Stem-loop sequence vvi-MIR395j

Accession

MI0006565

Description

Vitis vinifera miR395j stem-loop

Gene family

MIPF0000016; MIR395

Community annotation

This text is a summary paragraph taken from the Wikipedia entry entitled mir-395_microRNA_precursor_family. miRBase and Rfam are facilitating community annotation of microRNA families and entries in Wikipedia.

mir-395 is a non-coding RNA called a microRNA that was identified in both Arabidopsis thaliana and Oryza sativa computationally and was later experimentally verified. mir-395 is thought to target mRNAs coding for ATP sulphurylases. The mature sequence is excised from the 3' arm of the hairpin. miR-395 is upregulated in Arabidopsis during sulphate-limited conditions, when the mature miRNA then regulates sulphur transporters and ATP sulphurylases.

Stem-loop

--gccc  ua         ug c       c      -  uuc 
      cc  gaguucccc  a cacuuca ugggga uc   u
      ||  |||||||||  | ||||||| |||||| ||   u
      gg  cucaagggg  u gugaagu auccuu ag   u
uacugu  uc         gu u       c      c  uaa 

Genome context

• Coordinates (Genoscope-20100122): chr1: 6553026-6553111 [+]
• Overlapping transcripts:

  intergenic

Clustered miRNAs

< 10kb from vvi-MIR395j

• vvi-MIR395j: chr1: 6553026-6553111 [+]
• vvi-MIR395m: chr1: 6557811-6557902 [+]
• vvi-MIR395l: chr1: 6559098-6559184 [+]
• vvi-MIR395i: chr1: 6562642-6562727 [+]

Database links

• ENTREZGENE: 100272050;MIR395J

Mature sequence vvi-miR395j

• Accession: MIMAT0005720
• Sequence: 56 - cugaaguguuugggggaacuc - 76
• 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).