Insights into RNA Secondary Structure Prediction by Kieran Andrews

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Explore RNA secondary structure prediction methods and results, highlighting the role of tRNA and rRNA in cellular RNA composition. The process involves cycling through sequence folds, scoring based on base alignments, and identifying cis-regulatory elements. Results showcase paired bases in tRNA and transfer messenger RNA, with references for further exploration.

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  1. RNA Secondary Structure Prediction Kieran Andrews

  2. mRNA accounts for only between 1%-5% of cellular RNA. The rest of the cellular RNA is composed of RNA in its secondary structure, the majority being tRNA or rRNA. Data from RNA STRAND database from the BETA Lab of the University of British Columbia.

  3. High Level Steps UCAGACUUUUAAUCUGA Cycle through every possible fold of a sequence Score each sequence based on aligned complementary bases Scan for segments of the alignment without matches, performs the function on those segments Performs the function on segments extending over the aligned region U CAGACUUUAAUCUGA CU AGACUUUAAUCUGA UUUCAGACU | ||||| UUAAUCUGA

  4. Results tRNA (Molecule ID: PDB_00024) 12 paired bases My Results UUUCAGACU | | | | | | UUAAUCUGA 12 paired bases

  5. CUUUCGACAAAGAAAUUCUAUACCU (Molecule ID: RFA_00640) | | | | | | | | | | CAAGUGCCUUUCUGCAGUUUUUCAGGAGCGCAAGAUAGAUU 10 CUC | | GAC 2 C | GUGCC 1 AA | AUCU 1 UAGAACGCGAG | | | AGAUU 3 GC | | CGAG Cis-Regulatory Element

  6. Transfer Messenger RNA (Molecule ID: TMR_00007) 216 paired bases 4 pseudoknots My Results 180 paired bases

  7. Bibliography https://www.qiagen.com/kr/resources/faq?id=06a192c2-e72d-42e8-9b40-3171e1eb4cb8&lang=en http://www.rnasoft.ca/strand/show_results.php?molecule_ID=RFA_00640 http://www.rnasoft.ca/strand/show_results.php?molecule_ID=NDB_00051 http://www.rnasoft.ca/strand/show_results.php?molecule_ID=PDB_00024 http://www.rnasoft.ca/strand/show_results.php?molecule_ID=TMR_00007

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