TAGteam gene transcriptions: Difference between revisions

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For the Basic programs testing consensus sequence CAGGTAG (starting with SuccessablesTAG.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 CAGGTAG (starting with SuccessablesTAG.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 CAGGTAG, 0.
# negative strand, negative direction, looking for CAGGTAG, 0.
# positive strand, negative direction, looking for AAAAAAAA, 0.
# positive strand, negative direction, looking for CAGGTAG, 0.
# positive strand, positive direction, looking for AAAAAAAA, 0.
# positive strand, positive direction, looking for CAGGTAG, 0.
# negative strand, positive direction, looking for AAAAAAAA, 0.
# negative strand, positive direction, looking for CAGGTAG, 1, CAGGTAG at 4035.
# complement, negative strand, negative direction, looking for GTCCATC, 0.
# complement, negative strand, negative direction, looking for GTCCATC, 0.
# complement, positive strand, negative direction, looking for TTTTTTTT, 0.
# complement, positive strand, negative direction, looking for GTCCATC, 0.
# complement, positive strand, positive direction, looking for TTTTTTTT, 0.
# complement, positive strand, positive direction, looking for GTCCATC, 1, GTCCATC at 4035.
# complement, negative strand, positive direction, looking for TTTTTTTT, 0.
# complement, negative strand, positive direction, looking for GTCCATC, 0.
# inverse complement, negative strand, negative direction, looking for CTACCTG, 0.
# inverse complement, negative strand, negative direction, looking for CTACCTG, 0.
# inverse complement, positive strand, negative direction, looking for TTTTTTTT, 0.
# inverse complement, positive strand, negative direction, looking for CTACCTG, 0.
# inverse complement, positive strand, positive direction, looking for TTTTTTTT, 0.
# inverse complement, positive strand, positive direction, looking for CTACCTG, 0.
# inverse complement, negative strand, positive direction, looking for TTTTTTTT, 0.
# inverse complement, negative strand, positive direction, looking for CTACCTG, 1, CTACCTG at 1198.
# inverse negative strand, negative direction, looking for GATGGAC, 0.
# inverse negative strand, negative direction, looking for GATGGAC, 0.
# inverse positive strand, negative direction, looking for AAAAAAAA, 0.
# inverse positive strand, negative direction, looking for GATGGAC, 0.
# inverse positive strand, positive direction, looking for AAAAAAAA, 0.
# inverse positive strand, positive direction, looking for GATGGAC, 1, GATGGAC at 1198.
# inverse negative strand, positive direction, looking for AAAAAAAA, 0.
# inverse negative strand, positive direction, looking for GATGGAC, 0.
 
===TAG UTRs===
{{main|UTR promoter gene transcriptions}}
 
===TAG core promoters===
{{main|Core promoter gene transcriptions}}
 
===TAG proximal promoters===
{{main|Proximal promoter gene transcriptions}}


===TAG distal promoters===
===TAG distal promoters===
{{main|Distal promoter gene transcriptions}}
{{main|Distal promoter gene transcriptions}}
Negative strand, positive direction: CAGGTAG at 4035, CTACCTG at 1198.


==Acknowledgements==
==Acknowledgements==

Revision as of 19:30, 2 March 2021

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

The "heptamer consensus sequence CAGGTAG (i.e., the TAGteam) is overrepresented in regulatory regions of the earliest expressed zygotic genes [2]."[1]

Human genes

Consensus sequences

The "heptamer consensus sequence [is] CAGGTAG".[1]

TAGteam samplings

Copying the consensus TAGteam: CAGGTAG and putting the sequence in "⌘F" finds one location between ZNF497 and A1BG or no locations between ZSCAN22 and A1BG as can be found by the computer programs.

For the Basic programs testing consensus sequence CAGGTAG (starting with SuccessablesTAG.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 CAGGTAG, 0.
  2. positive strand, negative direction, looking for CAGGTAG, 0.
  3. positive strand, positive direction, looking for CAGGTAG, 0.
  4. negative strand, positive direction, looking for CAGGTAG, 1, CAGGTAG at 4035.
  5. complement, negative strand, negative direction, looking for GTCCATC, 0.
  6. complement, positive strand, negative direction, looking for GTCCATC, 0.
  7. complement, positive strand, positive direction, looking for GTCCATC, 1, GTCCATC at 4035.
  8. complement, negative strand, positive direction, looking for GTCCATC, 0.
  9. inverse complement, negative strand, negative direction, looking for CTACCTG, 0.
  10. inverse complement, positive strand, negative direction, looking for CTACCTG, 0.
  11. inverse complement, positive strand, positive direction, looking for CTACCTG, 0.
  12. inverse complement, negative strand, positive direction, looking for CTACCTG, 1, CTACCTG at 1198.
  13. inverse negative strand, negative direction, looking for GATGGAC, 0.
  14. inverse positive strand, negative direction, looking for GATGGAC, 0.
  15. inverse positive strand, positive direction, looking for GATGGAC, 1, GATGGAC at 1198.
  16. inverse negative strand, positive direction, looking for GATGGAC, 0.

TAG distal promoters

Negative strand, positive direction: CAGGTAG at 4035, CTACCTG at 1198.

Acknowledgements

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

See also

References

  1. 1.0 1.1 Rodrigo Nunes da Fonseca and Thiago M. Venancio (1 March 2018). "Maternal or zygotic: Unveiling the secrets of the Pancrustacea transcription factor zelda". Plos Genetics. 14 (3): e1007201. doi:10.1371/journal.pgen.1007201. PMID 29494591. Retrieved 5 September 2020.

External links