Difference between revisions of "Nanguiano Week 2"

From LMU BioDB 2015
Jump to: navigation, search
(Adding first 2 reading frames. Also just creating page so I don't lose everything if I press back.)
 
(→‎The Genetic Code: answered last question)
 
(3 intermediate revisions by the same user not shown)
Line 10: Line 10:
 
** Use the single-letter abbreviations for the amino acids because that is what is commonly used by computer programs.
 
** Use the single-letter abbreviations for the amino acids because that is what is commonly used by computer programs.
  
−
* Top, 1
+
* Note: For the full list of codons, see this [https://en.wikipedia.org/wiki/Genetic_code#RNA_codon_table RNA Codon Table]. The stop codon is indicated by "x".
−
  RMLIPCSAYNPAASSAGGIL
+
* +1
−
* Top, 2
+
  RNA: 5’-cguaugcuaauaccauguuccgcguauaacccagccgccaguuccgcuggcggcauuuua-3’
−
  gua ugc uaa uac cau guu ccg cgu aua acc cag ccg cca guu ccg cug gcg gca uuu
+
Protein: N-ter-RMLIPCSAYNPAASSAGGIL-C-ter
−
  VC-YHVPRITQPPVPLAAF
+
* +2
−
* Top, 3
+
  RNA: 5’-guaugcuaauaccauguuccgcguauaacccagccgccaguuccgcuggcggcauuu-3’
−
* Bottom, 1
+
Protein: N-ter-VCxYHVPRITQPPVPLAAF-C-ter
−
* Bottom, 2
+
* +3
−
* Bottom, 3
+
RNA: 5’-uaugcuaauaccauguuccgcguauaacccagccgccaguuccgcuggcggcauuuu-3’
−
   
+
Protein: N-ter-YANTMFRVxPSRQFRWRHF-C-ter
 +
* -1
 +
RNA: 5’-uaaaaugccgccagcggaacuggcggcuggguuauacgcggaacaugguauuagcauacg-3’
 +
Protein: N-ter-xNAASGTGGWVIRGTWYxHT-C-ter
 +
* -2
 +
RNA: 5’-aaaaugccgccagcggaacuggcggcuggguuauacgcggaacaugguauuagcaua-3’
 +
Protein: N-ter-KMPPAELAAGLYAEHGISI-C-ter
 +
* -3
 +
  RNA: 5’-aaaugccgccagcggaacuggcggcuggguuauacgcggaacaugguauuagcauac-3’
 +
Protein: N-ter-KCRQRNWRLGYTRNMVLAY-C-ter
  
 
* Which of the reading frames (if any) of the reading frames you translated is an ''open reading frame'', i.e., does not contain a stop codon?
 
* Which of the reading frames (if any) of the reading frames you translated is an ''open reading frame'', i.e., does not contain a stop codon?
−
** By convention, the top strand frames are called +1, +2, +3, reading 5' to 3' and the bottom strand frames are called -1, -2, -3, reading 5' to 3'.
+
** Frames +1, -2, and -3 do not contain stop codons.
  
 
== Links ==
 
== Links ==
 
{{Template:Nanguiano}}
 
{{Template:Nanguiano}}

Latest revision as of 01:29, 11 September 2015

Individual Journal Assignment

The Genetic Code

  • Write out the complementary strand of DNA below the strand shown and be sure to label the 5’ and 3’ ends of the complementary strand.
5’-cgtatgctaataccatgttccgcgtataacccagccgccagttccgctggcggcatttta-3’
3’-gcatacgattatggtacaaggcgcatattgggtcggcggtcaaggcgaccgccgtaaaat-5’
  • There are six possible reading frames in double-stranded DNA. Using the genetic code, translate all possible reading frames of this DNA sequence, keeping in mind the following rules.
    • In RNA, the T becomes a U, so everywhere you see a T in the sequence, read it as a U.
    • The genetic code is read in the 5’ to 3’ direction.
    • Use the single-letter abbreviations for the amino acids because that is what is commonly used by computer programs.
  • Note: For the full list of codons, see this RNA Codon Table. The stop codon is indicated by "x".
  • +1
RNA: 5’-cguaugcuaauaccauguuccgcguauaacccagccgccaguuccgcuggcggcauuuua-3’
Protein: N-ter-RMLIPCSAYNPAASSAGGIL-C-ter
  • +2
RNA: 5’-guaugcuaauaccauguuccgcguauaacccagccgccaguuccgcuggcggcauuu-3’
Protein: N-ter-VCxYHVPRITQPPVPLAAF-C-ter
  • +3
RNA: 5’-uaugcuaauaccauguuccgcguauaacccagccgccaguuccgcuggcggcauuuu-3’
Protein: N-ter-YANTMFRVxPSRQFRWRHF-C-ter
  • -1
RNA: 5’-uaaaaugccgccagcggaacuggcggcuggguuauacgcggaacaugguauuagcauacg-3’
Protein: N-ter-xNAASGTGGWVIRGTWYxHT-C-ter
  • -2
RNA: 5’-aaaaugccgccagcggaacuggcggcuggguuauacgcggaacaugguauuagcaua-3’
Protein: N-ter-KMPPAELAAGLYAEHGISI-C-ter
  • -3
RNA: 5’-aaaugccgccagcggaacuggcggcuggguuauacgcggaacaugguauuagcauac-3’
Protein: N-ter-KCRQRNWRLGYTRNMVLAY-C-ter
  • Which of the reading frames (if any) of the reading frames you translated is an open reading frame, i.e., does not contain a stop codon?
    • Frames +1, -2, and -3 do not contain stop codons.

Links

Nicole Anguiano
BIOL 367, Fall 2015

Assignment Links
Individual Journals
Shared Journals
Retrieved from "https://xmlpipedb.lmucs.io/biodb/fall2015/index.php?title=Nanguiano_Week_2&oldid=936"