequence: 256 - ugccaaaggagaguugcccug - 276
• Deep sequencing: 7 reads, 2 experiments
• Evidence: by similarity; MI0001020
• Database links:
  • RNAcentral:URS00003CFBD5_39947

References

1. PMID:15200956 "Computational identification of plant microRNAs and their targets, including a stress-induced miRNA" Jones-Rhoades MW, Bartel DP Mol Cell. 14:787-799(2004).