Promoter element HMMs derived from EPD release 60 (September 1999):

  • General eukaryotic TATA-box model derived from 878 unrelated promoter sequences:

  •  
    Position 1 2 3 4 5 6 7 8 9 10 11 12
    % A 21.2 19.4 5.3 81.9 3.8 86.9 65.8 86.2 49.2 38.7 15.7 19.3
    % C 22.5 36.5 12.2 1.7 4.7 1.0 1.0 3.0 1.7 12.4 35.0 36.8
    % G 28.0 33.1 5.6 1.7 1.4 2.3 0.7 7.5 14.1 37.6 37.6 30.1
    % T 28.3 11.0 76.8 14.7 90.1 9.7 32.5 3.3 35.1 11.3 11.7 13.7
    Consensus        
    Estimated proportion of TATA-box containing promoters: 79.3%

     
     
  • TATA-box HMM trained from 601 unrelated vertebrate promoter sequences:
 
Position 1 2 3 4 5 6 7 8 9 10 11 12
% A 19.5 19.9 5.7 79.1 4.8 86.3 68.2 84.1 53.0 31.7 15.5 17.7
% C 21.7 35.5 16.2 1.6 6.0 1.1 0.7 3.4 1.5 12.6 32.7 34.7
% G 29.2 33.8 7.2 1.3 1.8 2.3 0.7 9.7 18.4 44.9 39.7 33.1
% T 29.5 10.7 70.9 18.0 87.3 10.4 30.4 2.8 27.2 10.8 12.1 14.5
Consensus     T A T A W A D R    
Estimated proportion of TATA-box containing promoters: 76.5%
  • TATA-box HMM trained from 132 unrelated plant promoter sequences:

  •  
    Position 1 2 3 4 5 6 7 8 9 10 11 12
    % A 29.3 18.1 7.3 83.6 1.3 88.2 58.3 93.4 27.2 57.5 14.4 25.8
    % C 22.7 54.5 3.6 3.6 3.0 0.8 0.9 1.0 1.9 12.6 42.2 46.8
    % G 16.2 12.4 2.0 2.6 1.9 1.3 0.4 3.2 5.3 13.6 29.4 19.0
    % T 31.7 15.0 87.1 10.2 93.8 9.7 40.4 2.5 65.6 16.3 14.0
    8.4
    Consensus
     
     
    T
    A
    T
    A
    W
    A
    W
    A
       
    Estimated proportion of TATA-box containing promoters: 92.3%
  • TATA-box HMM trained from 109 unrelated insect promoter sequences:

  •  
    Position 1 2 3 4 5 6 7 8 9 10 11 12
    % A 23.5 17.9 0.7 86.9 0.8 89.9 62.3 94.2 66.3 42.1 22.6 20.8
    % C 25.6 24.9 4.6 1.3 0.5 0.4 1.6 0.7 0.4 10.3 38.0 37.1
    % G 36.0 54.1 0.7 3.5 0.4 2.2 0.4 0.6 5.8 39.7 35.8 27.5
    % T 14.9 3.0 94.0 8.3 98.3 7.5 35.7 4.5 27.5 7.9 3.6
    14.5
    Consensus
     
     
    T
    A
    T
    A
    W
    A
    W
    R
       
    Estimated proportion of TATA-box containing promoters: 71.2%

     
Last update May 2017