Team:VT Ensimag 2010-Biosecurity/sixframe

From 2010.igem.org

(Difference between revisions)
 
Line 4: Line 4:
The six-frame translation consists in creating the 6 amino-acid corresponding to one nucleotide sequence.  
The six-frame translation consists in creating the 6 amino-acid corresponding to one nucleotide sequence.  
-
Indeed, the nucleotid sequence, while synthetised, can be translate by the cell in different ways: it can :
+
Indeed, the nucleotide sequence, while synthesized, can be translate by the cell in different ways: it can :
* Translate directly the sequence
* Translate directly the sequence
** Begin on the first nucleotide
** Begin on the first nucleotide
-
Each triplet of nucleotides (codon) codes for one amino-acid. In taking the corresponding one for each codon of the sequence, we obtained the first amino-aicd sequence. The codon stop is represented by a star.
+
Each triplet of nucleotides (codon) codes for one amino-acid. In taking the corresponding one for each codon of the sequence, we obtained the first amino-acid sequence. The codon stop is represented by a star.
[[Image:VTENSI_Sixframe1.jpg|center|300px]]
[[Image:VTENSI_Sixframe1.jpg|center|300px]]
** Begin on the second nucleotide
** Begin on the second nucleotide
-
The translation can also begin at the second nucleotide, so we need to check also the second strand of amino-aicd.
+
The translation can also begin at the second nucleotide, so we need to check also the second strand of amino-acid.
** Begin on the third nucleotide
** Begin on the third nucleotide
Similarly, we have to check for a translation beginning in the third nucleotide. So we now have the 3 corresponding amino-acid sequence for the direct order.
Similarly, we have to check for a translation beginning in the third nucleotide. So we now have the 3 corresponding amino-acid sequence for the direct order.
[[Image:VTENSI_Sixframe2.jpg|center|300px]]
[[Image:VTENSI_Sixframe2.jpg|center|300px]]
* Translate the reversed complementary sequence
* Translate the reversed complementary sequence
-
The nucleotide sequence can be a 5'-3' one, so we have to take the complementary reversed sequence. The complementary sequence is just the same one in taking for each base pair its complementary (A-T, C-G). This sequence will so be read in the inversed order (from the last nucleotide to the first one).
+
The nucleotide sequence can be a 5'-3' one, so we have to take the complementary reversed sequence. The complementary sequence is just the same one in taking for each base pair its complementary (A-T, C-G). This sequence will so be read in the reversed order (from the last nucleotide to the first one).
[[Image:VTENSI_Sixframe3.jpg|center|300px]]
[[Image:VTENSI_Sixframe3.jpg|center|300px]]
as in the direct order, the translation can begin in the first, second or third nucleotide.
as in the direct order, the translation can begin in the first, second or third nucleotide.

Latest revision as of 12:40, 12 October 2010


VT-ENSIMAG over VT campus long.png

Six frame translation




DNAside.png

Home

Our team

Sequence screening

The software: GenoTHREAT

Tests and Results

Screening of the iGEM registry

PCR fusion primer

Lab notebook

Safety

Media Links

Comments

SAIC.jpeg

Mitre.jpeg




The six-frame translation consists in creating the 6 amino-acid corresponding to one nucleotide sequence. Indeed, the nucleotide sequence, while synthesized, can be translate by the cell in different ways: it can :

  • Translate directly the sequence
    • Begin on the first nucleotide

Each triplet of nucleotides (codon) codes for one amino-acid. In taking the corresponding one for each codon of the sequence, we obtained the first amino-acid sequence. The codon stop is represented by a star.

VTENSI Sixframe1.jpg
    • Begin on the second nucleotide

The translation can also begin at the second nucleotide, so we need to check also the second strand of amino-acid.

    • Begin on the third nucleotide

Similarly, we have to check for a translation beginning in the third nucleotide. So we now have the 3 corresponding amino-acid sequence for the direct order.

VTENSI Sixframe2.jpg
  • Translate the reversed complementary sequence

The nucleotide sequence can be a 5'-3' one, so we have to take the complementary reversed sequence. The complementary sequence is just the same one in taking for each base pair its complementary (A-T, C-G). This sequence will so be read in the reversed order (from the last nucleotide to the first one).

VTENSI Sixframe3.jpg

as in the direct order, the translation can begin in the first, second or third nucleotide.

    • Begin on the first nucleotide
    • Begin on the second nucleotide
    • Begin on the third nucleotide

At the end, we obtain 6 amino-acid sequences. We also keep the 2 nucleotide sequences.

VTENSI Sixframe4.jpg



Go back to GenoTHREAT page

ALIEN DNA.png
VT-ENSIMAG logo.png
ALIEN DNA.png