Pribnow box gene transcriptions
"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)."

# Pribnow box 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:
- 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,
- negative strand in the positive direction (from ZNF497 to A1BG) is SuccessablesPrib-+.bas, looking for 3'-TATAAT-5', 1, 3'-TATAAT-5', 729,
- positive strand in the negative direction is SuccessablesPrib+-.bas, looking for 3'-TATAAT-5', 0,
- positive strand in the positive direction is SuccessablesPrib++.bas, looking for 3'-TATAAT-5', 0,
- complement, negative strand, negative direction is SuccessablesPribc--.bas, looking for 3'-ATATTA-5', 0,
- complement, negative strand, positive direction is SuccessablesPribc-+.bas, looking for 3'-ATATTA-5', 0,
- complement, positive strand, negative direction is SuccessablesPribc+-.bas, looking for 3'-ATATTA-5', 2, 3'-ATATTA-5', 3454, 3'-ATATTA-5', 3468,
- complement, positive strand, positive direction is SuccessablesPribc++.bas, looking for 3'-ATATTA-5', 1, 3'-ATATTA-5', 729,
- inverse complement, negative strand, negative direction is SuccessablesPribci--.bas, looking for 3'-ATTATA-5', 2, 3'-ATTATA-5', 272, 3'-ATTATA-5', 603,
- inverse complement, negative strand, positive direction is SuccessablesPribci-+.bas, looking for 3'-ATTATA-5', 1, 3'-ATTATA-5', 727,
- inverse complement, positive strand, negative direction is SuccessablesPribci+-.bas, looking for 3'-ATTATA-5', 0,
- inverse complement, positive strand, positive direction is SuccessablesPribci++.bas, looking for 3'-ATTATA-5', 0,
- inverse, negative strand, negative direction, is SuccessablesPribi--.bas, looking for 3'-TAATAT-5', 0,
- inverse, negative strand, positive direction, is SuccessablesPribi-+.bas, looking for 3'-TAATAT-5', 0,
- inverse, positive strand, negative direction, is SuccessablesPribi+-.bas, looking for 3'-TAATAT-5', 2, 3'-TAATAT-5', 272, 3'-TAATAT-5', 603,
- inverse, positive strand, positive direction, is SuccessablesPribi++.bas, looking for 3'-TAATAT-5', 1, 3'-TAATAT-5', 727.

## Prib (4560-2846) UTRs
- Negative strand, negative direction: TATAAT at 3468, TATAAT at 3454.

## Prib negative direction (2596-1) distal promoters
- Negative strand, negative direction: ATTATA at 603, ATTATA at 272.

## Prib positive direction (4050-1) distal promoters
- Negative strand, positive direction: TATAAT at 729.
- Negative strand, positive direction: ATTATA at 727.

# Pribnow box random dataset samplings
- Pribr0: 1, TATAAT at 3603.
- Pribr1: 1, TATAAT at 4335.
- Pribr2: 1, TATAAT at 240.
- Pribr3: 2, TATAAT at 3274, TATAAT at 784.
- Pribr4: 2, TATAAT at 3892, TATAAT at 775.
- Pribr5: 1, TATAAT at 3518.
- Pribr6: 0.
- Pribr7: 2, TATAAT at 4084, TATAAT at 2454.
- Pribr8: 2, TATAAT at 3983, TATAAT at 3071.
- Pribr9: 0.
- Pribr0ci: 0.
- Pribr1ci: 5, ATTATA at 1265, ATTATA at 1233, ATTATA at 364, ATTATA at 338, ATTATA at 252.
- Pribr2ci: 1, ATTATA at 1781.
- Pribr3ci: 0.
- Pribr4ci: 0.
- Pribr5ci: 1, ATTATA at 1561.
- Pribr6ci: 1, ATTATA at 3867.
- Pribr7ci: 0.
- Pribr8ci: 1, ATTATA at 2187.
- Pribr9ci: 0.

## Pribr arbitrary (evens) (4560-2846) UTRs
- Pribr0: TATAAT at 3603.
- Pribr4: TATAAT at 3892.
- Pribr6ci: ATTATA at 3867.

## Pribr alternate (odds) (4560-2846) UTRs
- Pribr1: TATAAT at 4335.
- Pribr3: TATAAT at 3274.
- Pribr5: TATAAT at 3518.
- Pribr7: TATAAT at 4084.

## Pribr arbitrary positive direction (odds) (4445-4265) core promoters
- Pribr1: TATAAT at 4335.

## Pribr arbitrary positive direction (odds) (4265-4050) proximal promoters
- Pribr7: TATAAT at 4084.

## Pribr arbitrary negative direction (evens) (2596-1) distal promoters
- Pribr4: TATAAT at 775.
- Pribr2ci: ATTATA at 1781.
- Pribr8ci: ATTATA at 2187.

## Pribr alternate negative direction (odds) (2596-1) distal promoters
- Pribr3: TATAAT at 784.
- Pribr7: TATAAT at 2454.
- Pribr1ci: ATTATA at 1265, ATTATA at 1233, ATTATA at 364, ATTATA at 338, ATTATA at 252.
- Pribr5ci: ATTATA at 1561.

## Pribr arbitrary positive direction (odds) (4050-1) distal promoters
- Pribr3: TATAAT at 3274, TATAAT at 784.
- Pribr5: TATAAT at 3518.
- Pribr7: TATAAT at 2454.
- Pribr1ci: ATTATA at 1265, ATTATA at 1233, ATTATA at 364, ATTATA at 338, ATTATA at 252.
- Pribr5ci: ATTATA at 1561.

## Pribr alternate positive direction (evens) (4050-1) distal promoters
- Pribr0: TATAAT at 3603.
- Pribr4: TATAAT at 3892, TATAAT at 775.
- Pribr2ci: ATTATA at 1781.
- Pribr6ci: ATTATA at 3867.
- Pribr8ci: ATTATA at 2187.

# Pribnow box analysis and results
The Pribnow box (5'-T-A-T-A-A-T) is in the -10 region.
Comparison:
The occurrences of real Prib UTRs and distals are greater than the randoms. This suggests that the real Pribs are likely active or activable.

# Acknowledgements
The content on this page was first contributed by: Henry A. Hoff.
Initial content for this page in some instances came from Wikiversity.