Question

Determine :

2.the number of nucleotides in the multi-branch loop, and the degree of “sharpness” to the hairpin loops.

3.how many complementary base pairs are in the (complete) secondary structure? If a base pair in a stem is between nucleotides that are also in a loop, include that base pair in the count.

-G-C A-V c-G-C 50 0 05-0566 0-0-0-0-0-0- 5 -A-U -

Answer 1

Loops - RNA Secondary Structure -G-C UGA Hairpin Loop c6-én Helix ២០០៦ Bulge Loop U-AGACU GGG A IIIA GGG Multibranch GA CCCAAGC 111 Loop C 1 11 Pseudoknot CCC Junction) GGGGG UUCG TUGA A IIII A CUCCCU - ось 77 *-0-0 03000 A Internal Loop S-AU 00000 Exterior Loop C

• Number of nucleotides in the multi-branch loop = 16 nucleotides
• The degree of “sharpness” to the hairpin loops = A>B>C (highest to lowest sharpness)
• Complementary base pairs are in the (complete) secondary structure = 16 base pairs (in helix)
• If a base pair in a stem is between nucleotides that are also in a loop is also include in the count, then total = 6 base pairs in multi-branch loop (C) and zero in both A and B loop. So 16 earlier + 6 now = 22 total base pairs in complete secondary structure.

(According to diagram)