Go to the NCBI’s website at https://ncbi.nlm.nih.gov On the database dropdown menu, select “Gene” and search for “RB1.” The first entry should be on the Homo sapiens version; click the gene name. Use the information to answer the following: Return to the RefSeq section in the Gene Database for RB1 (back click once from where you were for part c). Click on the link under “mRNA and Protein(s)” listed as NM_000321.3. This will take you to the mature mRNA sequence data: a. Scroll back up to “Features.” As you are scrolling, count the number of “exon” links there are. What is an exon? How many exons make up the RB1 transcript? b. As you scroll through the “Features” list, observe some of the miscellaneous features (“misc_feature”) of the transcript. These are examples of annotations, which give more information about the sequence than just the order of bases. For example, “misc_feature 916…918” is a “phosphothreonine, by CDK1.” What information can you interpret from this annotation?
Go to the NCBI’s website at https://ncbi.nlm.nih.gov On the database dropdown menu, select “Gene” and search for “RB1.” The first entry should be on the Homo sapiens version; click the gene name. Use the information to answer the following:
Return to the RefSeq section in the Gene Database for RB1 (back click once from where you were for part c). Click on the link under “mRNA and Protein(s)” listed as NM_000321.3. This will take you to the mature mRNA sequence data:
a. Scroll back up to “Features.” As you are scrolling, count the number of “exon” links there are.
- What is an exon?
- How many exons make up the RB1 transcript?
b. As you scroll through the “Features” list, observe some of the miscellaneous features (“misc_feature”) of the transcript. These are examples of annotations, which give more information about the sequence than just the order of bases. For example, “misc_feature 916…918” is a “phosphothreonine, by CDK1.” What information can you interpret from this annotation?
More information to help navigate the website with the questions.
- How many bases long is the full-length RB1 mRNA transcript?
The mRNA transcript of RB1 is 4768 bp.
- Scroll down to “Features.” Click on “CDS.” This will highlight the coding sequence region of the RB1 mRNA. This is the sequence that will be translated into a protein.
- At what positions (numbers) does the coding sequence start and stop?
Start position- from 163rd.
Stop position- 2949th.
- How long is the coding sequence?
2787 bp
- How many amino acids should this encode for? (HINT: does the stop codon encode an amino acid?)
928 amino acids.
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