Gene transcriptions/Boxes/Pribnow

"Although the first five bases of the conserved sequence are identical to the first five bases of the Pribnow box (TATAA), the sixth base of the Pribnow box is a 100 per cent conserved T (refs 15-17) while the 100 per cent conserved A found here is actually more similar to eukaryotic promoter sequences²⁰."

"Two domains upstream of the start site of transcription have been identified for which a consensus sequence has been formulated(1-5). These domains are the -35 sequence (5'-T-T-G-A-C-A) and the Pribnow box (5'-T-A-T-A-A-T) in the -10 region. Both domains are in close contact with the RNA polymerase during initiation of RNAsynthesis (2,6)."

Samplings

For the Basic programs (starting with SuccessablesPrib.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 in the negative direction (from ZSCAN22 to A1BG) is SuccessablesPrib--.bas, looking for 3'-TATAAT-5', 2, 3'-TATAAT-5', 3454, 3'-TATAAT-5', 3468,
2. negative strand in the positive direction (from ZNF497 to A1BG) is SuccessablesPrib-+.bas, looking for 3'-TATAAT-5', 1, 3'-TATAAT-5', 729,
3. positive strand in the negative direction is SuccessablesPrib+-.bas, looking for 3'-TATAAT-5', 0,
4. positive strand in the positive direction is SuccessablesPrib++.bas, looking for 3'-TATAAT-5', 0,
5. complement, negative strand, negative direction is SuccessablesPribc--.bas, looking for 3'-ATATTA-5', 0,
6. complement, negative strand, positive direction is SuccessablesPribc-+.bas, looking for 3'-ATATTA-5', 0,
7. complement, positive strand, negative direction is SuccessablesPribc+-.bas, looking for 3'-ATATTA-5', 2, 3'-ATATTA-5', 3454, 3'-ATATTA-5', 3468,
8. complement, positive strand, positive direction is SuccessablesPribc++.bas, looking for 3'-ATATTA-5', 1, 3'-ATATTA-5', 729,
9. inverse complement, negative strand, negative direction is SuccessablesPribci--.bas, looking for 3'-ATTATA-5', 2, 3'-ATTATA-5', 272, 3'-ATTATA-5', 603,
10. inverse complement, negative strand, positive direction is SuccessablesPribci-+.bas, looking for 3'-ATTATA-5', 1, 3'-ATTATA-5', 727,
11. inverse complement, positive strand, negative direction is SuccessablesPribci+-.bas, looking for 3'-ATTATA-5', 0,
12. inverse complement, positive strand, positive direction is SuccessablesPribci++.bas, looking for 3'-ATTATA-5', 0,
13. inverse, negative strand, negative direction, is SuccessablesPribi--.bas, looking for 3'-TAATAT-5', 0,
14. inverse, negative strand, positive direction, is SuccessablesPribi-+.bas, looking for 3'-TAATAT-5', 0,
15. inverse, positive strand, negative direction, is SuccessablesPribi+-.bas, looking for 3'-TAATAT-5', 2, 3'-TAATAT-5', 272, 3'-TAATAT-5', 603,
16. inverse, positive strand, positive direction, is SuccessablesPribi++.bas, looking for 3'-TAATAT-5', 1, 3'-TAATAT-5', 727.

See also

• Gene transcriptions/A1BG/Core promoters