SoybeanGDB: a comprehensive genome database of soybean

SoybeanGDB is a comprehensive database providing informatics service to researchers focused on the genetic and genomic studies of soybean. A total of 39 high-quality soybean genomes were collected, including a Chinese soybean Glycine max [L.] Merr. cv. Zhonghuang 13. High-quality SNPs and INDELs among 2898 soybean accessions based on the genome of Zhonghuang 13. High-quality SNPs among 481 soybean accessions based on the genome of Williams 82.

Statistics

High quality soybean genomes

Soybean accessions

High quality SNPs

High quality INDELs

Functionalities of SoybeanGDB

Search 39 soybean genomes by gene ID

Search 39 soybean genomes by location

Transcription factors/regulators in 39 soybean genomes

Syntenic regions between different soybean genomes

Search structural variations by location

JBrowse of 39 soybean genomes

Browse SNPs among 2898/481 soybean accessions

Search SNPs among 2898/481 soybean accessions

Linkage disequilibrium analysis between SNPs in a genomic region

Nucleotide diversity analysis among different groups of soybean accessions

Allele frequency analysis of user-input SNP sites

Search INDELs among 2898 soybean accessions

Expression analysis of protein-coding genes in diverse tissues/stages

Co-expression analysis of genes

Search 39 soybean genomes using BLAST

Design primers based on the Zhonghuang 13 genome

Orthologous groups among 39 soybean genomes

GO annotation of input gene sets

GO enrichment analysis of input gene sets

KEGG annotation of input gene sets

KEGG enrichment analysis of input gene sets


            

            

            

            

            

            

            

            

              

            

            

            

              

            

            

              

            

            

          

        

        

          

            
          

          

            

              

                

              

              

                

              

              

                

              

              

                

              

            

            

            

              

            

            

            

            

            

            

            

            

            

            

            

            

            

              

            

            

            

              

            

            

            

              

            

            

              

            

            

          

        

        

          

            
          

          

            

            

              

            

            

              

            

            

            

            

            

          

        

        

          

            
          

          

            

              

            

            

              

            

            

              

            

            

              

            

            

              

            

            

            

            

            

            

            

            

            

            

            

            

            

              

            

            

              

            

            

              

            

          

        

        

          

            
          

          

            

            

              

            

            

              

            

            

              

            

            

              

            

            

              

            

            

              

            

            

              

            

            

              

            

          

        

        

          

            
          

          

            

          

        

        

          

             JBrowse of 39 soybean genomes