Finding orthologous genes for disease resistance gene in Coffea canephora (coffee)
Resistance to the leaf rust delivered by SH3 factor(s) is well-grounded as specially durable. in 2023, Paula Cristina da Silva Angelo et al (https://doi.org/10.1016/j.pmpp.2023.102111) reported that the Arabidopsis thaliana gene AT1G50180 is an important gene in the SH3 locus conferring diseae resistance.
Search Ensembl Plants for the gene AT1G50180 in Arabidopsis thaliana.
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From the gene tab, go to the Arabidopsis thaliana AT1G50180 gene Orthologues page under Plant Compara.
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Reduce the orthologues table to look only at Coffea canephora (coffee) orthologues. How many results can you see?
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Download the cDNA alignment in ClustalW format for the alignment between the Arabidopsis thaliana AT1G50180 gene and the Coffea canephora GSCOC_T00030728001 gene.
Go to Ensembl Plants. Select Arabidopsis thaliana from the drop-down box and type in AT1G50180. Click Go and click on the gene ID AT1G50180.
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Go to Plant Compara: Orthologues on the left-hand panel.
- Filter for Coffea canephora using the filter option in the top right hand corner of the table.
Coffee has 25 many-to-many orthologues.
- Click on View Sequence Alignments then cDNA (found in the 3rd column below the gene identifier) for the GSCOC_T00030728001 gene. This takes us to the Orthologue Alignment page.
Click on Download Homology to download the alignment in ClustalW format
