LegumeIP V3: From Models to Crops - An Integrative Gene Discovery Platform for Translational Genomics in Legumes

  • [A. thaliana (transcript)]
  • Detail of Experiment mapped on Arabidopsis thaliana col Araport11

Details

NameRNASequencing of nf-yc, nf-yb, and CO-SAIL mutants during photomorphogenic growth in Arabidopsis thaliana.
DescriptionThe purpose of this RNA Sequencing project was to investigate the transcriptional regulatory relationship between NF-YC3/4/9, NF-YB2/B3 and CO-SAIL. Methods: Total RNA was isolated, and then poly-A purified. 100ng of starting RNA was used to generate RNASeq libraries using the NEXTflex Illumina qRNA-Seq Library Prep Kit, and sequenced on an Illumina HiSeq2500 machine. Results: NF-YC3/4/9, NF-YB2/B3 and CO-SAIL have both shared and independent regulatory targets. Overall design: mRNA profiles of 7-day old Wild Type (WT), nf-yc triple (Q3), nf-yb3/b3, and CO-SAIL seedlings grown in continuous white light were generated from two biological replicates through paired end deep sequencing on an Illumina HiSeq2500 platform
ContactBioCI
XrefPRJNA389327
Reference
Conditions4
SpeciesArabidopsis thaliana
Metadata export .CSV   .JSON

Analysis

Mapped Genomes Araport11    
Expression Analysis Expression Profile /  Differential Expression /  Co-expression

Conditions

Name Genotype Mutation Stage Tissue Treatment Level Time Samples Xref Download alignments
b3-b3 Col-0 nf-yb2 b3 7 days old seedlings Whole Seedling Seedlings were grown for seven days in continuous white light on Gamborg B5 media.
  • b3-b3-1
  • b3-b3-2
 .bam    .bai    .csi   
.bam    .bai    .csi   
COSAIL Col-0 co-sail 7 days old seedlings Whole Seedling Seedlings were grown for seven days in continuous white light on Gamborg B5 media.
  • COSAIL-1
  • COSAIL-2
 .bam    .bai    .csi   
.bam    .bai    .csi   
Q3 Col-0 nf-yc3 c4 c9 7 days old seedlings Whole Seedling Seedlings were grown for seven days in continuous white light on Gamborg B5 media.
  • Q3-1
  • Q3-2
 .bam    .bai    .csi   
.bam    .bai    .csi   
WT Col-0 Wild type 7 days old seedlings Whole Seedling Seedlings were grown for seven days in continuous white light on Gamborg B5 media.
  • WT-1
  • WT-2
 .bam    .bai    .csi   
.bam    .bai    .csi