Module 7: Molecular Computing with RNA Sequences

 

Translational Control Elements

Intron/Exon Boundary Sequences, Splice Variants module 7 contents Exercise 7 back to the index of modules


  • Search for consensus 5' untranslated sequences: Prokaryotic mRNAs have the consensus Shine-Delgarno sequence immediately upstream (5') of the translation initiation AUG codon (Figure of Prokaryotic 5' Untranslated Region). Eukaryotes have no such common site in the 5' untranslated regions of their mRNAs. The HMMgene server can locate the potential start codon in vertebrate and C.elegans genes.

  • Search for consensus 3' poly-A sequences: POLYAH is an algorithm which is part of the Gene Finder site that can search for potential poly-A regions with the AATAAA sequence in human genes. Another server wherein one can search for 3'-polyadenylation signals is at GENSCAN.

  • Control of protein secretion during translation: Secretory proteins in eukaryotic cells are made with a signal sequence which is cleaved off during passage through the endoplasmic reticular membrane. This process is aided by a signal recognition particle (SRP) which can recognize and bind a ribosome translating a mRNA for a secretory protein. The Signal Recognition Particle (SRP) Database provides aligned, annotated and phylogenetically ordered sequences related to structure and function of SRPs. (Figure of SRP Function)


Intron/Exon Boundary Sequences, Splice Variants module 7 contents Exercise 7 back to the index of modules

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