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Created page with "<h2> ORF Finder</h2> <p>Open reading frame is the nucleotide sequence that encodes a protein from start site to finish site</p> <p>We can find open reading frame</p> ..."
<h2> ORF Finder</h2>
<p>Open reading frame is the nucleotide sequence that encodes a protein from start site to finish site</p>
<p>We can find open reading frame</p>
<p>1. Go to ncbi (<a href="http://www.ncbi.nlm.nih.gov">www.ncbi.nlm.nih.gov</a>)</p>
<p>2. Click 'Resource List (A-Z)'</p>
<p>3. Click Open Reading Frame Finder (ORF Finder)</p>
<p><img alt="" src="/ckfinder/userfiles/images/ORF_1(2).PNG" style="height:853px; width:1600px" /></p>
<p>4. Input accession number or nucleotide sequence that you want to analyze (You can get the number or sequence from ncbi FASTA format)</p>
<p>Ex) E.coli GST gene accession number : D38497</p>
<p><img alt="" src="/ckfinder/userfiles/images/ORF_2(1).PNG" style="height:856px; width:1600px" /></p>
<p>5. Click 'OrfFinder'</p>
<p>6. The result is like this</p>
<p><img alt="" src="/ckfinder/userfiles/images/ORF_3(1).PNG" style="height:727px; width:923px" /></p>
<p>You can see that there are five ORFs. And for the first frame (+1), the length is 198 nutleotide, which encodes 65 amino acids.</p>
<p>You can check each ORF by clicking it</p>
<h2>Promoter prediction site</h2>
<p>1. Go to the website, molbiol-tools.ca/Promoters.htm</p>
<p>2. Click 'Promoter Prediction by Nueral Network'</p>
<p><img alt="" src="/ckfinder/userfiles/images/Promoter_1(1).PNG" style="height:572px; width:1600px" /></p>
<p>3. Choose the type of organism, reverse strand, minimum promoter score(0.8 is default)</p>
<p>4. Input DNA sequence</p>
<p>Ex) Human Helper T Cell Selective Function Controling Method sequence</p>
<p><img alt="" src="/ckfinder/userfiles/images/Promoter_4.PNG" style="height:176px; width:745px" /></p>
<p>5. Submit</p>
<p><img alt="" src="/ckfinder/userfiles/images/Promoter_2(1).PNG" style="height:742px; width:821px" /></p>
<p>6. The result is like this</p>
<p><img alt="" src="/ckfinder/userfiles/images/Promoter_3(1).PNG" style="height:193px; width:1152px" /></p>
<p>Open reading frame is the nucleotide sequence that encodes a protein from start site to finish site</p>
<p>We can find open reading frame</p>
<p>1. Go to ncbi (<a href="http://www.ncbi.nlm.nih.gov">www.ncbi.nlm.nih.gov</a>)</p>
<p>2. Click 'Resource List (A-Z)'</p>
<p>3. Click Open Reading Frame Finder (ORF Finder)</p>
<p><img alt="" src="/ckfinder/userfiles/images/ORF_1(2).PNG" style="height:853px; width:1600px" /></p>
<p>4. Input accession number or nucleotide sequence that you want to analyze (You can get the number or sequence from ncbi FASTA format)</p>
<p>Ex) E.coli GST gene accession number : D38497</p>
<p><img alt="" src="/ckfinder/userfiles/images/ORF_2(1).PNG" style="height:856px; width:1600px" /></p>
<p>5. Click 'OrfFinder'</p>
<p>6. The result is like this</p>
<p><img alt="" src="/ckfinder/userfiles/images/ORF_3(1).PNG" style="height:727px; width:923px" /></p>
<p>You can see that there are five ORFs. And for the first frame (+1), the length is 198 nutleotide, which encodes 65 amino acids.</p>
<p>You can check each ORF by clicking it</p>
<h2>Promoter prediction site</h2>
<p>1. Go to the website, molbiol-tools.ca/Promoters.htm</p>
<p>2. Click 'Promoter Prediction by Nueral Network'</p>
<p><img alt="" src="/ckfinder/userfiles/images/Promoter_1(1).PNG" style="height:572px; width:1600px" /></p>
<p>3. Choose the type of organism, reverse strand, minimum promoter score(0.8 is default)</p>
<p>4. Input DNA sequence</p>
<p>Ex) Human Helper T Cell Selective Function Controling Method sequence</p>
<p><img alt="" src="/ckfinder/userfiles/images/Promoter_4.PNG" style="height:176px; width:745px" /></p>
<p>5. Submit</p>
<p><img alt="" src="/ckfinder/userfiles/images/Promoter_2(1).PNG" style="height:742px; width:821px" /></p>
<p>6. The result is like this</p>
<p><img alt="" src="/ckfinder/userfiles/images/Promoter_3(1).PNG" style="height:193px; width:1152px" /></p>
