Promoter element HMMs derived from EPD release 54 (March 1998):

  • General eukaryotic TATA-box model trained from 860 unrelated promoter sequences:

  •  
    Position 1 2 3 4 5 6 7 8 9 10 11 12
    % A 19.4 23.4 5.0 83.5 4.4 89.2 71.0 84.8 45.0 35.7 15.5 18.5
    % C 22.7 34.0 11.0 1.3 3.3 0.8 0.8 2.9 3.4 14.0 36.5 37.0
    % G 26.5 30.8 4.5 1.4 0.9 1.7 0.5 9.5 16.4 38.4 36.3 30.4
    % T 31.4 11.7 79.5 13.9 91.4 8.4 27.7 2.8 35.2 11.8 11.7
    14.1
    Consensus
     
     
     T
     A
    T
    A
    A
    A
    W
    R
       
  • TATA-box HMM trained from 587 unrelated vertebrate promoter sequences:

  •  
    Position 1 2 3 4 5 6 7 8 9 10 11 12
    % A 17.8 25.1 5.4 81.0 5.9 88.2 74.4 81.0 47.2 28.3 15.5 17.6
    % C 22.8 32.7 14.3 1.5 4.6 0.9 0.5 3.4 3.5 15.2 34.8 34.4
    % G 27.3 29.8 5.8 1.1 0.9 1.8 0.5 12.9 21.5 45.4 37.5 32.6
    % T 32.1 12.4 74.6 16.4 88.6 9.1 24.6 2.7 27.8 11.2 12.2
    15.4
    Consensus
     
     
    T
    A
    T
    A
    A
    A
    D
    R
       
  • TATA-box HMM trained from 128 unrelated plant promoter sequences:

  •  
    Position 1 2 3 4 5 6 7 8 9 10 11 12
    % A 26.7 21.5 5.7 86.4 2.1 92.6 62.2 93.6 24.1 55.5 15.0 25.2
    % C 22.0 50.6 2.2 1.6 1.7 0.0 0.4 1.3 2.4 13.4 43.6 46.6
    % G 16.1 13.2 1.6 2.4 1.5 0.0 0.5 3.9 6.5 14.3 29.5 19.9
    % T 35.2 14.6 90.5 9.5 94.7 7.3 36.8 1.2 67.0 16.9 11.9
    8.3
    Consensus
     
     
     T
    A
    T
    A
    W
    A
    W
    W
       
    Last update May 2017