P63 DNA-binding site gene transcriptions

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

"p63 bound preferentially to DNA fragments conforming to the 20 bp sequence 5'-RRRC(A/G)(A/T)GYYYRRRC(A/T)(C/T)GYYY-3'."[1]

Human genes

Main article: Human genes

Consensus sequences

Main article: Consensus sequence gene transcriptions

The apparent consensus sequence is (A/G)(A/G)(A/G)C(A/G)(A/T)G(C/T)(C/T)(C/T).

p63 samplings

Main article: Model samplings

Copying an apparent consensus sequence for the p63 (GAGCGAGCCT) and putting it in "⌘F" finds none located between ZSCAN22 and one between ZNF497 and A1BG as can be found by the computer programs.

For the Basic programs testing consensus sequence (A/G)(A/G)(A/G)C(A/G)(A/T)G(C/T)(C/T)(C/T)(A/G)(A/G)(A/G)C(A/T)(C/T)G(C/T)(C/T)(C/T) (starting with SuccessablesP63.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 (A/G)(A/G)(A/G)C(A/G)(A/T)G(C/T)(C/T)(C/T)(A/G)(A/G)(A/G)C(A/T)(C/T)G(C/T)(C/T)(C/T), 0.
  2. positive strand, negative direction, looking for (A/G)(A/G)(A/G)C(A/G)(A/T)G(C/T)(C/T)(C/T)(A/G)(A/G)(A/G)C(A/T)(C/T)G(C/T)(C/T)(C/T), 0.
  3. positive strand, positive direction, looking for (A/G)(A/G)(A/G)C(A/G)(A/T)G(C/T)(C/T)(C/T)(A/G)(A/G)(A/G)C(A/T)(C/T)G(C/T)(C/T)(C/T), 0.
  4. negative strand, positive direction, looking for (A/G)(A/G)(A/G)C(A/G)(A/T)G(C/T)(C/T)(C/T)(A/G)(A/G)(A/G)C(A/T)(C/T)G(C/T)(C/T)(C/T), 0.
  5. complement, negative strand, negative direction, looking for (C/T)(C/T)(C/T)G(C/T)(A/T)C(A/G)(A/G)(A/G)(C/T)(C/T)(C/T)G(A/T)(A/G)C(A/G)(A/G)(A/G), 0.
  6. complement, positive strand, negative direction, looking for (C/T)(C/T)(C/T)G(C/T)(A/T)C(A/G)(A/G)(A/G)(C/T)(C/T)(C/T)G(A/T)(A/G)C(A/G)(A/G)(A/G), 0.
  7. complement, positive strand, positive direction, looking for (C/T)(C/T)(C/T)G(C/T)(A/T)C(A/G)(A/G)(A/G)(C/T)(C/T)(C/T)G(A/T)(A/G)C(A/G)(A/G)(A/G), 0.
  8. complement, negative strand, positive direction, looking for (C/T)(C/T)(C/T)G(C/T)(A/T)C(A/G)(A/G)(A/G)(C/T)(C/T)(C/T)G(A/T)(A/G)C(A/G)(A/G)(A/G), 0.
  9. inverse complement, negative strand, negative direction, looking for (A/G)(A/G)(A/G)C(A/G)(A/T)G(C/T)(C/T)(C/T)(A/G)(A/G)(A/G)C(A/T)(C/T)G(C/T)(C/T)(C/T), 0.
  10. inverse complement, positive strand, negative direction, looking for (A/G)(A/G)(A/G)C(A/G)(A/T)G(C/T)(C/T)(C/T)(A/G)(A/G)(A/G)C(A/T)(C/T)G(C/T)(C/T)(C/T), 0.
  11. inverse complement, positive strand, positive direction, looking for (A/G)(A/G)(A/G)C(A/G)(A/T)G(C/T)(C/T)(C/T)(A/G)(A/G)(A/G)C(A/T)(C/T)G(C/T)(C/T)(C/T), 0.
  12. inverse complement, negative strand, positive direction, looking for (A/G)(A/G)(A/G)C(A/G)(A/T)G(C/T)(C/T)(C/T)(A/G)(A/G)(A/G)C(A/T)(C/T)G(C/T)(C/T)(C/T), 0.
  13. inverse negative strand, negative direction, looking for (C/T)(C/T)(C/T)G(C/T)(A/T)C(A/G)(A/G)(A/G)(C/T)(C/T)(C/T)G(A/T)(A/G)C(A/G)(A/G)(A/G), 0.
  14. inverse positive strand, negative direction, looking for (C/T)(C/T)(C/T)G(C/T)(A/T)C(A/G)(A/G)(A/G)(C/T)(C/T)(C/T)G(A/T)(A/G)C(A/G)(A/G)(A/G), 0.
  15. inverse positive strand, positive direction, looking for (C/T)(C/T)(C/T)G(C/T)(A/T)C(A/G)(A/G)(A/G)(C/T)(C/T)(C/T)G(A/T)(A/G)C(A/G)(A/G)(A/G), 0.
  16. inverse negative strand, positive direction, looking for (C/T)(C/T)(C/T)G(C/T)(A/T)C(A/G)(A/G)(A/G)(C/T)(C/T)(C/T)G(A/T)(A/G)C(A/G)(A/G)(A/G), 0.

Acknowledgements

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

See also

References

  1. ↑ C A Perez, J Ott, D J Mays & J A Pietenpol (15 November 2007). "p63 consensus DNA-binding site: identification, analysis and application into a p63MH algorithm". Oncogene. 26 (52): 7363–70. doi:10.1038/sj.onc.1210561. PMID 17563751. Retrieved 28 August 2020.

External links

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