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

  • [G. soja (gene)]
  • Detail of Experiment mapped on Glycine soja W05 GsW05V1

Details

NameCharacterizing seed weight related genes through transcriptome analyses of wild and cultivated soybeans
DescriptionCultivated soybean has domesticated in China for a long history, and there are several significant phenotypic differences between wild and cultivated soybeans. Seed of cultivar is generally larger than wild soybean, therefore here we comprehensively analyzed transcriptomes of thirteen soybean accessions seeds including seven wild soybeans and six landraces through applying strand-specific RNA sequencing. Differential expressed genes related seed weight were identified, some of them were known to be associated with seed development in Arabidopsis. Noncoding RNAs are known to play important roles in plant development, and we profiled the expression pattern of long noncoding RNA (lncRNA) in cultivated and wild soybean seeds. We have identified 1,251 long intergenic noncoding RNA, 243 intronic RNA and 81 antisense lncRNA, transcriptional levels of a number of lncRNAs were significantly different between cultivated and wild soybeans, suggesting that lncRNA may be involved in soybean seed development. Overall design: High-depth paired-end RNA-seq from wild and cultivated soybeans
ContactNanchang University
XrefPRJNA369483
Reference
Conditions7
SpeciesGlycine soja
Metadata export .CSV   .JSON

Analysis

Mapped Genomes GsW05V1    
Expression Analysis Expression Profile /  Differential Expression /  Co-expression

Conditions

Name Genotype Mutation Stage Tissue Treatment Level Time Samples Xref Download alignments
GSM2474151 seeds after 13 days flowering seeds
  • GSM2474151_1
 .bam    .bai    .csi   
GSM2474152 seeds after 13 days flowering seeds
  • GSM2474152_2
 .bam    .bai    .csi   
GSM2474153 seeds after 13 days flowering seeds
  • GSM2474153_3
 .bam    .bai    .csi   
GSM2474154 seeds after 13 days flowering seeds
  • GSM2474154_4
 .bam    .bai    .csi   
GSM2474155 seeds after 13 days flowering seeds
  • GSM2474155_5
 .bam    .bai    .csi   
GSM2474156 seeds after 13 days flowering seeds
  • GSM2474156_6
 .bam    .bai    .csi   
GSM2474157 seeds after 13 days flowering seeds
  • GSM2474157_7
 .bam    .bai    .csi