{"id":29161,"date":"2015-10-05T19:36:46","date_gmt":"2015-10-05T17:36:46","guid":{"rendered":"https:\/\/www.embl.org\/ells\/teachingbase\/gfp-treasure-hunt\/step-2-comparison-of-nucleotide-sequences\/"},"modified":"2021-06-18T04:10:13","modified_gmt":"2021-06-18T04:10:13","slug":"step-2-comparison-of-nucleotide-sequences","status":"publish","type":"teachingbase","link":"https:\/\/www.embl.org\/ells\/teachingbase\/gfp-treasure-hunt\/step-2-comparison-of-nucleotide-sequences\/?lang=cs","title":{"rendered":"Krok 2: Porovn\u00e1n\u00ed nukleotidov\u00fdch sekvenc\u00ed"},"content":{"rendered":"\n<div class=\"vf-tabs\"><ul class=\"vf-tabs__list\" data-vf-js-tabs=\"true\"><li class=\"vf-tabs__item\"><a class=\"vf-tabs__link\" href=\"#vf-tabs__section-da0d437d-5f99-4d34-b6fa-c991f58a5130\">\u00davod<\/a><\/li><li class=\"vf-tabs__item\"><a class=\"vf-tabs__link\" href=\"#vf-tabs__section-78981bee-9962-4382-92d1-7136ffb3d4e5\">Va\u0161e \u00faloha<\/a><\/li><li class=\"vf-tabs__item\"><a class=\"vf-tabs__link\" href=\"#vf-tabs__section-9c0782e4-2aaa-4390-accc-3ea3048a359c\">MUSCLE<\/a><\/li><li class=\"vf-tabs__item\"><a class=\"vf-tabs__link\" href=\"#vf-tabs__section-d8ee530d-eb3f-41b4-9c68-04224aba4a8f\">Sekvence 1-4<\/a><\/li><li class=\"vf-tabs__item\"><a class=\"vf-tabs__link\" href=\"#vf-tabs__section-9dfee51b-0a31-47d0-a3de-4ab80431fd4d\">Ot\u00e1zky<\/a><\/li><li class=\"vf-tabs__item\"><a class=\"vf-tabs__link\" href=\"#vf-tabs__section-c65f4728-e341-4de9-af06-7c0c71a681fe\">Navigace aktivity<\/a><\/li><\/ul><div class=\"vf-tabs-content\" data-vf-js-tabs-content=\"true\">\n<section class=\"vf-tabs__section\" id=\"vf-tabs__section-da0d437d-5f99-4d34-b6fa-c991f58a5130\"><h2>\u00davod<\/h2>\n<p>K porovn\u00e1n\u00ed v\u0161ech nukleotidov\u00fdch sekvenc\u00ed najednou pou\u017eijeme online n\u00e1stroj EBI MUSCLE (European Bioinformatics Institute Multiple Sequence Comparison by Log-Expectation). MUSCLE vytv\u00e1\u0159\u00ed tzv. sekven\u010dn\u00ed p\u0159i\u0159azen\u00ed (<strong>sequence <\/strong><strong>alignments)<\/strong>. Tato p\u0159i\u0159azen\u00ed se n\u00e1sledn\u011b daj\u00ed pou\u017e\u00edt k vizualizaci a interpretaci vztah\u016f mezi sekvencemi, a n\u011bkdy dokonce k rozlu\u0161t\u011bn\u00ed vztah\u016f mezi biologick\u00fdmi druhy.Po skon\u010den\u00ed tohoto cvi\u010den\u00ed byste m\u011bli m\u00edt vytvo\u0159eno mnoho\u010detn\u00e9 p\u0159i\u0159azen\u00ed nukleotidov\u00fdch sekvenc\u00ed a m\u016f\u017eete tak zjistit, kter\u00e9 ze sekvenc\u00ed jsou si nejpodobn\u011bj\u0161\u00ed. Nukleotidov\u00e9 sekvence najdete v z\u00e1lo\u017ece &#8220;Sekvence&#8221;<\/p>\n<\/section>\n\n\n\n<section class=\"vf-tabs__section\" id=\"vf-tabs__section-78981bee-9962-4382-92d1-7136ffb3d4e5\"><h2>Va\u0161e \u00faloha<\/h2>\n<p><strong>Postupujte n\u00e1sledovn\u011b:<\/strong><\/p>\n\n\n\n<ol class=\"wp-block-list\"><li>Zkop\u00edrujte v\u0161echny nukleotidov\u00e9 sekvence ze z\u00e1lo\u017eky &#8220;Sekvence&#8221;&nbsp; (tj. vyberte a kop\u00edrujte cel\u00fd blok sekvenc\u00ed, nap\u0159. pomoc\u00ed Ctrl+C).<\/li><li>Vlo\u017ete sekvence do vstupn\u00edho pole programu MUSCLE. (pomoc\u00ed Ctrl + V).<\/li><li>\u0158i\u010fte se instrukcemi v z\u00e1lo\u017ece MUSCLE.<\/li><li>Prohl\u00e9dn\u011bte si v\u00fdsledek p\u0159i\u0159azen\u00ed a pokuste se odpov\u011bd\u011bt na ot\u00e1zky v z\u00e1lo\u017ece &#8220;Ot\u00e1zky&#8221;.<\/li><\/ol>\n<\/section>\n\n\n\n<section class=\"vf-tabs__section\" id=\"vf-tabs__section-9c0782e4-2aaa-4390-accc-3ea3048a359c\"><h2>MUSCLE<\/h2>\n<ol class=\"wp-block-list\"><li>Zkop\u00edrujte v\u0161echny nukleotidov\u00e9 sekvence ze z\u00e1lo\u017eky &#8220;Sekvence&#8221;&nbsp; (tj. vyberte a kop\u00edrujte cel\u00fd blok sekvenc\u00ed, nap\u0159. pomoc\u00ed Ctrl+C).<\/li><li>Vlo\u017ete sekvence do vstupn\u00edho pole programu MUSCLE. (pomoc\u00ed Ctrl + V).<\/li><li>V druh\u00e9m kroku (&#8220;STEP 2&#8221;) nastavte &#8220;<strong>Output Format<\/strong>&#8221; na <strong>&#8220;ClustalW&#8221;<\/strong>.<\/li><li>Klikn\u011bte na tla\u010d\u00edtko <strong>&#8220;Submit<\/strong>&#8220;, \u010d\u00edm\u017e ode\u0161lete va\u0161e sekvence serveru ke zpracov\u00e1n\u00ed.<\/li><li>Za n\u011bkolik sekund obdr\u017e\u00edte v\u00fdsledek. Pokuste se odpov\u011bd\u011bt na ot\u00e1zky v z\u00e1lo\u017ece &#8220;Ot\u00e1zky&#8221;.<\/li><\/ol>\n\n\n<div\n  class=\"vf-embed vf-embed--custom-ratio\"\n\n  style=\"--vf-embed-max-width: 100%;\n    --vf-embed-custom-ratio-x: 640;\n    --vf-embed-custom-ratio-y: 360;\"\n><iframe loading=\"lazy\" width=\"640\" height=\"360\" src=\"https:\/\/www.ebi.ac.uk\/Tools\/msa\/muscle\/\" frameborder=\"0\" allow=\"accelerometer; autoplay; encrypted-media; gyroscope; picture-in-picture\" allowfullscreen><\/iframe><\/div>\n<\/section>\n\n\n\n<section class=\"vf-tabs__section\" id=\"vf-tabs__section-d8ee530d-eb3f-41b4-9c68-04224aba4a8f\"><h2>Sekvence 1-4<\/h2>\n<details  class=\"vf-details\" id=\"\"  >\n<summary class=\"vf-details--summary\">\nSekvence 1<\/summary>\n<div class=\"acf-innerblocks-container\">\n\n<pre class=\"wp-block-preformatted\"><span style=\"word-break:break-all\"<\/span>&gt;Sequence1_AVGFP\nATGAGTAAAGGAGAAGAACTTTTCACTGGAGTGGTCCCAGTTCTTGTTGAATTAGATGGCGATGTTAATGGGCAAAAATTCTCTGTCAGTGGAGAGGGTGAAGGTGATGCAACATACGGAAAACTTACCCTTAATTTTATTTGCACTACTGGGAAGCTACCTGTTCCATGGCCAACACTTGTCACTACTTTCTCTTATGGTGTTCAATGCTTCTCAAGATACCCAGATCATATGAAACAGCATGACTTTTTCAAGAGTGCCATGCCCGAAGGTTATGTACAGGAAAGAACTATATTTTACAAAGATGACGGGAACTACAAGACACGTGCTGAAGTCAAGTTTGAAGGTGATACCCTTGTTAATAGAATCGAGTTAAAAGGTATTGATTTTAAAGAAGATGGAAACATTCTTGGACACAAAATGGAATACAACTATAACTCACATAATGTATACATCATGGGAGACAAACCAAAGAATGGCATCAAAGTTAACTTCAAAATTAGACACAACATTAAAGATGGAAGCGTTCAATTAGCAGACCATTATCAACAAAATACTCCAATTGGCGATGGCCCTGTCCTTTTACCAGACAACCATTACCTGTCCACACAATCTGCCCTTTCCAAAGATCCCAACGAAAAGAGAGATCACATGATCCTTCTTGAGTTTGTAACAGCTGCTAGGATTACACATGGCATGGATGAACTATACAAA<\/pre>\n\n<\/div>\n<\/details>\n\n\n\n<details  class=\"vf-details\" id=\"\"  >\n<summary class=\"vf-details--summary\">\nSekvence 2<\/summary>\n<div class=\"acf-innerblocks-container\">\n\n<pre class=\"wp-block-preformatted\"> <span style=\"word-break:break-all\"<\/span>&gt;Sequence2_GFPm\nATGTCTAAAGGTGAAGAATTATTCACTGGTGTTGTCCCAATTTTGGTTGAATTAGATGGTGATGTTAATGGTCACAAATTTTCTGTCTCCGGTGAAGGTGAAGGTGATGCTACTTACGGTAAATTGACCTTAAAATTTATTTGTACTACTGGTAAATTGCCAGTTCCATGGCCAACCTTAGTCACTACTTTCGGTTATGGTGTTCAATGTTTTGCTAGATACCCAGATCATATGAAACAACATGACTTTTTCAAGTCTGCCATGCCAGAAGGTTATGTTCAAGAAAGAACTATTTTTTTCAAAGATGACGGTAACTACAAGACCAGAGCTGAAGTCAAGTTTGAAGGTGATACCTTAGTTAATAGAATCGAATTAAAAGGTATTGATTTTAAAGAAGATGGTAACATTTTAGGTCACAAATTGGAATACAACTATAACTCTCACAATGTTTACATCATGGCTGACAAACAAAAGAATGGTATCAAAGTTAACTTCAAAATTAGACACAACATTGAAGATGGTTCTGTTCAATTAGCTGACCATTATCAACAAAATACTCCAATTGGTGATGGTCCAGTCTTGTTACCAGACAACCATTACTTATCCACTCAATCTGCCTTATCCAAAGATCCAAACGAAAAGAGAGACCACATGGTCTTGTTAGAATTTGTTACTGCTGCTGGTATTACCCATGGTATGGATGAATTGTACAAATAACTGCAG<\/pre>\n\n<\/div>\n<\/details>\n\n\n\n<details  class=\"vf-details\" id=\"\"  >\n<summary class=\"vf-details--summary\">\nSekvence 3<\/summary>\n<div class=\"acf-innerblocks-container\">\n\n<pre class=\"wp-block-preformatted\"><span style=\"word-break:break-all\"<\/span>&gt;Sequence3_YFP\nAATATTTTTATTAATTCATTAGAAAAATGAGAGGAAGGATTATTATGTTTAAAGGTATAGTAGAAGGTATAGGAATCATTGAAAAAATTGATATATATACTGACCTAGATAAGTATGCAATTCGATTTCCTGAAAATATGTTGAATGGAATTAAAAAGGAGTCGTCAATAATGTTTAACGGATGCTTCTTAACGGTAACTAGCGTGAATTCAAACATTGTCTGGTTTGATATATTTGAAAAAGAAGCACGTAAGCTTGATACTTTTCGGGAATATAAGGTAGGTGACCGAGTAAATTTAGGAACATTCCCAAAATTTGGCGCTGCATCTGGTGGGCATATATTATCAGCAAGGATTTCATGTGTAGCAAGTATTATTGAAATAATAGAAAATGAGGATTATCAACAAATGTGGATTCAAATTCCTGAAAATTTTACAGAGTTTCTTATTGATAAAGACTATATTGCTGTGGATGGTATTAGCTTAACTATTGACACTATAAAAAACAACCAATTTTTCATTAGTTTACCCTTAAAAATAGCACAAAATACAAATATGAAATGGCGAAAAAAAGGTGATAAGGTAAATGTTGAGTTATCAAACAAAATTAATGCTAACCAGTGTTGGTAATTTACTGAGGATAGTAAAAATGAACTGTTTAAAATAATATTTAAATTTTTATTTATAATACAGAGTCAGTTGTTGTAAATAGTCTGAGTGGTAAATAAGTTCTACCATTAATTAAATATTATCCATATTAAATAAAGGATCT<\/pre>\n\n<\/div>\n<\/details>\n\n\n\n<details  class=\"vf-details\" id=\"\"  >\n<summary class=\"vf-details--summary\">\nSekvence 4<\/summary>\n<div class=\"acf-innerblocks-container\">\n\n<pre class=\"wp-block-preformatted\"><span style=\"word-break:break-all\"<\/span>&gt;Sequence4_RFP\nAGTTTCAGCCAGTGACAGGGTGAGCTGCCAGGTATTCTAACAAGATGAGTTGTTCCAAGAATGTGATCAAGGAGTTCATGAGGTTCAAGGTTCGTATGGAAGGAACGGTCAATGGGCACGAGTTTGAAATAAAAGGCGAAGGTGAAGGGAGGCCTTACGAAGGTCACTGTTCCGTAAAGCTTATGGTAACCAAGGGTGGACCTTTGCCATTTGCTTTTGATATTTTGTCACCACAATTTCAGTATGGAAGCAAGGTATATGTCAAACACCCTGCCGACATACCAGACTATAAAAAGCTGTCATTTCCTGAGGGATTTAAATGGGAAAGGGTCATGAACTTTGAAGACGGTGGCGTGGTTACTGTATCCCAAGATTCCAGTTTGAAAGACGGCTGTTTCATCTACGAGGTCAAGTTCATTGGGGTGAACTTTCCTTCTGATGGACCTGTTATGCAGAGGAGGACACGGGGCTGGGAAGCCAGCTCTGAGCGTTTGTATCCTCGTGATGGGGTGCTGAAAGGAGACATCCATATGGCTCTGAGGCTGGAAGGAGGCGGCCATTACCTCGTTGAATTCAAAAGTATTTACATGGTAAAGAAGCCTTCAGTGCAGTTGCCAGGCTACTATTATGTTGACTCCAAACTGGATATGACGAGCCACAACGAAGATTACACAGTCGTTGAGCAGTATGAAAAAACCCAGGGACGCCACCATCCGTTCATTAAGCCTCTGCAGTGAACTCGGCTCAGTCATGGATTAGCGGTAATGGCCACAAAAGGCACGATGATCGTTTTTTAGGAATGCAGCCAAAAATTGAAGGTTATGACAGTAGAAATACAAGCAACAGGCTTTGCTTATTAAACATGTAATTGAAAAC<\/pre>\n\n<\/div>\n<\/details>\n<\/section>\n\n\n\n<section class=\"vf-tabs__section\" id=\"vf-tabs__section-9dfee51b-0a31-47d0-a3de-4ab80431fd4d\"><h2>Ot\u00e1zky<\/h2>\n<p>Projd\u011bte v\u00fdsledky p\u0159i\u0159azen\u00ed a pokuste se odpov\u011bd\u011bt na n\u00e1sleduj\u00edc\u00ed ot\u00e1zky:<\/p>\n\n\n\n<ul class=\"wp-block-list\"><li>Jak jednodu\u0161e zjist\u00edte, kter\u00e9 nukleotidy v jednotliv\u00fdch sekvenc\u00edch jsou identick\u00e9 nebo odli\u0161n\u00e9 v porovn\u00e1n\u00ed s ostatn\u00edmi sekvencemi?<\/li><li>P\u0159ipad\u00e1 v\u00e1m, \u017ee je identick\u00fdch nukletidov\u00fdch pozic sp\u00ed\u0161e v\u00edce, nebo m\u00e1lo? O\u010dek\u00e1vali jste jin\u00fd v\u00fdsledek?<\/li><li>Kter\u00e9 ze sekvenc\u00ed jsou si nejpodobn\u011bj\u0161\u00ed?<\/li><\/ul>\n<\/section>\n\n\n\n<section class=\"vf-tabs__section\" id=\"vf-tabs__section-c65f4728-e341-4de9-af06-7c0c71a681fe\"><h2>Navigace aktivity<\/h2>\n<p><a href=\"https:\/\/www.embl.org\/ells\/teachingbase\/gfp-treasure-hunt\/?lang=cs\">Honba za pokladem &#8211; GFP<\/a><\/p>\n\n\n\n<ul class=\"wp-block-list\"><li><a href=\"https:\/\/www.embl.org\/ells\/teachingbase\/gfp-treasure-hunt\/gfp-treasure-hunt-introduction\/?lang=cs\">Honba za pokladem &#8211; GFP &#8211; \u00favod<\/a><\/li><li><a href=\"https:\/\/www.embl.org\/ells\/teachingbase\/gfp-treasure-hunt\/step-1-database-search\/?lang=cs\">Krok 1: Vyhled\u00e1v\u00e1n\u00ed v datab\u00e1zi<\/a><\/li><li><a href=\"https:\/\/www.embl.org\/ells\/teachingbase\/gfp-treasure-hunt\/step-2-comparison-of-nucleotide-sequences\/?lang=cs\">Krok 2: Porovn\u00e1n\u00ed nukleotidov\u00fdch sekvenc\u00ed<\/a><\/li><li><strong><a href=\"https:\/\/www.embl.org\/ells\/teachingbase\/gfp-treasure-hunt\/step-3-translation-of-mrnas\/?lang=cs\">Krok 3: P\u0159eklad mRNA<\/a><\/strong><\/li><li><a href=\"https:\/\/www.embl.org\/ells\/teachingbase\/gfp-treasure-hunt\/step-4-comparison-of-amino-acid-sequences\/?lang=cs\">Krok 4: Srovn\u00e1n\u00ed aminokyselinov\u00fdch sekvenc\u00ed<\/a><\/li><li><a href=\"https:\/\/www.embl.org\/ells\/teachingbase\/gfp-treasure-hunt\/step-5-structure-of-gfp\/?lang=cs\">Krok 5: Struktura proteinu GFP<\/a><\/li><\/ul>\n<\/section>\n<\/div><\/div>\n\n\n\n<p><\/p>\n\n\n\n<p><\/p>\n\n\n\n<p><\/p>\n\n\n\n<p><\/p>\n","protected":false},"excerpt":{"rendered":"","protected":false},"featured_media":29162,"parent":28284,"menu_order":4,"template":"","class_list":["post-29161","teachingbase","type-teachingbase","status-publish","has-post-thumbnail","hentry"],"acf":[],"_links":{"self":[{"href":"https:\/\/www.embl.org\/ells\/wp-json\/wp\/v2\/teachingbase\/29161","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/www.embl.org\/ells\/wp-json\/wp\/v2\/teachingbase"}],"about":[{"href":"https:\/\/www.embl.org\/ells\/wp-json\/wp\/v2\/types\/teachingbase"}],"up":[{"embeddable":true,"href":"https:\/\/www.embl.org\/ells\/wp-json\/wp\/v2\/teachingbase\/28284"}],"wp:featuredmedia":[{"embeddable":true,"href":"https:\/\/www.embl.org\/ells\/wp-json\/wp\/v2\/media\/29162"}],"wp:attachment":[{"href":"https:\/\/www.embl.org\/ells\/wp-json\/wp\/v2\/media?parent=29161"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}