SesameFG: Sesame Functional Genomics Database

 

 

#Main Page

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Home. It gives a general introduction to the sesame. There are quick links to the some results that the visitors may be interested in. We also list the information for the supporters and grants that holds this project. Some related websites are also listed.

Material. It cotains the material information and the phenotype information.It lists the related information for each accession. We list the geographical information and group information for each accession.

Genome related. It contains the genetic variants information for the sesame population. You can also query the phenotype information with different methods to get the desired results. The genome comparation information for the two assemble genome(Baizhima and xiaolizhima) is also listed here.

Gene. We have colletcted and presented several published gene families here. You can query the related information here.

SSR. SSR is important of the gene mapping in the sesame gene function studiese. Here we liste the SSRs we use for the gene mapping here. They are all validated by the experiment. You can also query multiple SSR polymorphic sites with the genome range.

Tool: We present the Genome Browser and Blast tools here. You can query the gene information and the genome sequence information using the Genome Browser conviently. Blast is great tool for the sequence analysis. Here we added all the sequence information for the three assembled genome information in the blast database. Users can search these information to their own need.

Download: The sequence information for the two assemble sesame genomes and the whole genetic variants data for the sessame haplotype map can be downloaded directly here.

Help:

#Home-> Introduction#

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In this section we give a general introduction to the distribution of the sesame. We also gives example of some phenotypes for the sesame.

 

 

#Material->Germplasm#

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On this section we list the related information for all the 715 accessions. The information include their geographical location, sequencing coverage, orignal producing area, and accession name and ecotype name. Users can query the accessions for this information.

 

 

#Material->Phenotype->Query by trait#

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We performed GWAS with the sesame. You can query the these associated peaks with the phenotype name. As users can not always remember the extact name. You query the table below to get the exact name. There is also a fuzzy matching function in this section. Users can search with even a single alphabet to search the phenotype name that contains the alphabet. for example "C1".

 

#Material->Phenotype->Query by accession#

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In this section you can query with accessio name to get all the phenotypes for this accession. A picture for this accession is also attached.

 

#Material->Phentoype->Phenotype photo#

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If you just interested in the phenotype you can click the accession name to get check the picture directly.

 

#Quick links->Literature search#

 

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You search with gene name to get the related literature annotation for the homologue gene for arabidopsis

 

#Genome related->SNP variant-> Query SNP between two accessions#

 

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If users want to analyze the polymorphic sites between the two accessions you can put the two accession names here to download the related SNP data. The SNP position and genotype are all listed in the result.

 

#Tool-> Blast#

 

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You blast your sequence with multiple assembly sequences to get the homologue sequences.

 

#Tool-> Genome Browser#

 

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We have integrated gene information and SNP information in the genome browser. You can visualize and query conviently.