For each gene (note: each group member must select a unique gene to research): A


For each gene (note: each group member must select a unique gene to research):
A. State the name of gene along with any abbreviation you will be using throughout this assignment. Indicate what the gene codes for, if known (e.g., the XXX gene codes for the XXX protein). Please also indicate which member of the group was responsible for collecting the information on that gene.
B. Use one or more genomic databases (e.g., GenBank, BLAST, The European Bioinformatics Institute (EMBL-EBI), WormBase, etc.) to provide information about the gene and its product, including the following:
i. length of the gene (i.e., number of nucleotides) or its mRNA; be sure to indicate whether you are reporting the length of the gene or the mRNA; [note: several sequences may have been published for your gene; in that case, indicate there are multiple published sequence (and approximately how many), and report results for at least one published sequence.]
ii. the number of variants (alleles) identified; if several have been identified, you can provide an approximate number (e.g., at least 100); briefly describe the nature of a few of the variations (i.e., whether they are missense, nonsense, copy number, deletion, insertion, etc.)
iii. whether there are orthologs/homologs, and if so, how their sequences compare to one another (i.e., the degree of sequence identity); this information may not be directly reported, but with the gene sequences, you can use methods discussed in class to determine sequence identity; if there are more than two orthologs, select at least two to compare;
vi. the pattern of gene expression (i.e., the cells/tissues in which the gene is expressed) and the species in which that expression pattern was determined; please also indicate whether the expression data is based on protein or mRNA-based methods. Draw from at least two sources of information related to gene expression.
C. Use one or more protein databases (e.g., Protein Data Bank, The European Bioinformatics Institute, UniProt, etc.) to provide information about the structure of the protein coded by the gene, including the following:
i. information related to the protein’s secondary structure (i.e., whether there are alpha helical regions and/or Beta pleated sheets and approximately how many);
[Note: Complete structural data might not be available for the protein coded by a given gene; this may be because the protein has not yet been studied or its size presents challenges to resolving the three-dimensional structure. If you are unable to find protein structure data, consider exploring whether segments (i.e., domains) of the protein have been examined or whether there are data available for homologous proteins.]
BIOS 10140 Inquiry-based Exploration in Biology (Neurobiology) Spring 2022
ii. whether there is reported information about the effect of genetic variations on the
protein’s structure.
[Note: if you are unable to find information describing the effect of variations on the protein’s three-dimensional structure, report 2-3 known mutations/variations that affect the protein’s primary structure and propose a hypothesis to explain how those changes could affect secondary and tertiary or quaternary structure.]
D. Write out a complete reference list for articles and other resources you have used. This includes specific pages in the databases you used. Follow the guidelines provided in the Research Project module on Canvas and be sure to also include in-line citations throughout your document. Your reader should know from which source you drew each piece of information.


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