Gene transcriptions/Boxes/TATCs

"Upon cereal seed germination, the seed storage proteins (SSP) and defence proteins (CMe) whose mRNAs are abundant during the maturation phase are silenced. Instead, a different set of genes, encoding hydrolases, is induced in the aleurone upon GA perception. The promoter regions of these genes, such as those encoding α-amylases and proteases (Cejudo et al., 1992; Cercos et al., 1999; Gubler et al., 1995, 1999; Mena et al., 2002), contain the conserved GA response complex (GARC), a tripartite cis motif comprising the GA response element (GARE, 5'-TAACAAA-3'), the pyrimidine box (5'-CTTTT-3') and the TATC box (5'-TATCCAC-3'), all of which are necessary for a full GA response."[1]

Wheat (Triticum spp) is a grass that is cultivated around the world. Credit: Bluemoose.{{free media}}

GA responsive complexes edit

The GA responsive complexes are gene transcription factors (TF), notably the TAACAAA box or GA responsive element (GARE), the pyrimidine box CCTTTT, and the TATCCAC box (Skriver et al., 1991;Gubler and Jacobsen, 1992; Rogers et al., 1994).[2]

"To identify the reason of the low-level expression of BnGID1 in mutant, we sequenced the upstream sequence of BnGID1 and found that there was a GA-responsive complex including GARE (MBS), pyrimidine box and TATC-box, which is same as the upstream sequence of AtGID1a."[3]

Sampling of A1BG promoters edit

For the Basic programs (starting with SuccessablesTATC.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 (+), including extending the number of nts from 958 to 4445, the programs are, are looking for, and found:

  1. negative strand in the negative direction (from ZSCAN22 to A1BG) is SuccessablesTATC--.bas, looking for 3'-TATCCAC-5', 0,
  2. negative strand in the positive direction (from ZNF497 to A1BG) is SuccessablesTATC-+.bas, looking for 3'-TATCCAC-5', 0,
  3. positive strand in the negative direction is SuccessablesTATC+-.bas, looking for 3'-TATCCAC-5', 0,
  4. positive strand in the positive direction is SuccessablesTATC++.bas, looking for 3'-TATCCAC-5', 0,
  5. complement, negative strand, negative direction is SuccessablesTATCc--.bas, looking for 3'-ATAGGTG-5', 0,
  6. complement, negative strand, positive direction is SuccessablesTATCc-+.bas, looking for 3'-ATAGGTG-5', 0,
  7. complement, positive strand, negative direction is SuccessablesTATCc+-.bas, looking for 3'-ATAGGTG-5', 0,
  8. complement, positive strand, positive direction is SuccessablesTATCc++.bas, looking for 3'-ATAGGTG-5', 0,
  9. inverse complement, negative strand, negative direction is SuccessablesTATCci--.bas, looking for 3'-GTGGATA-5', 0,
  10. inverse complement, negative strand, positive direction is SuccessablesTATCci-+.bas, looking for 3'-GTGGATA-5', 0,
  11. inverse complement, positive strand, negative direction is SuccessablesTATCci+-.bas, looking for 3'-GTGGATA-5', 0,
  12. inverse complement, positive strand, positive direction is SuccessablesTATCci++.bas, looking for 3'-GTGGATA-5', 0,
  13. inverse, negative strand, negative direction, is SuccessablesTATCi--.bas, looking for 3'-CACCTAT-5', 0,
  14. inverse, negative strand, positive direction, is SuccessablesTATCi-+.bas, looking for 3'-CACCTAT-5', 0,
  15. inverse, positive strand, negative direction, is SuccessablesTATCi+-.bas, looking for 3'-CACCTAT-5', 0,
  16. inverse, positive strand, positive direction, is SuccessablesTATCi++.bas, looking for 3'-CACCTAT-5', 0.

See also edit

References edit

  1. I. Rubio-Somoza, M. Martinez, Z. Abraham, I. Diaz and P. Carbonero (July 2006). "Ternary complex formation between HvMYBS3 and other factors involved in transcriptional control in barley seeds". The Plant Journal 47 (2): 269–281. doi:10.1111/j.1365-313X.2006.02777.x. Retrieved 17 October 2018. 
  2. Montaña Mena, Francisco Javier Cejudo, Ines Isabel-Lamoneda and Pilar Carbonero (1 September 2002). "A Role for the DOF Transcription Factor BPBF in the Regulation of Gibberellin-Responsive Genes in Barley Aleurone". Plant Physiology 130 (1): 111-9. doi:10.1104/pp.005561. Retrieved 2017-02-19. 
  3. Huapeng Li, Yun Wang, Xiaocheng Li, Yong Gao, Zhijun Wang, Yun Zhao and Maolin Wang (January 2011). "A GA-insensitive dwarf mutant of Brassica napus L. correlated with mutation in pyrimidine box in the promoter of GID1". Molecular Biology Reports 38 (1): 191–197. doi:10.1007/s11033-010-0094-2. Retrieved 10 October 2018. 

External links edit