SesameFG: Sesame Functional Genomics Database

 

 

The largely lack of SSR markers limited the functional genomics research of sesame. All SSR loci have been identified from sesame genome (Wei et al., 2014) and could be queried by the genome region and gene ID.

 

Search the SSR loci in the sesame genome with a specified region. Please input LG number, start position and end position to the blank respectively. Eg: 1, 100, 10000. It will show the SSR loci located in the region from 100 bp to 10000 bp in LG 1. Please note the region should be smaller than 1Mb.

Search SSR with Range

 

1000000) { continue; } $query=mysql_query("select * from ssr_poly where chr = '$chromo' and start_5 > '$start' and end_5 < '$end'"); if($query) { ?>
Chromosome SSR_NR SSR_type SSR sequence SSR_size Start 5' End 5' Forwared primier Temperatute 5' Size 5' Reverse_primier Temperature 3' Size 3' Product size Start 3' End 3'

 

 

Search SSR loci around the chosen gene. Please input gene ID, start position and end position to the blank respectively. Eg: SIN_1003804, -1100, 1000. It will show the SSR loci located in the region that from 1000 bp forward to 1000 bp behind the gene SIN_1003804. Please note the region should be smaller than 1Mb.

Search SNP within Gene

 

1000000) { continue; } $pos_query=mysql_query("select * from mRNA_information where gene_name = '$chromo'"); if($pos_query) { $result=mysql_fetch_array($pos_query); $gene_chr=$result["chr"]; $gene_start=$result["start"] + $start; $gene_end=$result["end"] + $end; $query=mysql_query("select * from ssr_poly where chr = '$gene_chr' and start_5 > '$gene_start' and end_5 < '$gene_end'"); if($query ) { ?>
Chromosome SSR_NR SSR_type SSR sequence SSR_size Start 5' End 5' Forwared primier Temperatute 5' Size 5' Reverse_primier Temperature 3' Size 3' Product size Start 3' End 3'

 

 

 

Wei X, Wang L, Zhang Y, Qi X, Wang X, Ding X, Zhang J, Zhang X. Development of simple sequence repeat (SSR) markers of sesame (Sesamum indicum) from a genome survey. Molecules, 19(4): 5150-5162.