P63 DNA-binding site gene transcriptions: Difference between revisions
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==Human genes== | ==Human genes== | ||
{{main|Human genes}} | |||
==Consensus sequences== | ==Consensus sequences== | ||
{{main|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). | The apparent consensus sequence is (A/G)(A/G)(A/G)C(A/G)(A/T)G(C/T)(C/T)(C/T). | ||
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# 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. | # 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. | ||
# 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. | # 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== | ==See also== | ||
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* [[A1BG gene transcription core promoters]] | |||
* [[A1BG gene transcriptions]] | |||
* [[A1BG regulatory elements and regions]] | |||
* [[A1BG response element negative results]] | |||
* [[A1BG response element positive results]] | |||
* [[Complex locus A1BG and ZNF497]] | * [[Complex locus A1BG and ZNF497]] | ||
{{Div col end}} | {{Div col end}} | ||
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==External links== | ==External links== | ||
* [http://www.genome.jp/ GenomeNet KEGG database] | |||
* [http://www.ncbi.nlm.nih.gov/sites/entrez?db=gene Home - Gene - NCBI] | |||
* [http://www.ncbi.nlm.nih.gov/sites/gquery NCBI All Databases Search] | |||
* [http://www.ncbi.nlm.nih.gov/ncbisearch/ NCBI Site Search] | |||
* [http://www.ncbi.nlm.nih.gov/pccompound PubChem Public Chemical Database] | |||
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[[Category:Resources last modified in | [[Category:Resources last modified in February 2021]] | ||
Latest revision as of 04:18, 14 February 2021
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
Consensus sequences
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
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:
- 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.
- 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.
- 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.
- 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.
- 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.
- 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.
- 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.
- 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.
- 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.
- 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.
- 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.
- 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.
- 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.
- 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.
- 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.
- 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
- ↑ 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.