Ensembl TrainingEnsembl Home
More ▼
Retrieve a list of SNPs from the tomato genome

<- Back to exercise page

Retrieve a list of SNPs from the tomato genome

The region between coordinates 21,394,819 and 21,397,868 on chromosome 6 in tomato contains a gene involved in oxidation-reduction process (GO:0055114).

Can I use BioMart to retrieve all the SNPs in this region including their IDs and possible alleles?

Click the New button on the toolbar, choose the Ensembl Plants Genes database and Solanum lycopersicum genes (SL2.40 (ITAG2.3)) dataset.

Click on Filters in the left panel and expand the REGION section. Under Multiple regions enter 6:21394819-21397868.

Click on Attributes in the left panel, select the Variation attribute and under VARIANT ASSOCIATED INFORMATION, tick Variant_name and Variant alleles.