S.ScerTFYeast transcription factor database Aaron Spivak
← All factors / TF RECORD

AFT1

YGL071W, RCS1

View at SGD ↗

Transcription factor involved in iron utilization and homeostasis; binds the consensus site PyPuCACCCPu and activates the expression of target genes in response to changes in iron availability

01 / RECOMMENDED MATRIX

Best-performing DNA-binding model.

RecommendedSource: Foat et. al.
Fisher’s P-value5.65e-26
Information content11.66
Max PWM score10.39
Recommended cutoff7.89
View and copy the recommended matrices ↘
Position frequency matrix (PFM)
A | 0.39 0.37 0.09 0.04 0.01 0.97 0.01 0.03 0.01 
C | 0.06 0.13 0.06 0.01 0.91 0.01 0.97 0.95 0.79 
G | 0.12 0.11 0.19 0.94 0.01 0.01 0.01 0.01 0.01 
T | 0.42 0.39 0.66 0.01 0.08 0.01 0.01 0.01 0.19
Position count matrix (PCM)
A |  39  37   9   4   1  97   1   3   1 
C |   6  13   6   1  91   1  97  95  79 
G |  12  11  19  94   1   1   1   1   1 
T |  42  39  66   1   8   1   1   1  19
Position weight matrix (PWM)
A |  0.20  0.15 -1.27 -2.08 -3.47  1.11 -3.47 -2.37 -3.47 
C | -1.10 -0.33 -1.10 -2.89  1.62 -2.89  1.68  1.66  1.48 
G | -0.41 -0.49  0.05  1.65 -2.89 -2.89 -2.89 -2.89 -2.89 
T |  0.27  0.20  0.72 -3.47 -1.39 -3.47 -3.47 -3.47 -0.52
02 / COMPARATIVE BENCHMARKS

Alternative candidate matrices 11

Historical matrix candidates from the original ScerTF database. Expand a source to inspect its original logo, scores, and matrix values.

AFT1_AFoat et. al.P = 1.17e-16View matrix ↘
Sequence logo for AFT1_A
Fisher’s P-value1.17e-16
Information content16.5
Max PWM score15.67
Recommended cutoff10.65
Position frequency matrix (PFM)
A | 0.89 0.33 0.01 0.01 0.02 0.97 0.01 0.01 0.01 0.17 0.15 0.09 
C | 0.02 0.38 0.66 0.01 0.91 0.01 0.97 0.97 0.92 0.31 0.01 0.53 
G | 0.01 0.21 0.01 0.97 0.01 0.01 0.01 0.01 0.02 0.51 0.53 0.01 
T | 0.08 0.08 0.33 0.01 0.05 0.01 0.01 0.01 0.05 0.01 0.31 0.38
Position count matrix (PCM)
A |  89  33   1   1   2  97   1   1   1  17  15   9 
C |   2  38  66   1  91   1  97  97  92  31   1  53 
G |   1  21   1  97   1   1   1   1   2  51  53   1 
T |   8   8  33   1   5   1   1   1   5   1  31  38
Position weight matrix (PWM)
A |  1.02  0.03 -3.47 -3.47 -2.77  1.11 -3.47 -3.47 -3.47 -0.63 -0.76 -1.27 
C | -2.20  0.75  1.30 -2.89  1.62 -2.89  1.68  1.68  1.63  0.54 -2.89  1.08 
G | -2.89  0.15 -2.89  1.68 -2.89 -2.89 -2.89 -2.89 -2.20  1.04  1.08 -2.89 
T | -1.39 -1.39  0.03 -3.47 -1.86 -3.47 -3.47 -3.47 -1.86 -3.47 -0.03  0.17
Foat et. al.
AFT1_CFoat et. al.P = 0.01613View matrix ↘
Sequence logo for AFT1_C
Fisher’s P-value0.01613
Information content14.86
Max PWM score17.8
Recommended cutoff9.97
Position frequency matrix (PFM)
A | 0.88 0.19 0.01 0.54 0.01 0.50 0.04 0.14 0.11 0.16 0.14 0.02 0.22 0.38 0.71 0.01 0.01 0.78 
C | 0.05 0.16 0.15 0.01 0.04 0.21 0.01 0.80 0.08 0.44 0.01 0.50 0.54 0.38 0.04 0.02 0.01 0.19 
G | 0.03 0.32 0.81 0.01 0.21 0.11 0.62 0.05 0.71 0.30 0.24 0.21 0.23 0.01 0.11 0.96 0.09 0.03 
T | 0.04 0.33 0.03 0.45 0.74 0.17 0.33 0.01 0.10 0.11 0.62 0.27 0.01 0.23 0.13 0.01 0.89 0.01
Position count matrix (PCM)
A |  88  19   1  54   1  50   4  14  11  16  14   2  22  38  71   1   1  78 
C |   5  16  15   1   4  21   1  80   8  44   1  50  54  38   4   2   1  19 
G |   3  32  81   1  21  11  62   5  71  30  24  21  23   1  11  96   9   3 
T |   4  33   3  45  74  17  33   1  10  11  62  27   1  23  13   1  89   1
Position weight matrix (PWM)
A |  1.01 -0.52 -3.47  0.52 -3.47  0.45 -2.08 -0.83 -1.07 -0.69 -0.83 -2.77 -0.37  0.17  0.80 -3.47 -3.47  0.89 
C | -1.28 -0.12 -0.18 -2.89 -1.50  0.15 -2.89  1.49 -0.81  0.89 -2.89  1.02  1.10  0.75 -1.50 -2.20 -2.89  0.05 
G | -1.79  0.58  1.50 -2.89  0.15 -0.49  1.24 -1.28  1.37  0.51  0.29  0.15  0.25 -2.89 -0.49  1.67 -0.69 -1.79 
T | -2.08  0.03 -2.37  0.34  0.84 -0.63  0.03 -3.47 -1.16 -1.07  0.66 -0.17 -3.47 -0.33 -0.90 -3.47  1.02 -3.47
Foat et. al.
AFT1_DFoat et. al.P = 0.001337View matrix ↘
Sequence logo for AFT1_D
Fisher’s P-value0.001337
Information content18.99
Max PWM score16.13
Recommended cutoff11.04
Position frequency matrix (PFM)
A | 0.01 0.01 0.01 0.01 0.97 0.01 0.01 0.01 0.96 0.20 0.02 0.97 
C | 0.01 0.01 0.01 0.97 0.01 0.94 0.97 0.97 0.02 0.01 0.01 0.01 
G | 0.01 0.01 0.57 0.01 0.01 0.01 0.01 0.01 0.01 0.67 0.76 0.01 
T | 0.97 0.97 0.42 0.01 0.01 0.04 0.01 0.01 0.01 0.12 0.21 0.01
Position count matrix (PCM)
A |   1   1   1   1  97   1   1   1  96  20   2  97 
C |   1   1   1  97   1  94  97  97   2   1   1   1 
G |   1   1  56   1   1   1   1   1   1  67  76   1 
T |  97  97  42   1   1   4   1   1   1  12  21   1
Position weight matrix (PWM)
A | -3.47 -3.47 -3.47 -3.47  1.11 -3.47 -3.47 -3.47  1.10 -0.47 -2.77  1.11 
C | -2.89 -2.89 -2.89  1.68 -2.89  1.65  1.68  1.68 -2.20 -2.89 -2.89 -2.89 
G | -2.89 -2.89  1.15 -2.89 -2.89 -2.89 -2.89 -2.89 -2.89  1.31  1.44 -2.89 
T |  1.11  1.11  0.27 -3.47 -3.47 -2.08 -3.47 -3.47 -3.47 -0.98 -0.42 -3.47
Foat et. al.
AFT1_AFordyce et. al.P = 3.88e-21View matrix ↘
Fisher’s P-value3.88e-21
Information content9.189
Max PWM score9.28
Recommended cutoff7.36
Position frequency matrix (PFM)
A | 0.24 0.31 0.02 0.02 0.01 0.01 0.01 0.39 
C | 0.39 0.02 0.02 0.03 0.03 0.01 0.55 0.21 
G | 0.19 0.55 0.92 0.90 0.01 0.97 0.01 0.23 
T | 0.18 0.12 0.04 0.05 0.96 0.01 0.44 0.17
Position count matrix (PCM)
A |  24  31   2   2   1   1   1  39 
C |  39   2   2   3   3   1  55  21 
G |  19  55  92  90   1  97   1  23 
T |  18  12   4   5  96   1  44  17
Position weight matrix (PWM)
A | -0.29 -0.03 -2.77 -2.77 -3.47 -3.47 -3.47  0.20 
C |  0.77 -2.20 -2.20 -1.79 -1.79 -2.89  1.12  0.15 
G |  0.05  1.12  1.63  1.61 -2.89  1.68 -2.89  0.25 
T | -0.58 -0.98 -2.08 -1.86  1.10 -3.47  0.32 -0.63
Fordyce et. al.
AFT1_BFordyce et. al.P = 1.96e-23View matrix ↘
Fisher’s P-value1.96e-23
Information content9.104
Max PWM score9.27
Recommended cutoff6.38
Position frequency matrix (PFM)
A | 0.31 0.03 0.02 0.01 0.01 0.01 0.38 0.25 
C | 0.03 0.02 0.04 0.02 0.01 0.56 0.21 0.38 
G | 0.53 0.92 0.90 0.01 0.97 0.01 0.24 0.19 
T | 0.12 0.04 0.04 0.96 0.01 0.43 0.16 0.18
Position count matrix (PCM)
A |  31   3   2   1   1   1  38  25 
C |   3   2   4   2   1  56  21  38 
G |  53  92  90   1  97   1  24  19 
T |  12   4   4  96   1  43  16  18
Position weight matrix (PWM)
A | -0.03 -2.37 -2.77 -3.47 -3.47 -3.47  0.17 -0.25 
C | -1.79 -2.20 -1.50 -2.20 -2.89  1.13  0.15  0.75 
G |  1.08  1.63  1.61 -2.89  1.68 -2.89  0.29  0.05 
T | -0.98 -2.08 -2.08  1.10 -3.47  0.30 -0.69 -0.58
Fordyce et. al.
AFT1_CFordyce et. al.P = 1.67e-25View matrix ↘
Fisher’s P-value1.67e-25
Information content9.038
Max PWM score8.64
Recommended cutoff7.32
Position frequency matrix (PFM)
A | 0.32 0.03 0.02 0.01 0.01 0.01 0.38 
C | 0.02 0.03 0.04 0.03 0.01 0.56 0.19 
G | 0.55 0.93 0.90 0.01 0.97 0.01 0.26 
T | 0.11 0.02 0.04 0.95 0.01 0.43 0.17
Position count matrix (PCM)
A |  32   3   2   1   1   1  38 
C |   2   3   4   3   1  56  19 
G |  55  93  90   1  97   1  26 
T |  11   2   4  95   1  43  17
Position weight matrix (PWM)
A |  0.00 -2.37 -2.77 -3.47 -3.47 -3.47  0.17 
C | -2.20 -1.79 -1.50 -1.79 -2.89  1.13  0.05 
G |  1.12  1.64  1.61 -2.89  1.68 -2.89  0.37 
T | -1.07 -2.77 -2.08  1.09 -3.47  0.30 -0.63
Fordyce et. al.
AFT1Harbison et. al.P = 3.59e-22View matrix ↘
Sequence logo for AFT1
Fisher’s P-value3.59e-22
Information content8.479
Max PWM score10.17
Recommended cutoff7.27
Position frequency matrix (PFM)
A | 0.116 0.060 0.025 0.033 0.050 0.076 0.697 0.344 0.193 
C | 0.025 0.044 0.030 0.042 0.023 0.650 0.055 0.063 0.092 
G | 0.782 0.713 0.886 0.031 0.881 0.037 0.141 0.260 0.083 
T | 0.076 0.183 0.059 0.893 0.046 0.237 0.106 0.333 0.633
Position count matrix (PCM)
A |  11   6   2   3   5   7  69  34  19 
C |   2   4   3   4   2  65   5   6   9 
G |  78  71  88   3  88   3  14  26   8 
T |   7  18   5  89   4  23  10  33  63
Position weight matrix (PWM)
A | -1.01 -1.67 -2.55 -2.27 -1.86 -1.44  0.78  0.07 -0.51 
C | -1.97 -1.41 -1.79 -1.46 -2.06  1.28 -1.19 -1.05 -0.67 
G |  1.47  1.38  1.59 -1.76  1.59 -1.58 -0.24  0.37 -0.77 
T | -1.44 -0.56 -1.69  1.03 -1.94 -0.30 -1.10  0.04  0.68
Harbison et. al.
AFT1Macisaac et. alP = 1.15e-25View matrix ↘
Sequence logo for AFT1
Fisher’s P-value1.15e-25
Information content9.281
Max PWM score9.17
Recommended cutoff8.04
Position frequency matrix (PFM)
A | 0.077 0.198 0.026 0.885 0.049 0.008 0.041 
C | 0.137 0.035 0.919 0.013 0.897 0.944 0.536 
G | 0.121 0.751 0.006 0.089 0.045 0.008 0.042 
T | 0.665 0.016 0.049 0.013 0.009 0.040 0.381
Position count matrix (PCM)
A |   7  19   2  88   4   0   4 
C |  13   3  91   1  89  94  53 
G |  12  75   0   8   4   0   4 
T |  66   1   4   1   0   4  38
Position weight matrix (PWM)
A | -1.42 -0.48 -2.51  1.02 -1.88 -3.69 -2.05 
C | -0.27 -1.64  1.63 -2.63  1.61  1.66  1.09 
G | -0.40  1.43 -3.40 -0.70 -1.39 -3.11 -1.46 
T |  0.73 -3.00 -1.88 -3.20 -3.57 -2.08  0.17
Macisaac et. al
AFT1Pachkov et alP = 5.99e-21View matrix ↘
Sequence logo for AFT1
Fisher’s P-value5.99e-21
Information content11.14
Max PWM score10.38
Recommended cutoff9.36
Position frequency matrix (PFM)
A | 0.360 0.017 0.011 0.017 0.055 0.008 0.802 0.401 0.301 
C | 0.068 0.001 0.014 0.086 0.002 0.860 0.002 0.080 0.130 
G | 0.556 0.949 0.974 0.042 0.943 0.001 0.190 0.316 0.172 
T | 0.016 0.034 0.001 0.855 0.001 0.132 0.006 0.202 0.397
Position count matrix (PCM)
A |  36   1   1   1   5   0  80  40  30 
C |   6   0   1   8   0  86   0   8  13 
G |  55  94  97   4  94   0  19  31  17 
T |   1   3   0  85   0  13   0  20  39
Position weight matrix (PWM)
A |  0.12 -2.94 -3.37 -2.94 -1.76 -3.69  0.92  0.23 -0.06 
C | -0.97 -5.19 -2.55 -0.74 -4.50  1.56 -4.50 -0.81 -0.33 
G |  1.13  1.66  1.69 -1.46  1.66 -5.19  0.05  0.56 -0.05 
T | -3.00 -2.24 -5.77  0.98 -5.77 -0.89 -3.98 -0.46  0.22
Pachkov et al
AFT1Zhu et. al.P = 2.98e-25View matrix ↘
Sequence logo for AFT1
Fisher’s P-value2.98e-25
Information content12.9
Max PWM score12.06
Recommended cutoff7.9
Position frequency matrix (PFM)
A | 0.14 0.72 0.15 0.03 0.16 0.01 0.96 0.01 0.02 0.02 
C | 0.08 0.03 0.03 0.05 0.01 0.97 0.01 0.97 0.95 0.74 
G | 0.14 0.03 0.29 0.04 0.81 0.01 0.02 0.01 0.01 0.01 
T | 0.64 0.23 0.54 0.88 0.02 0.01 0.01 0.01 0.02 0.23
Position count matrix (PCM)
A |  14  72  15   3  16   1  96   1   2   2 
C |   8   3   3   5   1  97   1  97  95  74 
G |  14   3  28   4  81   1   2   1   1   1 
T |  64  23  54  88   2   1   1   1   2  23
Position weight matrix (PWM)
A | -0.83  0.81 -0.76 -2.37 -0.69 -3.47  1.10 -3.47 -2.77 -2.77 
C | -0.81 -1.79 -1.79 -1.28 -2.89  1.68 -2.89  1.68  1.66  1.41 
G | -0.25 -1.79  0.48 -1.50  1.50 -2.89 -2.20 -2.89 -2.89 -2.89 
T |  0.69 -0.33  0.52  1.01 -2.77 -3.47 -3.47 -3.47 -2.77 -0.33
Zhu et. al.
AFT1Zhao and StormoP = 0.001336View matrix ↘
Sequence logo for AFT1
Fisher’s P-value0.001336
Information content5.855
Max PWM score6.59
Recommended cutoff4.81
Position frequency matrix (PFM)
A | 0.287 0.222 0.060 0.058 0.012 0.001 0.795 
C | 0.095 0.050 0.060 0.008 0.201 0.916 0.051 
G | 0.035 0.055 0.018 0.115 0.087 0.021 0.112 
T | 0.583 0.673 0.863 0.818 0.701 0.062 0.042
Position count matrix (PCM)
A |  28  22   6   5   1   0  79 
C |   9   5   6   0  20  91   5 
G |   3   5   1  11   8   2  11 
T |  58  67  86  81  70   6   4
Position weight matrix (PWM)
A | -0.11 -0.37 -1.67 -1.71 -3.28 -5.77  0.91 
C | -0.64 -1.28 -1.10 -3.11  0.11  1.63 -1.26 
G | -1.64 -1.19 -2.30 -0.45 -0.73 -2.15 -0.47 
T |  0.60  0.74  0.99  0.94  0.78 -1.64 -2.03
Zhao and Stormo
03 / EXPERIMENTAL CONTEXT

Gene-level annotations and interactions.

Genes bound in ChIP-chip experiments 1 genes

No Data

Genes affected by TF deletion 1 genes

No Data

Genes supported by both experiments 1 genes

No Data

Predicted TF–TF partners 3 genes

MIG1, RSF2, SOK2

Explore 3 original interaction plots →