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Gene transcriptions/Sequences/-35s

"The trp promoter does not have a consensus Pribnow box sequence (T-T-A-A-C-T) but it does have a consensus -35 sequence (T-T-G-A-C-A)."[1]

Escherichia coli - Sculpture is in vitro. Credit: Luke Jerram.{{free media}}

The "degenerate -35 sequence, and the location of the Fis binding site, which forces a suboptimal 16 bp spacing between the -35 and -10 elements, allow only σs but not σ70 to function at proP (P2).[2]

Consensus sequences

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"Two domains upstream of the start site of transcription have been identified for which a consensus sequence has been formulated (1-5). [One of these domains is] the -35 sequence (5'-T-T-G-A-C-A-3')".[1]

A1BG sampling

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For the Basic programs (starting with SuccessablesM35.bas) written to compare nucleotide sequences with the sequences on either the template strand (-), or coding strand (+), of the DNA, in the negative direction (-), or the positive direction (+), the programs are, are looking for, and found:

  1. negative strand in the negative direction (from ZSCAN22 to A1BG) is SuccessablesM35--.bas, looking for 3'-TTGACA-5', 2, 3'-TTGACA-5', 477, 3'-TTGACA-5', 4399,
  2. negative strand in the positive direction (from ZNF497 to A1BG) is SuccessablesM35-+.bas, looking for 3'-TTGACA-5', 0,
  3. positive strand in the negative direction is SuccessablesM35+-.bas, looking for 3'-TTGACA-5', 0,
  4. positive strand in the positive direction is SuccessablesM35++.bas, looking for 3'-TTGACA-5', 0,
  5. complement, negative strand, negative direction is SuccessablesM35c--.bas, looking for 3'-AACTGT-5', 0,
  6. complement, negative strand, positive direction is SuccessablesM35c-+.bas, looking for 3'-AACTGT-5', 0,
  7. complement, positive strand, negative direction is SuccessablesM35c+-.bas, looking for 3'-AACTGT-5', 2, 3'-AACTGT-5', 477, 3'-AACTGT-5', 4399,
  8. complement, positive strand, positive direction is SuccessablesM35c++.bas, looking for 3'-AACTGT-5', 0,
  9. inverse complement, negative strand, negative direction is SuccessablesM35ci--.bas, looking for 3'-TGTCAA-5', 0,
  10. inverse complement, negative strand, positive direction is SuccessablesM35ci-+.bas, looking for 3'-TGTCAA-5', 0,
  11. inverse complement, positive strand, negative direction is SuccessablesM35ci+-.bas, looking for 3'-TGTCAA-5', 0,
  12. inverse complement, positive strand, positive direction is SuccessablesM35ci++.bas, looking for 3'-TGTCAA-5', 0,
  13. inverse, negative strand, negative direction, is SuccessablesM35i--.bas, looking for 3'-ACAGTT-5', 0,
  14. inverse, negative strand, positive direction, is SuccessablesM35i-+.bas, looking for 3'-ACAGTT-5', 0,
  15. inverse, positive strand, negative direction, is SuccessablesM35i+-.bas, looking for 3'-ACAGTT-5', 0,
  16. inverse, positive strand, positive direction, is SuccessablesM35i++.bas, looking for 3'-ACAGTT-5', 0.

See also

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References

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  1. ↑ 1.0 1.1 Herman A. de Boer, Lisa J. Comstock, and Mark Vasser (January 1983). "The tac promoter: A functional hybrid derived from the trp and lac promoters". Proceedings of the National Academy of Sciences USA 80 (1): 21-5. http://www.pnas.org/content/80/1/21.full.pdf. Retrieved 2017-02-19. 
  2. ↑ Athanasios Typas, Stefano Stella, Reid C. Johnson and Regine Hengge (9 January 2007). "The -35 sequence location and the Fis–sigma factor interface determine σs selectivity of the proP (P2) promoter in Escherichia coli". Molecular Microbiology 63 (3): 780–796. doi:10.1111/j.1365-2958.2006.05560.x. https://onlinelibrary.wiley.com/doi/pdf/10.1111/j.1365-2958.2006.05560.x. Retrieved 10 November 2018. 
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