Use this function to display AminoAcid sequence along with the DNA sequence.
There are six possible reading frames in every sequence, three starting at
positions 1, 2 and 3 and going in 5'---->3' direction of a given sequence,
and another three starting at positions 1, 2, and 3 and going in 5'--->3'
direction of a given sequence of the complementary sequence.
CODON TABLE:
Select the desired codon table from the list of standard codon
tables normally used in translating protein genes.
START POSITION:
Select the start position where the translation should begin at
(base position). eg., 1, 2 or 3.
STRAND TYPE:
Check the "Forward Strand" to use the given sequence (as displayed)
for translation. And checking "Complementary Strand" uses
complementary sequence of the displayed sequence for translation.
By checking "Translate from database fields" , ProteinViewer extracts
"translation/codon table" and "start position" from the database and uses
the same for translation.
By default, the translated (aminoacid) sequence will be displayed as
single letter codes. eg., A for Arginine, etc., But you can disply three
letter aminoacid code (eg., Met for methionine) in the translated sequence
by checking "Display Aminoacid names" checkbox.
Display options "text" and "box" will display aminoacid codes or colored
boxes in the translated sequence, respectively.
Display at "Marked", "Selected", "Cursor" and "All" will toggle the display
of aminoacid sequence only for marked, selected, cursor position and all
species in the editor, respectively.
SAVE AMINOACID SEQUENCE ALIGNMENT:
Once the alignment is refined according to the aminoacid sequence,
you can save the translated (aminoacid) sequence to the database as
a new alignment.
|