Cat8p gene transcriptions: Difference between revisions

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===Cat8p distal promoters===
===Cat8p distal promoters===
{{main|Distal promoter gene transcriptions}}
{{main|Distal promoter gene transcriptions}}
Negative strand, negative direction: 5'-TCCGTGCCACCG-3' at 2528, 5'-TCCGTGCCACCG-3' at 657, and complements.
Negative strand, negative direction: TCCGTGCCACCG at 2528, TCCGTGCCACCG at 657.
 
==Cat8 random dataset samplings==
 
# RDr0: 0.
# RDr1: 0.
# RDr2: 0.
# RDr3: 0.
# RDr4: 0.
# RDr5: 0.
# RDr6: 0.
# RDr7: 0.
# RDr8: 0.
# RDr9: 0.
# RDr0ci: 0.
# RDr1ci: 0.
# RDr2ci: 0.
# RDr3ci: 0.
# RDr4ci: 0.
# RDr5ci: 0.
# RDr6ci: 0.
# RDr7ci: 0.
# RDr8ci: 0.
# RDr9ci: 0.
 
===RDr UTRs===
{{main|UTR promoter gene transcriptions}}
 
===RDr core promoters===
{{main|Core promoter gene transcriptions}}
 
===RDr proximal promoters===
{{main|Proximal promoter gene transcriptions}}
 
===RDr distal promoters===
{{main|Distal promoter gene transcriptions}}
 
==Cat8 analysis and results==
{{main|Complex locus A1BG and ZNF497#Cat8s}}


==Acknowledgements==
==Acknowledgements==

Revision as of 21:11, 10 January 2022

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

Human genes

Interactions

Consensus sequences

The upstream activating sequence (UAS) for Cat8p is 5'-CGGNBNVMHGGA-3', where N = A, C, G, T, B = C, G, T, V = A, C, G, M = A, C, and H = A, C, T; i.e. 5'-CGG(A/C/G/T)(C/G/T)(A/C/G/T)(A/C/G)(A/C)(A/C/T)GGA-3'.[1]

Hypotheses

  1. A1BG has no Cat8ps in either promoter.
  2. A1BG is not transcribed by a Cat8p.
  3. Cat8p does not participate in the transcription of A1BG.

Samplings

Copying 5'-CGGTCCGC-3' in "⌘F" yields none between ZSCAN22 and A1BG and none between ZNF497 and A1BG as can be found by the computer programs.

For the Basic programs testing consensus sequence 5'-CGG(A/C/G/T)(C/G/T)(A/C/G/T)(A/C/G)(A/C)(A/C/T)GGA-3' (starting with SuccessablesCat8p.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'-CGG(A/C/G/T)(C/G/T)(A/C/G/T)(A/C/G)(A/C)(A/C/T)GGA-3', 0.
  2. negative strand, positive direction, looking for 5'-CGG(A/C/G/T)(C/G/T)(A/C/G/T)(A/C/G)(A/C)(A/C/T)GGA-3', 0.
  3. positive strand, negative direction, looking for 5'-CGG(A/C/G/T)(C/G/T)(A/C/G/T)(A/C/G)(A/C)(A/C/T)GGA-3', 0.
  4. positive strand, positive direction, looking for 5'-CGG(A/C/G/T)(C/G/T)(A/C/G/T)(A/C/G)(A/C)(A/C/T)GGA-3', 0.
  5. complement, negative strand, negative direction, looking for 5'-GCC(A/C/G/T)(A/C/G)(A/C/G/T)(C/G/T)(G/T)(A/G/T)CCT-3', 0.
  6. complement, negative strand, positive direction, looking for 5'-GCC(A/C/G/T)(A/C/G)(A/C/G/T)(C/G/T)(G/T)(A/G/T)CCT-3', 0.
  7. complement, positive strand, negative direction, looking for 5'-GCC(A/C/G/T)(A/C/G)(A/C/G/T)(C/G/T)(G/T)(A/G/T)CCT-3', 0.
  8. complement, positive strand, positive direction, looking for 5'-GCC(A/C/G/T)(A/C/G)(A/C/G/T)(C/G/T)(G/T)(A/G/T)CCT-3', 0.
  9. inverse complement, negative strand, negative direction, looking for 5'-TCC(A/G/T)(G/T)(C/G/T)(A/C/G/T)(A/C/G)(A/C/G/T)CCG-3', 2, 5'-TCCGTGCCACCG-3' at 2528, 5'-TCCGTGCCACCG-3' at 657, and complements.
  10. inverse complement, negative strand, positive direction, looking for 5'-TCC(A/G/T)(G/T)(C/G/T)(A/C/G/T)(A/C/G)(A/C/G/T)CCG-3', 0.
  11. inverse complement, positive strand, negative direction, looking for 5'-TCC(A/G/T)(G/T)(C/G/T)(A/C/G/T)(A/C/G)(A/C/G/T)CCG-3', 0.
  12. inverse complement, positive strand, positive direction, looking for 5'-TCC(A/G/T)(G/T)(C/G/T)(A/C/G/T)(A/C/G)(A/C/G/T)CCG-3', 0.
  13. inverse negative strand, negative direction, looking for 5'-AGG(A/C/T)(A/C)(A/C/G)(A/C/G/T)(C/G/T)(A/C/G/T)GGC-3', 0.
  14. inverse negative strand, positive direction, looking for 5'-AGG(A/C/T)(A/C)(A/C/G)(A/C/G/T)(C/G/T)(A/C/G/T)GGC-3', 0.
  15. inverse positive strand, negative direction, looking for 5'-AGG(A/C/T)(A/C)(A/C/G)(A/C/G/T)(C/G/T)(A/C/G/T)GGC-3', 2, 5'-AGGCACGGTGGC-3' at 2528, 5'-AGGCACGGTGGC-3' at 657.
  16. inverse positive strand, positive direction, looking for 5'-AGG(A/C/T)(A/C)(A/C/G)(A/C/G/T)(C/G/T)(A/C/G/T)GGC-3', 0.

Cat8p distal promoters

Negative strand, negative direction: TCCGTGCCACCG at 2528, TCCGTGCCACCG at 657.

Cat8 random dataset samplings

  1. RDr0: 0.
  2. RDr1: 0.
  3. RDr2: 0.
  4. RDr3: 0.
  5. RDr4: 0.
  6. RDr5: 0.
  7. RDr6: 0.
  8. RDr7: 0.
  9. RDr8: 0.
  10. RDr9: 0.
  11. RDr0ci: 0.
  12. RDr1ci: 0.
  13. RDr2ci: 0.
  14. RDr3ci: 0.
  15. RDr4ci: 0.
  16. RDr5ci: 0.
  17. RDr6ci: 0.
  18. RDr7ci: 0.
  19. RDr8ci: 0.
  20. RDr9ci: 0.

RDr UTRs

RDr core promoters

RDr proximal promoters

RDr distal promoters

Cat8 analysis and results

Acknowledgements

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

See also

References

  1. 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