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<h2 class="hd hd-2 unit-title">Lecture 5.1</h2>
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<h3 class="hd hd-2">Lecture 5.1</h3>
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<h2 class="hd hd-2 unit-title">Reference Summary</h2>
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<h3><b>Restriction Endonucleases</b><h3>
<p> A <b>restriction endonuclease</b>, sometimes referred to simply as a restriction enzyme, cuts double-stranded DNA at palindrome sequences. Each restriction endonuclease cuts at one specific sequence. After being cut, the double-stranded DNA is left with "sticky ends". Different restriction endonucleases leave different types of sticky ends, which are reviewed below. </p>
<h3><b>Types of Sticky Ends</b></h3>
<p>SmalI leaves <strong>blunt ends</strong>:</p>
<img src='/assets/courseware/v1/c6136fb530d9e6bcd549ff1994a8ea29/asset-v1:OCW+Pre-7.01+1T2020+type@asset+block/u0_1.png'alt="This image shows the sequences of two complementary strands of D N A. Each strand has a red arrow that points between two of the bases to show how and where each D N A strand is cut by the S m a l 1 enzyme. The top strand is written as 5 prime C C C arrow G G G 3 prime. The bottom strand is written as 3 prime G G G arrow C C C 5 prime. As a result of the enzyme cutting, the following 2 double-stranded D N A products are shown. The first product has a top strand of 5 prime C C C 3 prime and a bottom strand of 3 prime G G G 5 prime. The second product has a top strand of 5 prime G G G 3 prime and a bottoms strand of 3 prime C C C 5 prime. ">
<br/> <br/>
<p> EcoRI leaves <u>sticky (5' overhang) ends</u>: </p>
<img src='/assets/courseware/v1/50553cc0bd118fa78f56689d5c448672/asset-v1:OCW+Pre-7.01+1T2020+type@asset+block/u0_2.png'alt="This image shows the sequences of two complementary strands of D N A. Each strand has a red arrow that points between two of the bases to show how and where each D N A strand is cut by the Eco R 1 enzyme to produce two L-shaped pieces. The top strand is written as 5 prime G arrow A A T T C 3 prime. The bottom strand is written as 3 prime C T T A A arrow G 5 prime. As a result of the enzyme cutting, the following 2 double-stranded D N A products are shown. The first product has a top strand of 5 prime G 3 prime and a bottom strand of 3 prime C T T A A 5 prime. The second product has a top strand of 5 prime A A T T C 3 prime and a bottoms strand of 3 prime G 5 prime.">
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<p> PstI leaves <u>sticky (3' overhang) ends</u>: </p>
<img src='/assets/courseware/v1/571cf667b17c0294cfb763169c9d32bc/asset-v1:OCW+Pre-7.01+1T2020+type@asset+block/u0_3.png'alt="This image shows the sequences of two complementary strands of D N A. Each strand has a red arrow that points between two of the bases to show how and where each D N A strand is cut by the P s t 1 enzyme to produce two L-shaped pieces. The top strand is written as 5 prime C T G C A arrow G 3 prime. The bottom strand is written as 3 prime G arrow A C G T C 5 prime. As a result of the enzyme cutting, the following 2 double-stranded D N A products are shown. The first product has a top strand of 5 prime C T G C A 3 prime and a bottom strand of 3 prime G 5 prime. The second product has a top strand of 5 prime G 3 prime and a bottoms strand of 3 prime A C G T C 5 prime.">
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<h2 class="hd hd-2 unit-title">Exercise 1 (Identifying products)</h2>
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<p>Here is the Hpa1 restriction cut site.</p>
<img src='/assets/courseware/v1/29c37813238300ac70f1b64fbf6a9bd3/asset-v1:OCW+Pre-7.01+1T2020+type@asset+block/u1.png' alt="This image shows the sequences of two complementary strands of D N A. There is a red line drawn to show how each each D N A strand is broken into two L-shaped pieces. The top strand is written as 5 prime G T T break A A C 3 prime. The bottom strand is written as 3 prime C A A break T T G 5 prime.">
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Question 1: Hpa1
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<div class="wrapper-problem-response" tabindex="-1" aria-label="Question 1" role="group"><p>Select the products that will form from cutting restriction site shown above with Hpa1.</p>
<p>(The arrows are the cut sites on each DNA strand.<br/>
Then separate the two DNA molecules.<br/>
Be sure to pay attention to the polarity of each molecule.)</p>
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<input type="radio" name="input_b520bed590df4627a8a2d84ad843e315_2_1" id="input_b520bed590df4627a8a2d84ad843e315_2_1_choice_2" class="field-input input-radio" value="choice_2"/><label id="b520bed590df4627a8a2d84ad843e315_2_1-choice_2-label" for="input_b520bed590df4627a8a2d84ad843e315_2_1_choice_2" class="response-label field-label label-inline" aria-describedby="status_b520bed590df4627a8a2d84ad843e315_2_1"> <img src="/assets/courseware/v1/198821a4942938194f328879c2db4594/asset-v1:OCW+Pre-7.01+1T2020+type@asset+block/5.1_ex1_q1_c.png" width="200" style="float:center;" alt="A possible product of the restriction cut site by H P A 1. The top strand reads 3 prime G T T cut A A C 5 prime. The bottom strand reads 5 prime C A A cut T T G 3 prime."/>
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<p>Here is the HindIII restriction cut site.</p>
<img src='/assets/courseware/v1/4a345576cdb5f07b62ede6fe55c12d04/asset-v1:OCW+Pre-7.01+1T2020+type@asset+block/u2.png' alt="This image shows the sequences of two complementary strands of D N A. There is a bent red line drawn to show how each each D N A strand is broken into two L-shaped pieces. The top strand is written as 5 prime A break A G C T T 3 prime. The bottom strand is written as 3 prime T T C G A break A 5 prime.">
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<h3 class="hd hd-3 problem-header" id="ba9ed767b9324c0d81c50434f5f94652-problem-title" aria-describedby="block-v1:OCW+Pre-7.01+1T2020+type@problem+block@ba9ed767b9324c0d81c50434f5f94652-problem-progress" tabindex="-1">
Question 2: HindIII
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<div class="wrapper-problem-response" tabindex="-1" aria-label="Question 1" role="group"><p>Select the products that will form from cutting restriction site shown just above with HindIII. .</p>
<p>(As is shown above, you can draw a line from one cut site to the other to show where the molecule splits.)</p>
<div class="choicegroup capa_inputtype" id="inputtype_ba9ed767b9324c0d81c50434f5f94652_2_1">
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<input type="radio" name="input_ba9ed767b9324c0d81c50434f5f94652_2_1" id="input_ba9ed767b9324c0d81c50434f5f94652_2_1_choice_0" class="field-input input-radio" value="choice_0"/><label id="ba9ed767b9324c0d81c50434f5f94652_2_1-choice_0-label" for="input_ba9ed767b9324c0d81c50434f5f94652_2_1_choice_0" class="response-label field-label label-inline" aria-describedby="status_ba9ed767b9324c0d81c50434f5f94652_2_1"> <img src="/assets/courseware/v1/8fc3fa94bfc707924ba6b5d813742fc1/asset-v1:OCW+Pre-7.01+1T2020+type@asset+block/5.1_ex1_q2_a.png" width="200" style="float:center;" alt="A possible product of the restriction cut site by Hind 3. The top strand reads 5 prime A A cut G C T T 3 prime. The bottom strand reads 3 prime T T C G cut A A 5 prime."/>
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<div class="field">
<input type="radio" name="input_ba9ed767b9324c0d81c50434f5f94652_2_1" id="input_ba9ed767b9324c0d81c50434f5f94652_2_1_choice_1" class="field-input input-radio" value="choice_1"/><label id="ba9ed767b9324c0d81c50434f5f94652_2_1-choice_1-label" for="input_ba9ed767b9324c0d81c50434f5f94652_2_1_choice_1" class="response-label field-label label-inline" aria-describedby="status_ba9ed767b9324c0d81c50434f5f94652_2_1"> <img src="/assets/courseware/v1/10b702bdb3081ef3acd5b0fdc161e860/asset-v1:OCW+Pre-7.01+1T2020+type@asset+block/5.1_ex1_q2_b.png" width="200" style="float:center;" alt="A possible product of the restriction cut site by Hind 3. The top strand reads 5 prime A cut A G C T T 3 prime. The bottom strand reads 3 prime T T C G A cut A 5 prime."/>
</label>
</div>
<div class="field">
<input type="radio" name="input_ba9ed767b9324c0d81c50434f5f94652_2_1" id="input_ba9ed767b9324c0d81c50434f5f94652_2_1_choice_2" class="field-input input-radio" value="choice_2"/><label id="ba9ed767b9324c0d81c50434f5f94652_2_1-choice_2-label" for="input_ba9ed767b9324c0d81c50434f5f94652_2_1_choice_2" class="response-label field-label label-inline" aria-describedby="status_ba9ed767b9324c0d81c50434f5f94652_2_1"> <img src="/assets/courseware/v1/078b2ecd7280ed25285f5600c7885f98/asset-v1:OCW+Pre-7.01+1T2020+type@asset+block/5.1_ex1_q2_c.png" width="200" style="float:center;" alt="A possible product of the restriction cut site by Hind 3. The top strand reads 3 prime A cut A G C T T 5 prime. The bottom strand reads 5 prime T T C G A cut A 3 prime."/>
</label>
</div>
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<input type="radio" name="input_ba9ed767b9324c0d81c50434f5f94652_2_1" id="input_ba9ed767b9324c0d81c50434f5f94652_2_1_choice_3" class="field-input input-radio" value="choice_3"/><label id="ba9ed767b9324c0d81c50434f5f94652_2_1-choice_3-label" for="input_ba9ed767b9324c0d81c50434f5f94652_2_1_choice_3" class="response-label field-label label-inline" aria-describedby="status_ba9ed767b9324c0d81c50434f5f94652_2_1"> <img src="/assets/courseware/v1/0dd6af7dc22fbea061a90f6049f9c560/asset-v1:OCW+Pre-7.01+1T2020+type@asset+block/5.1_ex1_q2_d.png" width="200" style="float:center;" alt="A possible product of the restriction cut site by Hind 3. The top strand reads 3 prime A A cut G C T T 5 prime. The bottom strand reads 5 prime T T C G cut A A 3 prime."/>
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<p>Here is the BamHI restriction cut site.</p>
<img src='/assets/courseware/v1/227f2ef05a1545f3c08ae9ebd02d5617/asset-v1:OCW+Pre-7.01+1T2020+type@asset+block/u3.png' alt="This image shows the sequences of two complementary strands of D N A. There are red slashes in the sequence to show where each D N A strand is being broken. The top strand is written as 5 prime G slash G A T C C 3 prime. The bottom strand is written as 3 prime C C T A G slash G 5 prime.">
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<h3 class="hd hd-3 problem-header" id="aed253a3bece4787ab5ff5f42d2cd175-problem-title" aria-describedby="block-v1:OCW+Pre-7.01+1T2020+type@problem+block@aed253a3bece4787ab5ff5f42d2cd175-problem-progress" tabindex="-1">
Question 3: BamHI
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<div class="wrapper-problem-response" tabindex="-1" aria-label="Question 1" role="group"><p>Select the products that will form from cutting restriction site shown just above with BamHI.</p>
<p>(We have used a slash to show the cut site.<br/>
You can add a line between cut sites to show how the molecule splits.)</p>
<div class="choicegroup capa_inputtype" id="inputtype_aed253a3bece4787ab5ff5f42d2cd175_2_1">
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<input type="radio" name="input_aed253a3bece4787ab5ff5f42d2cd175_2_1" id="input_aed253a3bece4787ab5ff5f42d2cd175_2_1_choice_0" class="field-input input-radio" value="choice_0"/><label id="aed253a3bece4787ab5ff5f42d2cd175_2_1-choice_0-label" for="input_aed253a3bece4787ab5ff5f42d2cd175_2_1_choice_0" class="response-label field-label label-inline" aria-describedby="status_aed253a3bece4787ab5ff5f42d2cd175_2_1"> <img src="/assets/courseware/v1/fa56471379bc9267d5c7ca840acdd6fb/asset-v1:OCW+Pre-7.01+1T2020+type@asset+block/5.1_ex1_q3_a.png" width="200" style="float:center;" alt="A possible product of the restriction cut site by Bam H 1. The top strand reads 5 prime G cut G A T C C 3 prime. The bottom strand reads 3 prime C C T A G cut G 5 prime."/>
</label>
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<input type="radio" name="input_aed253a3bece4787ab5ff5f42d2cd175_2_1" id="input_aed253a3bece4787ab5ff5f42d2cd175_2_1_choice_1" class="field-input input-radio" value="choice_1"/><label id="aed253a3bece4787ab5ff5f42d2cd175_2_1-choice_1-label" for="input_aed253a3bece4787ab5ff5f42d2cd175_2_1_choice_1" class="response-label field-label label-inline" aria-describedby="status_aed253a3bece4787ab5ff5f42d2cd175_2_1"> <img src="/assets/courseware/v1/606c351bcb64824ed61b3b90877dc335/asset-v1:OCW+Pre-7.01+1T2020+type@asset+block/5.1_ex1_q3_b.png" width="200" style="float:center;" alt="A possible product of the restriction cut site by Bam H 1. The top strand reads 3 prime G G A T C cut C 5 prime. The bottom strand reads 5 prime C cut C T A G G 3 prime."/>
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<div class="field">
<input type="radio" name="input_aed253a3bece4787ab5ff5f42d2cd175_2_1" id="input_aed253a3bece4787ab5ff5f42d2cd175_2_1_choice_2" class="field-input input-radio" value="choice_2"/><label id="aed253a3bece4787ab5ff5f42d2cd175_2_1-choice_2-label" for="input_aed253a3bece4787ab5ff5f42d2cd175_2_1_choice_2" class="response-label field-label label-inline" aria-describedby="status_aed253a3bece4787ab5ff5f42d2cd175_2_1"> <img src="/assets/courseware/v1/ddbf01fc62d1091e187732c97c3755b3/asset-v1:OCW+Pre-7.01+1T2020+type@asset+block/5.1_ex1_q3_c.png" width="200" style="float:center;" alt="A possible product of the restriction cut site by Bam H 1. The top strand reads 3 prime G cut G A T C C 5 prime. The bottom strand reads 5 prime C C T A G cut G 3 prime."/>
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<input type="radio" name="input_aed253a3bece4787ab5ff5f42d2cd175_2_1" id="input_aed253a3bece4787ab5ff5f42d2cd175_2_1_choice_3" class="field-input input-radio" value="choice_3"/><label id="aed253a3bece4787ab5ff5f42d2cd175_2_1-choice_3-label" for="input_aed253a3bece4787ab5ff5f42d2cd175_2_1_choice_3" class="response-label field-label label-inline" aria-describedby="status_aed253a3bece4787ab5ff5f42d2cd175_2_1"> <img src="/assets/courseware/v1/6e575d4d523d39c96dc6a7189f2c52ba/asset-v1:OCW+Pre-7.01+1T2020+type@asset+block/5.1_ex1_q3_d.png" width="200" style="float:center;" alt="A possible product of the restriction cut site by Bam H 1. The top strand reads 5 prime G G A T C cut C 3 prime. The bottom strand reads 3 prime C cut C T A G G 5 prime."/>
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<p>Here is the SphI restriction cut site.</p>
<img src='/assets/courseware/v1/8fa4361556cc284b785bd12300aaa118/asset-v1:OCW+Pre-7.01+1T2020+type@asset+block/u4.png' alt="This image shows the sequences of two complementary strands of D N A. There are slashes in the sequence to show where each D N A strand is being broken. The top strand is written as 5 prime G C A T G slash C 3 prime. The bottom strand is written as 3 prime C slash G T A C G 5 prime.">
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aria-labelledby="ad62e23f1cbe4a958ac79f9ef2dbe5a4-problem-title"
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Question 4: SphI
</h3>
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<div class="wrapper-problem-response" tabindex="-1" aria-label="Question 1" role="group"><p>Select the products that will form from cutting restriction site shown just above with SphI.</p>
<div class="choicegroup capa_inputtype" id="inputtype_ad62e23f1cbe4a958ac79f9ef2dbe5a4_2_1">
<fieldset aria-describedby="status_ad62e23f1cbe4a958ac79f9ef2dbe5a4_2_1">
<div class="field">
<input type="radio" name="input_ad62e23f1cbe4a958ac79f9ef2dbe5a4_2_1" id="input_ad62e23f1cbe4a958ac79f9ef2dbe5a4_2_1_choice_0" class="field-input input-radio" value="choice_0"/><label id="ad62e23f1cbe4a958ac79f9ef2dbe5a4_2_1-choice_0-label" for="input_ad62e23f1cbe4a958ac79f9ef2dbe5a4_2_1_choice_0" class="response-label field-label label-inline" aria-describedby="status_ad62e23f1cbe4a958ac79f9ef2dbe5a4_2_1"> <img src="/assets/courseware/v1/526a7d558d82fbe64790e89950698625/asset-v1:OCW+Pre-7.01+1T2020+type@asset+block/5.1_ex1_q4_a.png" width="200" style="float:center;" alt="A possible product of the restriction cut site by S P H 1. The top strand reads 5 prime G C A T G cut C 3 prime. The bottom strand reads 3 prime C cut G T A C G 5 prime."/>
</label>
</div>
<div class="field">
<input type="radio" name="input_ad62e23f1cbe4a958ac79f9ef2dbe5a4_2_1" id="input_ad62e23f1cbe4a958ac79f9ef2dbe5a4_2_1_choice_1" class="field-input input-radio" value="choice_1"/><label id="ad62e23f1cbe4a958ac79f9ef2dbe5a4_2_1-choice_1-label" for="input_ad62e23f1cbe4a958ac79f9ef2dbe5a4_2_1_choice_1" class="response-label field-label label-inline" aria-describedby="status_ad62e23f1cbe4a958ac79f9ef2dbe5a4_2_1"> <img src="/assets/courseware/v1/164faa8e6ad61dca18b56a1676c99a66/asset-v1:OCW+Pre-7.01+1T2020+type@asset+block/5.1_ex1_q4_b.png" width="200" style="float:center;" alt="A possible product of the restriction cut site by S P H 1. The top strand reads 3 prime G cut C A T G C 5 prime. The bottom strand reads 5 prime C G T A C cut G 3 prime."/>
</label>
</div>
<div class="field">
<input type="radio" name="input_ad62e23f1cbe4a958ac79f9ef2dbe5a4_2_1" id="input_ad62e23f1cbe4a958ac79f9ef2dbe5a4_2_1_choice_2" class="field-input input-radio" value="choice_2"/><label id="ad62e23f1cbe4a958ac79f9ef2dbe5a4_2_1-choice_2-label" for="input_ad62e23f1cbe4a958ac79f9ef2dbe5a4_2_1_choice_2" class="response-label field-label label-inline" aria-describedby="status_ad62e23f1cbe4a958ac79f9ef2dbe5a4_2_1"> <img src="/assets/courseware/v1/0e7ab1122fc7f4ad05628bc9199e223f/asset-v1:OCW+Pre-7.01+1T2020+type@asset+block/5.1_ex1_q4_c.png" width="200" style="float:center;" alt="A possible product of the restriction cut site by S P H 1. The top strand reads 5 prime G cut C A T G C 3 prime. The bottom strand reads 3 prime C G T A C cut G 5 prime."/>
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<input type="radio" name="input_ad62e23f1cbe4a958ac79f9ef2dbe5a4_2_1" id="input_ad62e23f1cbe4a958ac79f9ef2dbe5a4_2_1_choice_3" class="field-input input-radio" value="choice_3"/><label id="ad62e23f1cbe4a958ac79f9ef2dbe5a4_2_1-choice_3-label" for="input_ad62e23f1cbe4a958ac79f9ef2dbe5a4_2_1_choice_3" class="response-label field-label label-inline" aria-describedby="status_ad62e23f1cbe4a958ac79f9ef2dbe5a4_2_1"> <img src="/assets/courseware/v1/26bfa2876552176db3520aaa836f69b4/asset-v1:OCW+Pre-7.01+1T2020+type@asset+block/5.1_ex1_q4_d.png" width="200" style="float:center;" alt="A possible product of the restriction cut site by S P H 1. The top strand reads 3 prime G C A T G cut C 5 prime. The bottom strand reads 5 prime C cut G T A C G 3 prime."/>
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<h2 class="hd hd-2 unit-title">Exercise 2 (Types of sticky ends)</h2>
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<div class="vert vert-0" data-id="block-v1:OCW+Pre-7.01+1T2020+type@html+block@4be61a95f3404dcdab69ffdd2dff84ae">
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<p>Here is the AluI restriction cut site.</p>
<img src='/assets/courseware/v1/19f202cbef711074ed7a21fe06536813/asset-v1:OCW+Pre-7.01+1T2020+type@asset+block/u5.png' alt="This image shows the sequences of two complementary strands of D N A. There are slashes in the sequence to show where each D N A strand is being broken. The top strand is written as 5 prime A G slash C T 3 prime. The bottom strand is written as 3 prime T C slash G A 5 prime.">
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Question 1: AluI
</h3>
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<div class="wrapper-problem-response" tabindex="-1" aria-label="Question 1" role="group"><p>Select the products that will form from cutting restriction site shown just above with AluI.</p>
<div class="choicegroup capa_inputtype" id="inputtype_6f15c5df2e4b4f7f8e90ca17a9afc9e7_2_1">
<fieldset aria-describedby="status_6f15c5df2e4b4f7f8e90ca17a9afc9e7_2_1">
<div class="field">
<input type="radio" name="input_6f15c5df2e4b4f7f8e90ca17a9afc9e7_2_1" id="input_6f15c5df2e4b4f7f8e90ca17a9afc9e7_2_1_choice_0" class="field-input input-radio" value="choice_0"/><label id="6f15c5df2e4b4f7f8e90ca17a9afc9e7_2_1-choice_0-label" for="input_6f15c5df2e4b4f7f8e90ca17a9afc9e7_2_1_choice_0" class="response-label field-label label-inline" aria-describedby="status_6f15c5df2e4b4f7f8e90ca17a9afc9e7_2_1"> <img src="/assets/courseware/v1/96cc8a3279e39b33bfb6be84608ab562/asset-v1:OCW+Pre-7.01+1T2020+type@asset+block/5.1_ex2_q1_a.png" width="200" style="float:center;" alt="A possible product of the restriction cut site by A L U 1. The top strand reads 3 prime A G cut C T 5 prime. The bottom strand reads 5 prime T C cut G A 3 prime."/>
</label>
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<div class="field">
<input type="radio" name="input_6f15c5df2e4b4f7f8e90ca17a9afc9e7_2_1" id="input_6f15c5df2e4b4f7f8e90ca17a9afc9e7_2_1_choice_1" class="field-input input-radio" value="choice_1"/><label id="6f15c5df2e4b4f7f8e90ca17a9afc9e7_2_1-choice_1-label" for="input_6f15c5df2e4b4f7f8e90ca17a9afc9e7_2_1_choice_1" class="response-label field-label label-inline" aria-describedby="status_6f15c5df2e4b4f7f8e90ca17a9afc9e7_2_1"> <img src="/assets/courseware/v1/a29b484b08aed193f9505ef1929cabcd/asset-v1:OCW+Pre-7.01+1T2020+type@asset+block/5.1_ex2_q1_b.png" width="200" style="float:center;" alt="A possible product of the restriction cut site by A L U 1. The top strand reads 5 prime A cut G C T 3 prime. The bottom strand reads 3 prime T C G cut A 5 prime."/>
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</div>
<div class="field">
<input type="radio" name="input_6f15c5df2e4b4f7f8e90ca17a9afc9e7_2_1" id="input_6f15c5df2e4b4f7f8e90ca17a9afc9e7_2_1_choice_2" class="field-input input-radio" value="choice_2"/><label id="6f15c5df2e4b4f7f8e90ca17a9afc9e7_2_1-choice_2-label" for="input_6f15c5df2e4b4f7f8e90ca17a9afc9e7_2_1_choice_2" class="response-label field-label label-inline" aria-describedby="status_6f15c5df2e4b4f7f8e90ca17a9afc9e7_2_1"> <img src="/assets/courseware/v1/9d4f5110bf3fe217dbdc666dbb96cca0/asset-v1:OCW+Pre-7.01+1T2020+type@asset+block/5.1_ex2_q1_c.png" width="200" style="float:center;" alt="A possible product of the restriction cut site by A L U 1. The top strand reads 5 prime A G cut C T 3 prime. The bottom strand reads 3 prime T C cut G A 5 prime."/>
</label>
</div>
<div class="field">
<input type="radio" name="input_6f15c5df2e4b4f7f8e90ca17a9afc9e7_2_1" id="input_6f15c5df2e4b4f7f8e90ca17a9afc9e7_2_1_choice_3" class="field-input input-radio" value="choice_3"/><label id="6f15c5df2e4b4f7f8e90ca17a9afc9e7_2_1-choice_3-label" for="input_6f15c5df2e4b4f7f8e90ca17a9afc9e7_2_1_choice_3" class="response-label field-label label-inline" aria-describedby="status_6f15c5df2e4b4f7f8e90ca17a9afc9e7_2_1"> <img src="/assets/courseware/v1/a64336d18fe79505d0d3b5530d65a186/asset-v1:OCW+Pre-7.01+1T2020+type@asset+block/5.1_ex2_q1_d.png" width="200" style="float:center;" alt="A possible product of the restriction cut site by A L U 1. The top strand reads 3 prime A cut G C T 5 prime. The bottom strand reads 5 prime T C G cut A 3 prime."/>
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data-problem-id="block-v1:OCW+Pre-7.01+1T2020+type@problem+block@d6a034aeefca45fb805f6c611b357110" data-url="/courses/course-v1:OCW+Pre-7.01+1T2020/xblock/block-v1:OCW+Pre-7.01+1T2020+type@problem+block@d6a034aeefca45fb805f6c611b357110/handler/xmodule_handler"
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Question 2: AluI
</h3>
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<p>Cutting with AluI leaves ___________.</p>
<p>Check all responses that accurately complete the phrase above.</p>
<div class="wrapper-problem-response" tabindex="-1" aria-label="Question 1" role="group"><div class="choicegroup capa_inputtype" id="inputtype_d6a034aeefca45fb805f6c611b357110_2_1">
<fieldset aria-describedby="status_d6a034aeefca45fb805f6c611b357110_2_1">
<div class="field">
<input type="checkbox" name="input_d6a034aeefca45fb805f6c611b357110_2_1[]" id="input_d6a034aeefca45fb805f6c611b357110_2_1_choice_0" class="field-input input-checkbox" value="choice_0"/><label id="d6a034aeefca45fb805f6c611b357110_2_1-choice_0-label" for="input_d6a034aeefca45fb805f6c611b357110_2_1_choice_0" class="response-label field-label label-inline" aria-describedby="status_d6a034aeefca45fb805f6c611b357110_2_1"> blunt ends
</label>
</div>
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<input type="checkbox" name="input_d6a034aeefca45fb805f6c611b357110_2_1[]" id="input_d6a034aeefca45fb805f6c611b357110_2_1_choice_1" class="field-input input-checkbox" value="choice_1"/><label id="d6a034aeefca45fb805f6c611b357110_2_1-choice_1-label" for="input_d6a034aeefca45fb805f6c611b357110_2_1_choice_1" class="response-label field-label label-inline" aria-describedby="status_d6a034aeefca45fb805f6c611b357110_2_1"> sticky ends
</label>
</div>
<div class="field">
<input type="checkbox" name="input_d6a034aeefca45fb805f6c611b357110_2_1[]" id="input_d6a034aeefca45fb805f6c611b357110_2_1_choice_2" class="field-input input-checkbox" value="choice_2"/><label id="d6a034aeefca45fb805f6c611b357110_2_1-choice_2-label" for="input_d6a034aeefca45fb805f6c611b357110_2_1_choice_2" class="response-label field-label label-inline" aria-describedby="status_d6a034aeefca45fb805f6c611b357110_2_1"> 5' overhangs
</label>
</div>
<div class="field">
<input type="checkbox" name="input_d6a034aeefca45fb805f6c611b357110_2_1[]" id="input_d6a034aeefca45fb805f6c611b357110_2_1_choice_3" class="field-input input-checkbox" value="choice_3"/><label id="d6a034aeefca45fb805f6c611b357110_2_1-choice_3-label" for="input_d6a034aeefca45fb805f6c611b357110_2_1_choice_3" class="response-label field-label label-inline" aria-describedby="status_d6a034aeefca45fb805f6c611b357110_2_1"> 3' overhangs
</label>
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Note: Select all correct options!
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<div class="xblock xblock-public_view xblock-public_view-html xmodule_display xmodule_HtmlBlock" data-usage-id="block-v1:OCW+Pre-7.01+1T2020+type@html+block@787eaf2f066543048d5f92d66818e6bd" data-block-type="html" data-graded="False" data-course-id="course-v1:OCW+Pre-7.01+1T2020" data-has-score="False" data-request-token="0c6d6ed0852111ef8f53023e4242adeb" data-init="XBlockToXModuleShim" data-runtime-class="LmsRuntime" data-runtime-version="1">
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<p>Here is the KpnI restriction cut site.</p>
<img src='/assets/courseware/v1/53a495b320ca583f5806c29c473efd7a/asset-v1:OCW+Pre-7.01+1T2020+type@asset+block/u6.png' alt="This image shows the sequences of two complementary strands of D N A. There are slashes in the sequence to show where each D N A strand is being broken. The top strand is written as 5 prime G G T A C slash C 3 prime. The bottom strand is written as 3 prime C slash C A T G G 5 prime.">
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<h3 class="hd hd-3 problem-header" id="db2bdc98044a471ba0bc5c550bba7a5d-problem-title" aria-describedby="block-v1:OCW+Pre-7.01+1T2020+type@problem+block@db2bdc98044a471ba0bc5c550bba7a5d-problem-progress" tabindex="-1">
Question 3: KpnI
</h3>
<div class="problem-progress" id="block-v1:OCW+Pre-7.01+1T2020+type@problem+block@db2bdc98044a471ba0bc5c550bba7a5d-problem-progress"></div>
<div class="problem">
<div>
<div class="wrapper-problem-response" tabindex="-1" aria-label="Question 1" role="group"><p>Select the products that will form from cutting restriction site shown just above with KpnI.</p>
<div class="choicegroup capa_inputtype" id="inputtype_db2bdc98044a471ba0bc5c550bba7a5d_2_1">
<fieldset aria-describedby="status_db2bdc98044a471ba0bc5c550bba7a5d_2_1">
<div class="field">
<input type="radio" name="input_db2bdc98044a471ba0bc5c550bba7a5d_2_1" id="input_db2bdc98044a471ba0bc5c550bba7a5d_2_1_choice_0" class="field-input input-radio" value="choice_0"/><label id="db2bdc98044a471ba0bc5c550bba7a5d_2_1-choice_0-label" for="input_db2bdc98044a471ba0bc5c550bba7a5d_2_1_choice_0" class="response-label field-label label-inline" aria-describedby="status_db2bdc98044a471ba0bc5c550bba7a5d_2_1"> <img src="/assets/courseware/v1/724641b41a5e607ccf956aaa95f3fa80/asset-v1:OCW+Pre-7.01+1T2020+type@asset+block/5.1_ex2_q3_a.png" width="200" style="float:center;" alt="A possible product of the restriction cut site by K P N 1. The top strand reads 3 prime G cut G T A C C 5 prime. The bottom strand reads 5 prime C C A T G cut G 3 prime."/>
</label>
</div>
<div class="field">
<input type="radio" name="input_db2bdc98044a471ba0bc5c550bba7a5d_2_1" id="input_db2bdc98044a471ba0bc5c550bba7a5d_2_1_choice_1" class="field-input input-radio" value="choice_1"/><label id="db2bdc98044a471ba0bc5c550bba7a5d_2_1-choice_1-label" for="input_db2bdc98044a471ba0bc5c550bba7a5d_2_1_choice_1" class="response-label field-label label-inline" aria-describedby="status_db2bdc98044a471ba0bc5c550bba7a5d_2_1"> <img src="/assets/courseware/v1/02eafa49d81095ab6b465664522144e7/asset-v1:OCW+Pre-7.01+1T2020+type@asset+block/5.1_ex2_q3_b.png" width="200" style="float:center;" alt="A possible product of the restriction cut site by K P N 1. The top strand reads 3 prime G G T A C cut C 5 prime. The bottom strand reads 5 prime C cut C A T G G 3 prime."/>
</label>
</div>
<div class="field">
<input type="radio" name="input_db2bdc98044a471ba0bc5c550bba7a5d_2_1" id="input_db2bdc98044a471ba0bc5c550bba7a5d_2_1_choice_2" class="field-input input-radio" value="choice_2"/><label id="db2bdc98044a471ba0bc5c550bba7a5d_2_1-choice_2-label" for="input_db2bdc98044a471ba0bc5c550bba7a5d_2_1_choice_2" class="response-label field-label label-inline" aria-describedby="status_db2bdc98044a471ba0bc5c550bba7a5d_2_1"> <img src="/assets/courseware/v1/58fbbd23cf4fa4f102be1da20ff9a755/asset-v1:OCW+Pre-7.01+1T2020+type@asset+block/5.1_ex2_q3_c.png" width="200" style="float:center;" alt="A possible product of the restriction cut site by K P N 1. The top strand reads 5 prime G cut G T A C C 3 prime. The bottom strand reads 3 prime C C A T G cut G 5 prime."/>
</label>
</div>
<div class="field">
<input type="radio" name="input_db2bdc98044a471ba0bc5c550bba7a5d_2_1" id="input_db2bdc98044a471ba0bc5c550bba7a5d_2_1_choice_3" class="field-input input-radio" value="choice_3"/><label id="db2bdc98044a471ba0bc5c550bba7a5d_2_1-choice_3-label" for="input_db2bdc98044a471ba0bc5c550bba7a5d_2_1_choice_3" class="response-label field-label label-inline" aria-describedby="status_db2bdc98044a471ba0bc5c550bba7a5d_2_1"> <img src="/assets/courseware/v1/53090b9ebaac0ffe28f284ea06db533e/asset-v1:OCW+Pre-7.01+1T2020+type@asset+block/5.1_ex2_q3_d.png" width="200" style="float:center;" alt="A possible product of the restriction cut site by K P N 1. The top strand reads 5 prime G G T A C cut C 3 prime. The bottom strand reads 3 prime C cut C A T G G 5 prime."/>
</label>
</div>
<span id="answer_db2bdc98044a471ba0bc5c550bba7a5d_2_1"/>
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<h3 class="hd hd-3 problem-header" id="72baf67593784f2380d2635f4a6e08f6-problem-title" aria-describedby="block-v1:OCW+Pre-7.01+1T2020+type@problem+block@72baf67593784f2380d2635f4a6e08f6-problem-progress" tabindex="-1">
Question 4: KpnI
</h3>
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<p>Cutting with KpnI leaves ___________.</p>
<p>Check all responses that accurately complete the phrase above.</p>
<div class="wrapper-problem-response" tabindex="-1" aria-label="Question 1" role="group"><div class="choicegroup capa_inputtype" id="inputtype_72baf67593784f2380d2635f4a6e08f6_2_1">
<fieldset aria-describedby="status_72baf67593784f2380d2635f4a6e08f6_2_1">
<div class="field">
<input type="checkbox" name="input_72baf67593784f2380d2635f4a6e08f6_2_1[]" id="input_72baf67593784f2380d2635f4a6e08f6_2_1_choice_0" class="field-input input-checkbox" value="choice_0"/><label id="72baf67593784f2380d2635f4a6e08f6_2_1-choice_0-label" for="input_72baf67593784f2380d2635f4a6e08f6_2_1_choice_0" class="response-label field-label label-inline" aria-describedby="status_72baf67593784f2380d2635f4a6e08f6_2_1"> blunt ends.
</label>
</div>
<div class="field">
<input type="checkbox" name="input_72baf67593784f2380d2635f4a6e08f6_2_1[]" id="input_72baf67593784f2380d2635f4a6e08f6_2_1_choice_1" class="field-input input-checkbox" value="choice_1"/><label id="72baf67593784f2380d2635f4a6e08f6_2_1-choice_1-label" for="input_72baf67593784f2380d2635f4a6e08f6_2_1_choice_1" class="response-label field-label label-inline" aria-describedby="status_72baf67593784f2380d2635f4a6e08f6_2_1"> sticky ends.
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<div class="field">
<input type="checkbox" name="input_72baf67593784f2380d2635f4a6e08f6_2_1[]" id="input_72baf67593784f2380d2635f4a6e08f6_2_1_choice_2" class="field-input input-checkbox" value="choice_2"/><label id="72baf67593784f2380d2635f4a6e08f6_2_1-choice_2-label" for="input_72baf67593784f2380d2635f4a6e08f6_2_1_choice_2" class="response-label field-label label-inline" aria-describedby="status_72baf67593784f2380d2635f4a6e08f6_2_1"> 5' overhangs.
</label>
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<div class="field">
<input type="checkbox" name="input_72baf67593784f2380d2635f4a6e08f6_2_1[]" id="input_72baf67593784f2380d2635f4a6e08f6_2_1_choice_3" class="field-input input-checkbox" value="choice_3"/><label id="72baf67593784f2380d2635f4a6e08f6_2_1-choice_3-label" for="input_72baf67593784f2380d2635f4a6e08f6_2_1_choice_3" class="response-label field-label label-inline" aria-describedby="status_72baf67593784f2380d2635f4a6e08f6_2_1"> 3' overhangs.
</label>
</div>
<span id="answer_72baf67593784f2380d2635f4a6e08f6_2_1"/>
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<p>
Note: Select all correct options!
</p>
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<p>Here is the NotI restriction cut site.</p>
<img src='/assets/courseware/v1/f3383a3349c9df9f92bdf699a9df16c3/asset-v1:OCW+Pre-7.01+1T2020+type@asset+block/u7.png' alt="This image shows the sequences of two complementary strands of D N A. There are slashes in the sequence to show where each D N A strand is being broken. The top strand is written as 5 prime G C slash G G C C G C 3 prime. The bottom strand is written as 3 prime C G C C G G slash C G 5 prime.">
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<h3 class="hd hd-3 problem-header" id="b019c0f0c2a547d5b7742256dc51349d-problem-title" aria-describedby="block-v1:OCW+Pre-7.01+1T2020+type@problem+block@b019c0f0c2a547d5b7742256dc51349d-problem-progress" tabindex="-1">
Question 5: NotI
</h3>
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<div class="wrapper-problem-response" tabindex="-1" aria-label="Question 1" role="group"><p>Select the products that will form from cutting restriction site shown just above with NotI.</p>
<div class="choicegroup capa_inputtype" id="inputtype_b019c0f0c2a547d5b7742256dc51349d_2_1">
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<input type="radio" name="input_b019c0f0c2a547d5b7742256dc51349d_2_1" id="input_b019c0f0c2a547d5b7742256dc51349d_2_1_choice_0" class="field-input input-radio" value="choice_0"/><label id="b019c0f0c2a547d5b7742256dc51349d_2_1-choice_0-label" for="input_b019c0f0c2a547d5b7742256dc51349d_2_1_choice_0" class="response-label field-label label-inline" aria-describedby="status_b019c0f0c2a547d5b7742256dc51349d_2_1"> <img src="/assets/courseware/v1/27145a65f9919e8114b2bb7ec2f38f82/asset-v1:OCW+Pre-7.01+1T2020+type@asset+block/5.1_ex2_q5_a.png" width="200" style="float:center;" alt="A possible product of the restriction cut site by Not 1. The top strand reads 5 prime G C G G cut C C G C 3 prime. The bottom strand reads 3 prime C G C C cut G G C G 5 prime."/>
</label>
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<input type="radio" name="input_b019c0f0c2a547d5b7742256dc51349d_2_1" id="input_b019c0f0c2a547d5b7742256dc51349d_2_1_choice_1" class="field-input input-radio" value="choice_1"/><label id="b019c0f0c2a547d5b7742256dc51349d_2_1-choice_1-label" for="input_b019c0f0c2a547d5b7742256dc51349d_2_1_choice_1" class="response-label field-label label-inline" aria-describedby="status_b019c0f0c2a547d5b7742256dc51349d_2_1"> <img src="/assets/courseware/v1/bcd368de5957fb4d8495245d5b694c76/asset-v1:OCW+Pre-7.01+1T2020+type@asset+block/5.1_ex2_q5_b.png" width="200" style="float:center;" alt="A possible product of the restriction cut site by Not 1. The top strand reads 5 prime G C G G C C cut G C 3 prime. The bottom strand reads 3 prime C G cut C C G G C G 5 prime."/>
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<input type="radio" name="input_b019c0f0c2a547d5b7742256dc51349d_2_1" id="input_b019c0f0c2a547d5b7742256dc51349d_2_1_choice_2" class="field-input input-radio" value="choice_2"/><label id="b019c0f0c2a547d5b7742256dc51349d_2_1-choice_2-label" for="input_b019c0f0c2a547d5b7742256dc51349d_2_1_choice_2" class="response-label field-label label-inline" aria-describedby="status_b019c0f0c2a547d5b7742256dc51349d_2_1"> <img src="/assets/courseware/v1/261733d03b0d672cdb36a1b0f7bd5471/asset-v1:OCW+Pre-7.01+1T2020+type@asset+block/5.1_ex2_q5_c.png" width="200" style="float:center;" alt="A possible product of the restriction cut site by Not 1. The top strand reads 5 prime G C cut G G C C G C 3 prime. The bottom strand reads 3 prime C G C C G G cut C G 5 prime."/>
</label>
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<input type="radio" name="input_b019c0f0c2a547d5b7742256dc51349d_2_1" id="input_b019c0f0c2a547d5b7742256dc51349d_2_1_choice_3" class="field-input input-radio" value="choice_3"/><label id="b019c0f0c2a547d5b7742256dc51349d_2_1-choice_3-label" for="input_b019c0f0c2a547d5b7742256dc51349d_2_1_choice_3" class="response-label field-label label-inline" aria-describedby="status_b019c0f0c2a547d5b7742256dc51349d_2_1"> <img src="/assets/courseware/v1/efd5f6bf448eec60ce5ed38a8d95a4ab/asset-v1:OCW+Pre-7.01+1T2020+type@asset+block/5.1_ex2_q5_d.png" width="200" style="float:center;" alt="A possible product of the restriction cut site by Not 1. The top strand reads 5 prime G C G G C cut C G C 3 prime. The bottom strand reads 3 prime C G C cut C G G C G 5 prime."/>
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Question 6: NotI
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<p>Cutting with NotI leaves ___________.</p>
<p>Check all responses that accurately complete the phrase above.</p>
<div class="wrapper-problem-response" tabindex="-1" aria-label="Question 1" role="group"><div class="choicegroup capa_inputtype" id="inputtype_9c5780a254fb4d00a5f506a3eb02fea1_2_1">
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<input type="checkbox" name="input_9c5780a254fb4d00a5f506a3eb02fea1_2_1[]" id="input_9c5780a254fb4d00a5f506a3eb02fea1_2_1_choice_0" class="field-input input-checkbox" value="choice_0"/><label id="9c5780a254fb4d00a5f506a3eb02fea1_2_1-choice_0-label" for="input_9c5780a254fb4d00a5f506a3eb02fea1_2_1_choice_0" class="response-label field-label label-inline" aria-describedby="status_9c5780a254fb4d00a5f506a3eb02fea1_2_1"> blunt ends.
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<input type="checkbox" name="input_9c5780a254fb4d00a5f506a3eb02fea1_2_1[]" id="input_9c5780a254fb4d00a5f506a3eb02fea1_2_1_choice_1" class="field-input input-checkbox" value="choice_1"/><label id="9c5780a254fb4d00a5f506a3eb02fea1_2_1-choice_1-label" for="input_9c5780a254fb4d00a5f506a3eb02fea1_2_1_choice_1" class="response-label field-label label-inline" aria-describedby="status_9c5780a254fb4d00a5f506a3eb02fea1_2_1"> sticky ends.
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<input type="checkbox" name="input_9c5780a254fb4d00a5f506a3eb02fea1_2_1[]" id="input_9c5780a254fb4d00a5f506a3eb02fea1_2_1_choice_2" class="field-input input-checkbox" value="choice_2"/><label id="9c5780a254fb4d00a5f506a3eb02fea1_2_1-choice_2-label" for="input_9c5780a254fb4d00a5f506a3eb02fea1_2_1_choice_2" class="response-label field-label label-inline" aria-describedby="status_9c5780a254fb4d00a5f506a3eb02fea1_2_1"> 5' overhangs.
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<input type="checkbox" name="input_9c5780a254fb4d00a5f506a3eb02fea1_2_1[]" id="input_9c5780a254fb4d00a5f506a3eb02fea1_2_1_choice_3" class="field-input input-checkbox" value="choice_3"/><label id="9c5780a254fb4d00a5f506a3eb02fea1_2_1-choice_3-label" for="input_9c5780a254fb4d00a5f506a3eb02fea1_2_1_choice_3" class="response-label field-label label-inline" aria-describedby="status_9c5780a254fb4d00a5f506a3eb02fea1_2_1"> 3' overhangs.
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Note: Select all correct options!
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