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. 1988 Dec 9;16(23):11249–11265. doi: 10.1093/nar/16.23.11249

Determination of secondary structure in the initiation region of ovalbumin mRNA.

C D Liarakos 1, R P Maddox 1, K A Hilscher 1, J R Bishop 3rd 1, D K McGuire 1, R A Kopper 1
PMCID: PMC339008  PMID: 3205742

Abstract

We have analyzed the secondary structure in the region surrounding the initiation codons of both cellular and synthetic versions of ovalbumin mRNA. RNase V1 cleavage sites and structure-dependent, chemically modified bases in cellular ovalbumin mRNA were determined by reverse transcription of hen poly A(+) RNA using ovalbumin-specific, synthetic DNA primers. These results indicate an extensive region of unpaired nucleotides preceding the initiation codon and a region of base-paired nucleotides including and following the initiation codon. A synthetic ovalbumin mRNA (SP65.OV) was prepared by run-off transcription of a cloned ovalbumin cDNA (pSP65.OV). Identical regions of hen ovalbumin and SP65.OV mRNAs gave identical patterns of structure-dependent base modifications. A computer program for determining RNA secondary structure was used to find a 5'-region structure for ovalbumin mRNA that is consistent with our data.

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