Use the links and their instructions from the Applications section to help answer the following questions. Many applications may need to be used at one time.
1. Which reading frame will give you the correct protein sequence after translating the following nucleotide sequence?
GGCACGAGGAACGGAGCGCAGGGGAGGAGACGGGCGGCTGTCCGCGCAGAGGGAGTGAGTCACCTGACCGCCGCTTGCCGCCTGCAGTCGGGCCGCGCCGCGTCTCGGCTCCGGTCGATGACAGTGAGAAGCATGCTTTCCACTGCTCTCCCTGGTCCCAGTTGCCACCCAGGATGTCTGTGAGTGAGAGTGCGGTATTTGCCTACGAGTCCTCTGTGCATAGCACCAACGTCTTGCTCAGCCTCAATGACCAGCGGAAGAAGGATGTCCTGTGTGATGTGACTGTCCTGGTGGAGGGCCAGCGGTTCCGAGCCCACCGCTCGGTGCTGGCTGCGTGCAGCAGCTACTTCCACTCGAGAATCGTAGGCCAGACTGACGCAGAGCTCACCGTCACACTGCCTGAAGAGGTAACGGTTAAAGGATTTGAACCTTTAATTCAGTTTGCCTACACTGCCAAACTCATTTTAAGTAAAGACAATGTTGACGAAGTGTGCAGGTGTGTGGAGTTTCTAAGCGTACACAATATCGAGGAATCCTGCTTCCAGTTTCTCAAGTTTAAGTTTTTGGACTCCACTTCAGAGCAGCAGGAATGCGCAAGAAAAAAATGCTTCTCCTCACACTGTCAGAAAGCAGATTTTAAATTTTCATTTTCAGAACAGAAAGATCTCGAAATCGATGAAGCAGATGAATTCTTGGAAAAGAAACGTGTTCAGACGCCTCAGTGTGACTCCCGCAGGTGTCAGGGCAGTGTAAAAGCATCCCCCCCTCTCCAGGACAGTGTCAGTCAGGCGTGCCAGTCCCTGTGCACGGACAAGGATGGAGCCCTGGCATTGCCATCTCTATGCCCCAAATACAGAAAGTTCCAGAAAGCGTTTGGAACTGACAAGATCCGAACTCTAGAATCCGGTGTCAGAGATGTCCACACTGCCTCTGTCCAGCCAAATGAGACCTCTGAACTTGAGTGTTTTGGGGGAGCGCAGGGCTGTGCAGATTTACACGTGATTTTAAAATGTGAAGGAATGAAGGCAGCCATGGAGAGTGAAGACACAGAGGGCCAGGATCCCTCCCCTCAGTGCCCTGCAGAGCAGCCCCAAGGGACACCCTTGCCTCAGGATTCTGCAGGACCTCACGGGCTCTACTCCTTGTCAGCCTTACACACATATGAGCAGTCAGGTGACGTGGCCTTTGCTGGGGTGCAGAGTAAAACCGTGAAGACAGAAAAGCCTCTGTCGAGGCCAGATGCCCAGGACGAGAAGCCATCGGAAAATCAGGATTTATATCTGAAGTCTAGCATGGGCCCTAAAGAAGACAGCAGCAGCCTTGCATCTGAGGATCGGAGTAGTGTGGAGCGAGAGGTGGCAGAGCACCTGGCCAAAGGCTTCTGGAGTGACATTTGCAGCACGGACTCGCCTTGCCAAATGCAGTTGTCGCCCACTGTGGCCAAAGACGGCCCAGAACAGGGCTACTCGCAAAGGCGATCTGAGTGTCCCTGGTTGGGTATCAGGATCAGTGAGAGCCCCGAGCCAGGCCAGCGGACTTTCACAACTCTCAGTTCCGTCAACTGCCCTTTTATCAGTACTCTGAGTTCCGAAGGCTGCTCAAGCAACTTGGAAATTGGAAACTACGATTATGTCTCGGAGCCTCAGCAGGAGCCTTGCCCGTATGCTTGTGTGATTAGCCTGGGAGATGACTCTGAGACGGACACGGAAGGTGACAGCGAGTCCTGTTCTGCCAGGGAGCAGGACTGTGAGGTGAAGCTGCCATTCAATGCCCAACGGATAATTTCGCTCTCACGAAATGATTTCCAATCCTTGTTGAAAATGCACAAACTGACCCCAGAGCAGCTCGACTGTATCCATGACATCCGCAGAAGGAGTAAGAACAGAATCGCCGCGCAACGCTGTCGCAAGAGGAAACTTGACTGTATCCAGAACCTTGAGTCGGAAATCGAGAAGCTGCAAAGTGAAAAGGAGAGCTTGCTGAAGGAGCGAGACCACATTCTGTCAACGCTGGGGGAGACAAAGCAGAACCTGACCGGACTTTGTCAGCAGGTGTGCAAGGAAGCCGCCCTGAGCCCCGAGCAGATCCAGATCCTTGCCAAGTACTCGGCCTCCGACTGCCCGCTTTCCTTTTTAATTTCTGAGAAAGGAAAAAGTACTCCCGACGGCGAGCTTGCTTTTACATCGGTTTTCAGTGTGTCTGACGTGCCTCCAACTGCACCACCTCCCTGTGGGCGAGGGAGCAGCGCGGCCAGCCAGGAGCTGGTGCAGGAGTCCCCGCCAACCACCGCAGCTGCCCCAGAGCAGGCCACGCTGTTGGAACCCTGTCGGCAGAGTGCTGGGATCTCAGACTTCTGTCAGCAGATGTCTGACAAGTGCACTACTGACGAGTAAACCCCACGGGCAGCCTTCAGCCCATGGCCTCCCTCTGACCTTCGGCATTGTCTCGAAGCCTAGCGTGGCCGTGTCTTCTTGCTTAGCAGTCCTGTGTCCTCCTGGTAGCTTTCTGTTGAGGGAATTTCTCTTTCAGGTGATCCTGAGTTCTCCTTGGTTTTCATAGGAGATGTTCTATCTCTTGAATGATGGGAAATTGGATGTGAAAATATAGAATGACCAGGTAATAATCTCCTAGAGTTCAAACTAACTAGAGCAGCGGAAGCCGCAGCATCCATTTCAACAGCTCGGAGCATCTGCACGCAGTCCTCGTGGGCCGTGGATAACCTACTGATCAGGAAGAAGAGCCCTTCCTATGCGGAGCAGTGGTGATCTCCCCAGAAGTGGGGTACTTCTTGTCTATGTGGAAAAGAAATCTCCTTTGAACTCTAATGTCCTGCACCTCAGCTCCTTCAAAGTCCAGCATTGGCTGGTGACCCTGAGGCTGCCCTGGCAGGACCTAGGCAGAAGCCACAGCTGGCCTGAGCTGGAGGCCTCTGCTATCCTCAGTATTGACTAGGAGTTTTGACTGCACAAACCAGAAAGTGTATCATCGTTCCCTGTTCTCAGTTCTGTTCCTCTCTTTAGTCTCCACCTTGTCTAGACTGTTAGGAACTTTCTGTCCCGTGGAGGAGGAGCTGCCCCGGA
2. On what chromosome is the gene SPT15 located and what protein does it code for?
3. What protein does the following protein sequence code
for and what organism does this gene product belong?
MQAIPMTLRGAEKLREELDFLKSVRRPEIIAAIAEAREHGDLKENAEYHAAREQQGFCEGRIKDIEAKLSNAQVIDVTKMPNNGRVIFGATVTVLNLDSDEEQTYRIVGDDEADFKQNLISVNSPIARGLIGKEEDDVVVIKTPGGEVEFEVIKVEYL
4. The protein for the sequence above (Problem #3) is found in the same operon as the protein dihydropteroate synthase. Find the nucleotide fragment of this entire coding region that corresponds to this protein. Specifically from what nucleotide base pair to what nucleotide base pair.
MKLFAQGTSLDLSHPHVMGILNVTPDSFSDGGTHNSLIDAVKHANLMINAGATIIDVGGESTRPGAAEVSVEEELQAVIPVVEAIAQRFEVWISVDTSKPEVIRESAKVGAHIINDIRSLSEPGALEAAAETGLPVCLMHMQGNPKTMQEAPKYDDVFAEVNRYFIEQIARCEQAGIAKEKLLLDPGFGFGKNLSHNYSLLARLAEFHHFNLPLLVGMSRKSMIGQLLNVGPSERLSGSLACAVIAAMQGAHIIRVHDVKETVEAMRVVEATLSAKENKRYE
5. Suppose you wanted to study following protein below. To study this protein, you must amplify it by cloning the DNA sequence fragment into a plasmid and create bacteria in the lab to express the protein for you. You have a plasmid that you know has an EcoRI restriction site, and you know that you want to use the same restriction enzyme because EcoRI will not cut your fragment. To add EcoRI restriction sites to each end of your fragment, you must use the PCR reaction to amplify a new fragment containing the gene sequence coding for this protein and EcoRI restriction digest sites. Given only the protein coding sequence design oligonucleotide primers, needed for the PCR reaction, that contains EcoRI sites.
>gi|746404|gb|AAA97511.1| membrane protein
MYEALLVVFLIVAIGLVGLIMLQQGKGADMGASFGAGASATLFGSSGSGNFMTRMTALLATLFFIISLVLGNINSNKTNKGSEWENLSAPAKTEQTQPAAPAKPTSDIPN
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