Stem-loop sequence vvi-MIR395j

Accession

MI0006565 (change log)

Description

Vitis vinifera miR395j stem-loop

Gene family

MIPF0000016; MIR395

Literature search

6 open access papers mention vvi-MIR395j
(23 sentences)

Stem-loop

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

Deep sequencing

7258 reads, 450 reads per million, 2 experiments

Confidence

Annotation confidence: not enough data

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Genome context

• Coordinates (12X; GCA_000003745.2): 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:MIR395J
• miRBase Tracker:MI0006565

Mature sequence vvi-miR395j

• Accession: MIMAT0005720
• Sequence: 56 - cugaaguguuugggggaacuc - 76
• Deep sequencing: 7153 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).