Week 3 Partner Project

To choose your gene, visit the Saccharomyces Genome Database (SGD), a model organism database that aims to be a one-stop shop for yeast data. You can search for a gene or protein in the search field or browse the resources at the site through the various tabs. If you do not already have a gene in mind that you want to find, the curators at SGD maintain a blog to highlight interesting research. Browse through the Research Spotlights or Yeast and Human Disease categories for inspiration. You may not use the same gene as another group. Gene choices are first-come, first-served. To claim your gene, edit this page, listing the gene you have chosen next to the names of you and your homework partners. Once you have identified your gene, you will look it up in four different databases and create a summary of what you have learned about your gene on you and our partner's wiki page. The four databases are: SGD itself NCBI Gene Database Ensembl UniProt The summary should be one paragraph about the function of your gene based on what you have read in each of the four databases. This is one paragraph that synthesizes information, not one paragraph per database. Provide the following additional information about your gene on your wiki page: What is the standard name, systematic name, and name description for your gene (from SGD)? What is the gene ID (identifier) for your gene in all four databases (SGD, NCBI Gene, Ensembl, UniProt)? Provide hyperlinks to the specific pages for your gene in each of the above databases. What is the DNA sequence of your gene? What is the protein sequence corresponding to your gene? Go to the ExPASy tool and translate the DNA sequence of your gene. Which reading frame encodes the protein sequence? Take a screenshot of your results, display it on your wiki page, and state which frame it is. What is the function of your gene? What was different about the information provided about your gene in each of the parent databases? Were there differences in content, the information or data itself? Were there differences in presentation of the information? Why did you choose your particular gene? i.e., why is it interesting to you and your partner? Include an image related to your gene (be careful that you do not violate any copyright restrictions!) Please make the image something scientific (not like the random images seen on the SGD blog posts). If a 3D structure of the protein your gene encodes is available, you can choose to embed a rotating image of the structure on your page using the FirstGlance in Jmol software. This is optional, a different static image would be OK, too. Include Acknowledgments and References sections on your wiki page. Both partners should sign the Academic Honesty statement with their wiki signatures. You need to cite the specific database page from which you derived your information for each of the questions. When answering the free-form questions, be sure to paraphrase.