Stem-loop sequence osa-MIR444d

Accession

MI0006976 (change log)

Description

Oryza sativa miR444d stem-loop

Gene family

MIPF0000402; MIR444

Literature search

23 open access papers mention osa-MIR444d
(71 sentences)

Stem-loop

   aguuauu   cau  u    c     a       a         u             g     --        
5'        gca   gg ggca caagc ugaggca caacugcau acuugcaagaaag cacaa  aaucauu 
          |||   || |||| ||||| ||||||| ||||||||| ||||||||||||| |||||  |||||| a
3'        cgu   cc ccgu guucg acuccgu guugacgug ugaacguucuuuc guguu  uuaguag 
   --uaaac   cuc  u    c     a       c         u             g     ca        

Deep sequencing

1565 reads, 800 reads per million, 2 experiments

Confidence

Annotation confidence: not enough data

Feedback: Do you believe this miRNA is real?

Comments

Morin et al identify by high throughput sequencing a product offset from miR444d.3 by 3 nts, named miR444b in [3].

Database links

• miRBase Tracker:MI0006976

Mature sequence osa-miR444d.3

• Accession: MIMAT0005972
• Sequence: 82 - uuguggcuuucuugcaaguug - 102
• Deep sequencing: 68 reads, 2 experiments
• Evidence: experimental; MPSS [1], Northern [1], cloned [2], 454 [3]
• Database links:
  • RNAcentral:URS00004C0729_39947

Mature sequence osa-miR444d.2

• Accession: MIMAT0005973
• Sequence: 103 - ugcaguugcugccucaagcuu - 123
• Deep sequencing: 1373 reads, 2 experiments
• Evidence: experimental; MPSS [1], Northern [1]
• Database links:
  • RNAcentral:URS0000547E52_39947

Mature sequence osa-miR444d.1

• Accession: MIMAT0005974
• Sequence: 108 - uugcugccucaagcuugcugc - 128
• Deep sequencing: 706 reads, 2 experiments
• Evidence: experimental; MPSS [1], Northern [1]
• Database links:
  • RNAcentral:URS00003FA74A_39947

References

1. PMID:18353984 "Genome-wide analysis for discovery of rice microRNAs reveals natural antisense microRNAs (nat-miRNAs)" Lu C, Jeong DH, Kulkarni K, Pillay M, Nobuta K, German R, Thatcher SR, Maher C, Zhang L, Ware D, Liu B, Cao X, Meyers BC, Green PJ Proc Natl Acad Sci U S A. 105:4951-4956(2008).
2. PMID:18312648 "Identification of novel and candidate miRNAs in rice by high throughput sequencing" Sunkar R, Zhou X, Zheng Y, Zhang W, Zhu JK BMC Plant Biol. 8:25(2008).
3. PMID:18323537 "Comparative analysis of the small RNA transcriptomes of Pinus contorta and Oryza sativa" Morin RD, Aksay G, Dolgosheina E, Ebhardt HA, Magrini V, Mardis ER, Sahinalp SC, Unrau PJ Genome Res. 18:571-584(2008).