Stem-loop sequence vvi-MIR396d

Accession

MI0006571 (change log)

Description

Vitis vinifera miR396d stem-loop

Gene family

MIPF0000047; MIR396

Literature search

5 open access papers mention vvi-MIR396d
(24 sentences)

Stem-loop

   --cuuu    uc            c          --uuuuu  --    acu       uu 
5'       guau  uuccacagcuuu uugaacugca       ca  gacu   ggugugu  u
         ||||  |||||||||||| ||||||||||       ||  ||||   |||||||   
3'       caua  agggugucgaaa aacuuggcgu       gu  cuga   ucacgua  u
   gacaac    ga            u          ugacaau  ua    aac       ug 

Deep sequencing

6342 reads, 250 reads per million, 2 experiments

Confidence

Annotation confidence: not enough data

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Genome context

• Coordinates (12X; GCA_000003745.2): chr11: 5253110-5253229 [-]
• Overlapping transcripts:

  intergenic

Clustered miRNAs

< 10kb from vvi-MIR396d

• vvi-MIR396d: chr11: 5253110-5253229 [-]
• vvi-MIR396b: chr11: 5246790-5246897 [+]

Database links

• EntrezGene:MIR396D
• miRBase Tracker:MI0006571

Mature sequence vvi-miR396d

• Accession: MIMAT0005726
• Sequence: 11 - uuccacagcuuucuugaacug - 31
• Deep sequencing: 5852 reads, 2 experiments
• Evidence: experimental; Array [2]

References

1. PMID:17721507 "The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla" Jaillon O, Aury JM, Noel B, Policriti A, Clepet C, Casagrande A, Choisne N, Aubourg S, Vitulo N, Jubin C, Vezzi A, Legeai F, Hugueney P, Dasilva C, Horner D, Mica E, Jublot D, Poulain J, Bruyere C, Billault A, Segurens B, Gouyvenoux M, Ugarte E, Cattonaro Nature. 449:463-467(2007).
2. PMID:19939267 "High throughput approaches reveal splicing of primary microRNA transcripts and tissue specific expression of mature microRNAs in Vitis vinifera" Mica E, Piccolo V, Delledonne M, Ferrarini A, Pezzotti M, Casati C, Del Fabbro C, Valle G, Policriti A, Morgante M, Pesole G, Pe ME, Horner DS BMC Genomics. 10:558(2009).