Skip to main content
Journal cover image

U1-snRNP-A protein selects a ten nucleotide consensus sequence from a degenerate RNA pool presented in various structural contexts.

Publication ,  Journal Article
Tsai, DE; Harper, DS; Keene, JD
Published in: Nucleic Acids Res
September 25, 1991

The U1snRNP-A (U1-A) protein was used to select specific RNA sequences from a degenerate pool of transcripts using direct RNA binding and polymerase chain reaction amplification (PCR). Sequences were randomized in loops of 10 or 13 nucleotides or as a linear stretch of 25 nucleotides. From all three structural contexts, an unpaired ten nucleotide consensus sequence was obtained. A selected stem-loop structure that resembled the natural U1-A protein binding site on loop II of U1 RNA demonstrated the highest affinity of binding in comparison with the other structural contexts. A data profile of selected sequences identified U1 RNA upon searching the GenBank database. Thus, this method was useful in determining the sequence specificity of an RNA binding protein and may complement the use of phylogenetic comparisons to predict conserved recognition elements. These findings also suggest that the evolutionary conservation of loop II of U1 RNA results from constraints imposed by protein binding.

Duke Scholars

Altmetric Attention Stats
Dimensions Citation Stats

Published In

Nucleic Acids Res

DOI

ISSN

0305-1048

Publication Date

September 25, 1991

Volume

19

Issue

18

Start / End Page

4931 / 4936

Location

England

Related Subject Headings

  • Transcription, Genetic
  • Ribonucleoproteins, Small Nuclear
  • Ribonucleoproteins
  • RNA
  • Polymerase Chain Reaction
  • Molecular Sequence Data
  • Immunosorbent Techniques
  • Developmental Biology
  • Cloning, Molecular
  • Binding Sites
 

Citation

APA
Chicago
ICMJE
MLA
NLM
Tsai, D. E., Harper, D. S., & Keene, J. D. (1991). U1-snRNP-A protein selects a ten nucleotide consensus sequence from a degenerate RNA pool presented in various structural contexts. Nucleic Acids Res, 19(18), 4931–4936. https://doi.org/10.1093/nar/19.18.4931
Tsai, D. E., D. S. Harper, and J. D. Keene. “U1-snRNP-A protein selects a ten nucleotide consensus sequence from a degenerate RNA pool presented in various structural contexts.Nucleic Acids Res 19, no. 18 (September 25, 1991): 4931–36. https://doi.org/10.1093/nar/19.18.4931.
Tsai, D. E., et al. “U1-snRNP-A protein selects a ten nucleotide consensus sequence from a degenerate RNA pool presented in various structural contexts.Nucleic Acids Res, vol. 19, no. 18, Sept. 1991, pp. 4931–36. Pubmed, doi:10.1093/nar/19.18.4931.
Journal cover image

Published In

Nucleic Acids Res

DOI

ISSN

0305-1048

Publication Date

September 25, 1991

Volume

19

Issue

18

Start / End Page

4931 / 4936

Location

England

Related Subject Headings

  • Transcription, Genetic
  • Ribonucleoproteins, Small Nuclear
  • Ribonucleoproteins
  • RNA
  • Polymerase Chain Reaction
  • Molecular Sequence Data
  • Immunosorbent Techniques
  • Developmental Biology
  • Cloning, Molecular
  • Binding Sites