{"id":95,"date":"2014-10-29T15:51:41","date_gmt":"2014-10-29T15:51:41","guid":{"rendered":"https:\/\/protsci-us2b.univ-nantes.fr\/imut\/?page_id=95"},"modified":"2016-09-15T11:06:49","modified_gmt":"2016-09-15T11:06:49","slug":"fragment-insertion","status":"publish","type":"page","link":"https:\/\/protsci-us2b.univ-nantes.fr\/imutate\/?page_id=95","title":{"rendered":"Fragment insertion"},"content":{"rendered":"<p>This script introduces fragment(s) into a protein sequence at a selected position(s). Below are two typical examples of fragment insertions.<\/p>\n<h3>Example 1 : simple insertion of fragment<\/h3>\n<p>The user defines a unique site where the fragment will be inserted in the protein sequence.<br \/>\n<a href=\"https:\/\/i0.wp.com\/protsci-us2b.univ-nantes.fr\/imutate\/wp-content\/uploads\/2014\/10\/fragment11.png?ssl=1\"><img loading=\"lazy\" decoding=\"async\" src=\"https:\/\/i0.wp.com\/protsci-us2b.univ-nantes.fr\/imutate\/wp-content\/uploads\/2014\/10\/fragment11.png?resize=875%2C275&#038;ssl=1\" alt=\"fragment1\" width=\"875\" height=\"275\" class=\"alignnone size-full wp-image-101\" srcset=\"https:\/\/i0.wp.com\/protsci-us2b.univ-nantes.fr\/imutate\/wp-content\/uploads\/2014\/10\/fragment11.png?w=875&amp;ssl=1 875w, https:\/\/i0.wp.com\/protsci-us2b.univ-nantes.fr\/imutate\/wp-content\/uploads\/2014\/10\/fragment11.png?resize=300%2C94&amp;ssl=1 300w\" sizes=\"auto, (max-width: 875px) 100vw, 875px\" data-recalc-dims=\"1\" \/><\/a><br \/>\nTo perform this fragment insertion at position 30 in WT sequence, use the following three parameters:<\/p>\n<ul>\n<li>AELKVSTVIGARV,30,30<\/li>\n<\/ul>\n<p><em>which corresponds to the sequence of the fragment to be inserted, followed by the starting and end positions of the site where the fragment should be inserted, separated by commas. Here, the fragment will be inserted between positions 29 and 30.<\/em><\/p>\n<h3>Example 2: replacing a region with a fragment<\/h3>\n<p><a href=\"https:\/\/i0.wp.com\/protsci-us2b.univ-nantes.fr\/imutate\/wp-content\/uploads\/2014\/10\/fragment2.png?ssl=1\"><img loading=\"lazy\" decoding=\"async\" src=\"https:\/\/i0.wp.com\/protsci-us2b.univ-nantes.fr\/imutate\/wp-content\/uploads\/2014\/10\/fragment2.png?resize=722%2C290&#038;ssl=1\" alt=\"fragment2\" width=\"722\" height=\"290\" class=\"alignnone size-full wp-image-102\" srcset=\"https:\/\/i0.wp.com\/protsci-us2b.univ-nantes.fr\/imutate\/wp-content\/uploads\/2014\/10\/fragment2.png?w=722&amp;ssl=1 722w, https:\/\/i0.wp.com\/protsci-us2b.univ-nantes.fr\/imutate\/wp-content\/uploads\/2014\/10\/fragment2.png?resize=300%2C120&amp;ssl=1 300w\" sizes=\"auto, (max-width: 722px) 100vw, 722px\" data-recalc-dims=\"1\" \/><\/a><br \/>\nTo replace the region between residues 5 and 15 (inclusive) by a fragment, use the following:<\/p>\n<ul>\n<li>AELKVSTVIGARV,5,15<\/li>\n<\/ul>\n<form action=\"https:\/\/protsci-us2b.univ-nantes.fr\/cgi-bin\/imut\/imut_recombx.cgi\" enctype=\"multipart\/form-data\" method=\"post\" target=\"_top\">\n<h3>Fragment insertion<\/h3>\n<p>Type in your fragment sequence, the start position and the ending position, all separeted by commas (see examples above).You can provide several insertion patterns on separate lines. Example from above will be :<\/p>\n<ul>\n<li>AELKVSTVIGARV,30,30<\/li>\n<li>AELKVSTVIGARV,5,15<\/li>\n<\/ul>\n<p><textarea cols=\"50\" rows=\"10\" name=\"fragment\"><\/textarea><\/p>\n<p>or upload your fragments insertion patterns from a file:<br \/>\n<input maxlength=\"80\" name=\"fragment_up\" size=\"30\" type=\"file\"><\/p>\n<h2>Wild-type sequence<\/h2>\n<p>Type in your sequence in the textbox or upload your sequence<\/p>\n<p><textarea cols=\"50\" rows=\"10\" name=\"sequencebox\"><\/textarea><\/p>\n<p><input maxlength=\"80\" name=\"sequenceupload\" size=\"30\" type=\"file\"><br \/>\n<input name=\"Submit\" type=\"submit\" value=\"Submit\"><br \/>\n<input name=\".reset\" type=\"reset\"><br \/>\n<\/form>\n","protected":false},"excerpt":{"rendered":"<p>This script introduces fragment(s) into a protein sequence at a selected position(s). Below are two typical examples of fragment insertions. Example 1 : simple insertion of fragment The user defines a unique site where the fragment will be inserted in the protein sequence. To perform this fragment insertion at position 30 in WT sequence, use &hellip; <\/p>\n<p class=\"link-more\"><a href=\"https:\/\/protsci-us2b.univ-nantes.fr\/imutate\/?page_id=95\" class=\"more-link\">Read more<span class=\"screen-reader-text\"> &#8220;Fragment insertion&#8221;<\/span><\/a><\/p>\n","protected":false},"author":3,"featured_media":0,"parent":0,"menu_order":0,"comment_status":"closed","ping_status":"open","template":"","meta":{"footnotes":""},"class_list":["post-95","page","type-page","status-publish","hentry"],"_links":{"self":[{"href":"https:\/\/protsci-us2b.univ-nantes.fr\/imutate\/index.php?rest_route=\/wp\/v2\/pages\/95","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/protsci-us2b.univ-nantes.fr\/imutate\/index.php?rest_route=\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/protsci-us2b.univ-nantes.fr\/imutate\/index.php?rest_route=\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/protsci-us2b.univ-nantes.fr\/imutate\/index.php?rest_route=\/wp\/v2\/users\/3"}],"replies":[{"embeddable":true,"href":"https:\/\/protsci-us2b.univ-nantes.fr\/imutate\/index.php?rest_route=%2Fwp%2Fv2%2Fcomments&post=95"}],"version-history":[{"count":4,"href":"https:\/\/protsci-us2b.univ-nantes.fr\/imutate\/index.php?rest_route=\/wp\/v2\/pages\/95\/revisions"}],"predecessor-version":[{"id":201,"href":"https:\/\/protsci-us2b.univ-nantes.fr\/imutate\/index.php?rest_route=\/wp\/v2\/pages\/95\/revisions\/201"}],"wp:attachment":[{"href":"https:\/\/protsci-us2b.univ-nantes.fr\/imutate\/index.php?rest_route=%2Fwp%2Fv2%2Fmedia&parent=95"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}