Adr1p gene transcriptions: Difference between revisions

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Copying 5'-TTGGGG-3' in "⌘F" yields six between ZSCAN22 and A1BG and one between ZNF497 and A1BG as can be found by the computer programs.
Copying 5'-TTGGGG-3' in "⌘F" yields six between ZSCAN22 and A1BG and one between ZNF497 and A1BG as can be found by the computer programs.


For the Basic programs testing consensus sequence 5'-AAAAAAAA-3' (starting with SuccessablesAAA.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:
For the Basic programs testing consensus sequence 5'-TTGG(A/G)G-3' (starting with SuccessablesADR.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:
# negative strand, negative direction, looking for 5'-AAAAAAAA-3', 0.
# negative strand, negative direction, looking for 5'-TTGG(A/G)G-3', 7, 5'-TTGGAG-3' at 3786, 5'-TTGGGG-3' at 3150, 5'-TTGGGG-3' at 2623, 5'-TTGGGG-3' at 2286, 5'-TTGGGG-3' at 1859, 5'-TTGGGG-3' at 1216, 5'-TTGGGG-3' at 616, and complements.
# negative strand, positive direction, looking for 5'-AAAAAAAA-3', 0.
# negative strand, positive direction, looking for 5'-TTGG(A/G)G-3', 2, 5'-TTGGGG-3' at 4302, 5'-TTGGGG-3' at 2285, and complements.
# positive strand, negative direction, looking for 5'-AAAAAAAA-3', 0.
# positive strand, negative direction, looking for 5'-TTGG(A/G)G-3', 2, 5'-TTGGAG-3' at 3118, 5'-TTGGGG-3' at 2923, and complements.
# positive strand, positive direction, looking for 5'-AAAAAAAA-3', 0.
# positive strand, positive direction, looking for 5'-TTGG(A/G)G-3', 3, 5'-TTGGGG-3' at 3939, 5'-TTGGAG-3' at 1618, 5'-TTGGAG-3' at 610, and complements.
# complement, negative strand, negative direction, looking for 5'-TTTTTTTT-3', 0.
# complement, negative strand, negative direction, looking for 5'-AACC(C/T)C-3', 2, 5'-AACCTC-3' at 3118, 5'-AACCCC-3' at 2923, and complements.
# complement, negative strand, positive direction, looking for 5'-TTTTTTTT-3', 0.
# complement, negative strand, positive direction, looking for 5'-AACC(C/T)C-3', 3, 5'-AACCCC-3' at 3939, 5'-AACCTC-3' at 1618, 5'-AACCTC-3' at 610, and complements.
# complement, positive strand, negative direction, looking for 5'-TTTTTTTT-3', 0.
# complement, positive strand, negative direction, looking for 5'-AACC(C/T)C-3', 7, 5'-AACCTC-3' at 3786, 5'-AACCCC-3' at 3150, 5'-AACCCC-3' at 2623, 5'-AACCCC-3' at 2286, 5'-AACCCC-3' at 1859, 5'-AACCCC-3' at 1216, 5'-AACCCC-3' at 616, and complements.
# complement, positive strand, positive direction, looking for 5'-TTTTTTTT-3', 0.
# complement, positive strand, positive direction, looking for 5'-AACC(C/T)C-3', 2, 5'-AACCCC-3' at 4302, 5'-AACCCC-3' at 2285, and complements.
# inverse complement, negative strand, negative direction, looking for 5'-TTTTTTTT-3', 0.
# inverse complement, negative strand, negative direction, looking for 5'-C(C/T)CCAA-3', 6, 5'-CCCCAA-3' at 3803, 5'-CTCCAA-3' at 3260, 5'-CTCCAA-3' at 2397, 5'-CTCCAA-3' at 1318, 5'-CTCCAA-3' at 1027, 5'-CTCCAA-3' at 861, and complements.
# inverse complement, negative strand, positive direction, looking for 5'-TTTTTTTT-3', 0.
# inverse complement, negative strand, positive direction, looking for 5'-C(C/T)CCAA-3', 5, 5'-CTCCAA-3' at 1278, 5'-CTCCAA-3' at 942, 5'-CTCCAA-3' at 842, 5'-CTCCAA-3' at 606, 5'-CCCCAA-3' at 176, and complements.
# inverse complement, positive strand, negative direction, looking for 5'-TTTTTTTT-3', 0.
# inverse complement, positive strand, negative direction, looking for 5'-C(C/T)CCAA-3', 0.
# inverse complement, positive strand, positive direction, looking for 5'-TTTTTTTT-3', 0.
# inverse complement, positive strand, positive direction, looking for 5'-C(C/T)CCAA-3', 5'-CTCCAA-3' at 1925, 5'-CTCCAA-3' at 304.
# inverse negative strand, negative direction, looking for 5'-AAAAAAAA-3', 0.
# inverse negative strand, negative direction, looking for 5'-G(A/G)GGTT-3', 0.
# inverse negative strand, positive direction, looking for 5'-AAAAAAAA-3', 0.
# inverse negative strand, positive direction, looking for 5'-G(A/G)GGTT-3', 2, 5'-GAGGTT-3' at 1925, 5'-GAGGTT-3' at 304, and complements.
# inverse positive strand, negative direction, looking for 5'-AAAAAAAA-3', 0.
# inverse positive strand, negative direction, looking for 5'-G(A/G)GGTT-3', 6, 5'-GGGGTT-3' at 3803, 5'-GAGGTT-3' at 3260, 5'-GAGGTT-3' at 2397, 5'-GAGGTT-3' at 1318, 5'-GAGGTT-3' at 1027, 5'-GAGGTT-3' at 861, and complements.
# inverse positive strand, positive direction, looking for 5'-AAAAAAAA-3', 0.
# inverse positive strand, positive direction, looking for 5'-G(A/G)GGTT-3', 5, 5'-GAGGTT-3' at 1278, 5'-GAGGTT-3' at 942, 5'-GAGGTT-3' at 842, 5'-GAGGTT-3' at 606, 5'-GGGGTT-3' at 176, and complements.


===AAA core promoters===
===ADR core promoters===
{{main|Core promoter gene transcriptions}}
{{main|Core promoter gene transcriptions}}


===AAA proximal promoters===
===ADR proximal promoters===
{{main|Proximal promoter gene transcriptions}}
{{main|Proximal promoter gene transcriptions}}


===AAA distal promoters===
===ADR distal promoters===
{{main|Distal promoter gene transcriptions}}
{{main|Distal promoter gene transcriptions}}


Revision as of 04:28, 31 October 2020

Associate Editor(s)-in-Chief: Henry A. Hoff

"Saccharomyces cerevisiae Alcohol dehydrogenase repressor 1 (Adr1p, YDR216W) is the transcription activator of the ADH2 gene (alcohol dehydrogenase 2) [1,2], which participates in the metabolic switch from glucose to ethanol or glycerol as food sources in yeast. Adr1p is involved in the activation of a number of genes of the respiratory metabolism, including those that regulate peroxisomes and phospholipid biosynthesis [3,4]."[1]

Consensus sequences

Main article: Consensus sequence gene transcriptions

The upstream activating sequence (UAS) for Adr1p is 5'-TTGGGG-3' or 5'-TTGG(A/G)G-3'.[2]

Samplings

Copying 5'-TTGGGG-3' in "⌘F" yields six between ZSCAN22 and A1BG and one between ZNF497 and A1BG as can be found by the computer programs.

For the Basic programs testing consensus sequence 5'-TTGG(A/G)G-3' (starting with SuccessablesADR.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, negative direction, looking for 5'-TTGG(A/G)G-3', 7, 5'-TTGGAG-3' at 3786, 5'-TTGGGG-3' at 3150, 5'-TTGGGG-3' at 2623, 5'-TTGGGG-3' at 2286, 5'-TTGGGG-3' at 1859, 5'-TTGGGG-3' at 1216, 5'-TTGGGG-3' at 616, and complements.
  2. negative strand, positive direction, looking for 5'-TTGG(A/G)G-3', 2, 5'-TTGGGG-3' at 4302, 5'-TTGGGG-3' at 2285, and complements.
  3. positive strand, negative direction, looking for 5'-TTGG(A/G)G-3', 2, 5'-TTGGAG-3' at 3118, 5'-TTGGGG-3' at 2923, and complements.
  4. positive strand, positive direction, looking for 5'-TTGG(A/G)G-3', 3, 5'-TTGGGG-3' at 3939, 5'-TTGGAG-3' at 1618, 5'-TTGGAG-3' at 610, and complements.
  5. complement, negative strand, negative direction, looking for 5'-AACC(C/T)C-3', 2, 5'-AACCTC-3' at 3118, 5'-AACCCC-3' at 2923, and complements.
  6. complement, negative strand, positive direction, looking for 5'-AACC(C/T)C-3', 3, 5'-AACCCC-3' at 3939, 5'-AACCTC-3' at 1618, 5'-AACCTC-3' at 610, and complements.
  7. complement, positive strand, negative direction, looking for 5'-AACC(C/T)C-3', 7, 5'-AACCTC-3' at 3786, 5'-AACCCC-3' at 3150, 5'-AACCCC-3' at 2623, 5'-AACCCC-3' at 2286, 5'-AACCCC-3' at 1859, 5'-AACCCC-3' at 1216, 5'-AACCCC-3' at 616, and complements.
  8. complement, positive strand, positive direction, looking for 5'-AACC(C/T)C-3', 2, 5'-AACCCC-3' at 4302, 5'-AACCCC-3' at 2285, and complements.
  9. inverse complement, negative strand, negative direction, looking for 5'-C(C/T)CCAA-3', 6, 5'-CCCCAA-3' at 3803, 5'-CTCCAA-3' at 3260, 5'-CTCCAA-3' at 2397, 5'-CTCCAA-3' at 1318, 5'-CTCCAA-3' at 1027, 5'-CTCCAA-3' at 861, and complements.
  10. inverse complement, negative strand, positive direction, looking for 5'-C(C/T)CCAA-3', 5, 5'-CTCCAA-3' at 1278, 5'-CTCCAA-3' at 942, 5'-CTCCAA-3' at 842, 5'-CTCCAA-3' at 606, 5'-CCCCAA-3' at 176, and complements.
  11. inverse complement, positive strand, negative direction, looking for 5'-C(C/T)CCAA-3', 0.
  12. inverse complement, positive strand, positive direction, looking for 5'-C(C/T)CCAA-3', 5'-CTCCAA-3' at 1925, 5'-CTCCAA-3' at 304.
  13. inverse negative strand, negative direction, looking for 5'-G(A/G)GGTT-3', 0.
  14. inverse negative strand, positive direction, looking for 5'-G(A/G)GGTT-3', 2, 5'-GAGGTT-3' at 1925, 5'-GAGGTT-3' at 304, and complements.
  15. inverse positive strand, negative direction, looking for 5'-G(A/G)GGTT-3', 6, 5'-GGGGTT-3' at 3803, 5'-GAGGTT-3' at 3260, 5'-GAGGTT-3' at 2397, 5'-GAGGTT-3' at 1318, 5'-GAGGTT-3' at 1027, 5'-GAGGTT-3' at 861, and complements.
  16. inverse positive strand, positive direction, looking for 5'-G(A/G)GGTT-3', 5, 5'-GAGGTT-3' at 1278, 5'-GAGGTT-3' at 942, 5'-GAGGTT-3' at 842, 5'-GAGGTT-3' at 606, 5'-GGGGTT-3' at 176, and complements.

ADR core promoters

Main article: Core promoter gene transcriptions

ADR proximal promoters

Main article: Proximal promoter gene transcriptions

ADR distal promoters

Main article: Distal promoter gene transcriptions

Acknowledgements

The content on this page was first contributed by: Henry A. Hoff.

See also

References

  1. ↑ Memmo Buttinelli, Gianna Panetta, Ambra Bucci, Daniele Frascaria, Veronica Morea and Adriana Erica Miele (17 September 2019). "Protein Engineering of Multi-Modular Transcription Factor Alcohol Dehydrogenase Repressor 1 (Adr1p), a Tool for Dissecting In Vitro Transcription Activation". Biomolecules. 9 (9): 497. doi:10.3390/biom9090497. Retrieved 30 October 2020.
  2. ↑ Hongting Tang, Yanling Wu, Jiliang Deng, Nanzhu Chen, Zhaohui Zheng, Yongjun Wei, Xiaozhou Luo, and Jay D. Keasling (6 August 2020). "Promoter Architecture and Promoter Engineering in Saccharomyces cerevisiae". Metabolites. 10 (8): 320–39. doi:10.3390/metabo10080320. PMID 32781665 Check |pmid= value (help). Retrieved 18 September 2020.

External links

Retrieved from "https://www.wikidoc.org/index.php?title=Adr1p_gene_transcriptions&oldid=1673117"