| − | **In order to get the mRNA sequence I need to get the sequence between the transcription start site and the terminator. I found it easiest to make new lines based on the mark up tags already there. From that point I can pick and choose which lines I need to transcribe. Using sed, I can delete lines. Example: <code> sed "2,4D"</code> So, using this trick, I deleted all unnecessary lines. From there all nucleotides not deleted should be transcribed into mRNA. I was going to make new lines using by typing out a bunch of different sed commands for each different tag, but I can do it simply by using two. This puts each tag on its own line: <code> sed "s/>/&\n/g" | sed "s/</\n&/g"</code>. Now I go through, delete the tags and the useless sequences, and transcribe. Here is the sequence followed by the command. | + | **In order to get the mRNA sequence I need to get the sequence between the transcription start site and the terminator. I found it easiest to make new lines based on the mark up tags already there. From that point I can pick and choose which lines I need to transcribe. Using sed, I can delete lines. Example: <code> sed "2,4D"</code> So, using this trick, I deleted all unnecessary lines. From there all nucleotides not deleted should be transcribed into mRNA. I was going to make new lines using by typing out a bunch of different sed commands for each different tag, but I can do it simply by using two. This puts each tag on its own line: <code> sed "s/>/&\n/g" | sed "s/</\n&/g"</code>. Now I go through, delete the tags and the useless sequences, remove the extra lines, and transcribe. Here is the sequence followed by the command. |