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

GAT1

YFL021W, MEP80, NIL1

View at SGD ↗

Transcriptional activator of genes involved in nitrogen catabolite repression; contains a GATA-1-type zinc finger DNA-binding motif; activity and localization regulated by nitrogen limitation and Ure2p

01 / RECOMMENDED MATRIX

Best-performing DNA-binding model.

RecommendedSource: Zhu et. al.
Fisher’s P-value0.00034
Information content11.65
Max PWM score10.74
Recommended cutoff7.35
View and copy the recommended matrices ↘
Position frequency matrix (PFM)
A | 0.01 0.01 0.01 0.03 0.97 0.01 0.01 0.23 0.02 
C | 0.46 0.85 0.01 0.01 0.01 0.01 0.97 0.01 0.32 
G | 0.24 0.13 0.01 0.01 0.01 0.01 0.01 0.66 0.43 
T | 0.29 0.01 0.97 0.95 0.01 0.97 0.01 0.11 0.24
Position count matrix (PCM)
A |   1   1   1   3  97   1   1  23   2 
C |  46  85   1   1   1   1  97   1  32 
G |  24  13   1   1   1   1   1  66  43 
T |  28   1  97  95   1  97   1  11  24
Position weight matrix (PWM)
A | -3.47 -3.47 -3.47 -2.37  1.11 -3.47 -3.47 -0.33 -2.77 
C |  0.94  1.55 -2.89 -2.89 -2.89 -2.89  1.68 -2.89  0.58 
G |  0.29 -0.33 -2.89 -2.89 -2.89 -2.89 -2.89  1.30  0.87 
T | -0.10 -3.47  1.11  1.09 -3.47  1.11 -3.47 -1.07 -0.29
02 / COMPARATIVE BENCHMARKS

Alternative candidate matrices 13

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

GAT1Badis et. al.P = 0.009288View matrix ↘
Sequence logo for GAT1
Fisher’s P-value0.009288
Information content9.498
Max PWM score7.67
Recommended cutoff5.43
Position frequency matrix (PFM)
A | 0.01 0.97 0.01 0.97 0.97 0.03 
C | 0.01 0.01 0.01 0.01 0.01 0.09 
G | 0.97 0.01 0.01 0.01 0.01 0.85 
T | 0.01 0.01 0.97 0.01 0.01 0.03
Position count matrix (PCM)
A |   1  97   1  97  97   3 
C |   1   1   1   1   1   9 
G |  97   1   1   1   1  85 
T |   1   1  97   1   1   3
Position weight matrix (PWM)
A | -3.47  1.11 -3.47  1.11  1.11 -2.37 
C | -2.89 -2.89 -2.89 -2.89 -2.89 -0.69 
G |  1.68 -2.89 -2.89 -2.89 -2.89  1.55 
T | -3.47 -3.47  1.11 -3.47 -3.47 -2.37
Badis et. al.
GAT1_AFoat et. al.P = 0.3351View matrix ↘
Sequence logo for GAT1_A
Fisher’s P-value0.3351
Information content16.29
Max PWM score15.08
Recommended cutoff9.86
Position frequency matrix (PFM)
A | 0.01 0.53 0.38 0.01 0.94 0.06 0.41 0.91 0.01 0.01 0.01 0.01 0.59 0.01 0.17 0.01 0.56 
C | 0.95 0.02 0.13 0.01 0.01 0.01 0.13 0.01 0.37 0.01 0.04 0.01 0.01 0.01 0.01 0.44 0.30 
G | 0.01 0.04 0.01 0.13 0.02 0.01 0.02 0.01 0.61 0.31 0.28 0.01 0.28 0.01 0.01 0.49 0.01 
T | 0.03 0.42 0.48 0.85 0.03 0.92 0.44 0.07 0.01 0.67 0.67 0.97 0.12 0.97 0.81 0.06 0.14
Position count matrix (PCM)
A |   1  53  38   1  94   6  41  91   1   1   1   1  59   1  17   1  56 
C |  95   2  13   1   1   1  13   1  37   1   4   1   1   1   1  44  30 
G |   1   4   1  13   2   1   2   1  61  31  28   1  28   1   1  49   1 
T |   3  42  48  85   3  92  44   7   1  67  67  97  12  97  81   6  14
Position weight matrix (PWM)
A | -3.47  0.50  0.17 -3.47  1.08 -1.67  0.25  1.05 -3.47 -3.47 -3.47 -3.47  0.61 -3.47 -0.63 -3.47  0.56 
C |  1.66 -2.20 -0.33 -2.89 -2.89 -2.89 -0.33 -2.89  0.72 -2.89 -1.50 -2.89 -2.89 -2.89 -2.89  0.89  0.51 
G | -2.89 -1.50 -2.89 -0.33 -2.20 -2.89 -2.20 -2.89  1.22  0.54  0.44 -2.89  0.44 -2.89 -2.89  1.00 -2.89 
T | -2.37  0.27  0.41  0.98 -2.37  1.06  0.32 -1.52 -3.47  0.74  0.74  1.11 -0.98  1.11  0.93 -1.67 -0.83
Foat et. al.
GAT1_BFoat et. al.P = 0.0001079View matrix ↘
Sequence logo for GAT1_B
Fisher’s P-value0.0001079
Information content9.4
Max PWM score9.3
Recommended cutoff7
Position frequency matrix (PFM)
A | 0.25 0.34 0.01 0.19 0.09 0.01 0.97 0.01 0.01 
C | 0.12 0.17 0.45 0.61 0.01 0.01 0.01 0.01 0.97 
G | 0.04 0.30 0.26 0.17 0.01 0.01 0.01 0.01 0.01 
T | 0.59 0.19 0.28 0.02 0.90 0.97 0.01 0.97 0.01
Position count matrix (PCM)
A |  25  34   1  19   9   1  97   1   1 
C |  12  17  45  61   1   1   1   1  97 
G |   4  30  26  17   1   1   1   1   1 
T |  59  19  28   2  90  97   1  97   1
Position weight matrix (PWM)
A | -0.25  0.06 -3.47 -0.52 -1.27 -3.47  1.11 -3.47 -3.47 
C | -0.41 -0.06  0.92  1.22 -2.89 -2.89 -2.89 -2.89  1.68 
G | -1.50  0.51  0.37 -0.06 -2.89 -2.89 -2.89 -2.89 -2.89 
T |  0.61 -0.52 -0.13 -2.77  1.03  1.11 -3.47  1.11 -3.47
Foat et. al.
GAT1_CFoat et. al.P = 7.51e-07View matrix ↘
Sequence logo for GAT1_C
Fisher’s P-value7.51e-07
Information content15.97
Max PWM score18.23
Recommended cutoff9.73
Position frequency matrix (PFM)
A | 0.39 0.20 0.24 0.84 0.02 0.01 0.92 0.06 0.40 0.37 0.32 0.01 0.01 0.01 0.29 0.32 0.27 
C | 0.60 0.01 0.02 0.01 0.10 0.94 0.01 0.53 0.56 0.04 0.09 0.01 0.02 0.01 0.17 0.04 0.01 
G | 0.01 0.46 0.65 0.10 0.02 0.04 0.04 0.04 0.03 0.10 0.55 0.02 0.01 0.87 0.51 0.01 0.42 
T | 0.01 0.33 0.09 0.05 0.86 0.01 0.03 0.37 0.01 0.50 0.04 0.96 0.96 0.11 0.03 0.64 0.30
Position count matrix (PCM)
A |  39  20  24  84   2   1  92   6  40  37  32   1   1   1  28  32  27 
C |  60   1   2   1  10  94   1  53  56   4   9   1   2   1  17   4   1 
G |   1  46  65  10   2   4   4   4   3  10  55   2   1  87  51   1  42 
T |   1  33   9   5  86   1   3  37   1  50   4  96  96  11   3  64  30
Position weight matrix (PWM)
A |  0.20 -0.47 -0.29  0.97 -2.77 -3.47  1.06 -1.67  0.22  0.15  0.00 -3.47 -3.47 -3.47 -0.10  0.00 -0.17 
C |  1.20 -2.89 -2.20 -2.89 -0.59  1.65 -2.89  1.08  1.13 -1.50 -0.69 -2.89 -2.20 -2.89 -0.06 -1.50 -2.89 
G | -2.89  0.94  1.28 -0.59 -2.20 -1.50 -1.50 -1.50 -1.79 -0.59  1.12 -2.20 -2.89  1.58  1.04 -2.89  0.85 
T | -3.47  0.03 -1.27 -1.86  0.99 -3.47 -2.37  0.15 -3.47  0.45 -2.08  1.10  1.10 -1.07 -2.37  0.69 -0.06
Foat et. al.
GAT1_DFoat et. al.P = 1View matrix ↘
Sequence logo for GAT1_D
Fisher’s P-value1
Information content7.623
Max PWM score9.77
Recommended cutoff7.33
Position frequency matrix (PFM)
A | 0.61 0.07 0.78 0.36 0.28 0.44 0.55 0.03 0.81 0.18 0.12 0.10 0.21 
C | 0.01 0.14 0.01 0.17 0.01 0.34 0.28 0.08 0.04 0.01 0.11 0.02 0.01 
G | 0.01 0.01 0.06 0.01 0.35 0.13 0.01 0.01 0.11 0.01 0.35 0.01 0.21 
T | 0.38 0.78 0.16 0.47 0.36 0.09 0.17 0.88 0.05 0.80 0.43 0.88 0.58
Position count matrix (PCM)
A |  61   7  78  36  28  44  55   3  81  18  12  10  21 
C |   1  14   1  17   1  34  28   8   4   1  11   2   1 
G |   1   1   6   1  35  13   1   1  11   1  35   1  21 
T |  38  78  16  47  36   9  17  88   5  80  43  88  57
Position weight matrix (PWM)
A |  0.65 -1.52  0.89  0.12 -0.13  0.32  0.54 -2.37  0.93 -0.58 -0.98 -1.16 -0.42 
C | -2.89 -0.25 -2.89 -0.06 -2.89  0.64  0.44 -0.81 -1.50 -2.89 -0.49 -2.20 -2.89 
G | -2.89 -2.89 -1.10 -2.89  0.66 -0.33 -2.89 -2.89 -0.49 -2.89  0.66 -2.89  0.15 
T |  0.17  0.89 -0.69  0.38  0.12 -1.27 -0.63  1.01 -1.86  0.92  0.30  1.01  0.59
Foat et. al.
GAT1_AFordyce et. al.P = 0.6828View matrix ↘
Fisher’s P-value0.6828
Information content6.067
Max PWM score6.54
Recommended cutoff4.73
Position frequency matrix (PFM)
A | 0.29 0.23 0.97 0.01 0.01 0.19 0.14 
C | 0.33 0.03 0.01 0.03 0.97 0.11 0.31 
G | 0.15 0.01 0.01 0.01 0.01 0.36 0.31 
T | 0.23 0.73 0.01 0.95 0.01 0.33 0.24
Position count matrix (PCM)
A |  28  23  97   1   1  19  14 
C |  33   3   1   3  97  11  31 
G |  15   1   1   1   1  36  31 
T |  23  73   1  95   1  33  24
Position weight matrix (PWM)
A | -0.10 -0.33  1.11 -3.47 -3.47 -0.52 -0.83 
C |  0.61 -1.79 -2.89 -1.79  1.68 -0.49  0.54 
G | -0.18 -2.89 -2.89 -2.89 -2.89  0.69  0.54 
T | -0.33  0.82 -3.47  1.09 -3.47  0.03 -0.29
Fordyce et. al.
GAT1_BFordyce et. al.P = 0.5662View matrix ↘
Fisher’s P-value0.5662
Information content6.561
Max PWM score7.7
Recommended cutoff5.6
Position frequency matrix (PFM)
A | 0.21 0.14 0.24 0.32 0.01 0.97 0.01 0.73 
C | 0.12 0.43 0.35 0.39 0.01 0.01 0.01 0.01 
G | 0.36 0.24 0.29 0.11 0.96 0.01 0.01 0.03 
T | 0.30 0.18 0.12 0.19 0.02 0.01 0.97 0.23
Position count matrix (PCM)
A |  21  14  24  32   1  97   1  73 
C |  12  43  35  39   1   1   1   1 
G |  36  24  28  11  96   1   1   3 
T |  30  18  12  19   2   1  97  23
Position weight matrix (PWM)
A | -0.42 -0.83 -0.29  0.00 -3.47  1.11 -3.47  0.82 
C | -0.41  0.87  0.66  0.77 -2.89 -2.89 -2.89 -2.89 
G |  0.69  0.29  0.48 -0.49  1.67 -2.89 -2.89 -1.79 
T | -0.06 -0.58 -0.98 -0.52 -2.77 -3.47  1.11 -0.33
Fordyce et. al.
GAT1_CFordyce et. al.P = 0.1834View matrix ↘
Fisher’s P-value0.1834
Information content6.002
Max PWM score6.46
Recommended cutoff4.04
Position frequency matrix (PFM)
A | 0.18 0.30 0.22 0.97 0.01 0.01 0.19 
C | 0.32 0.28 0.05 0.01 0.03 0.97 0.13 
G | 0.33 0.14 0.01 0.01 0.01 0.01 0.37 
T | 0.16 0.28 0.72 0.01 0.95 0.01 0.31
Position count matrix (PCM)
A |  18  30  22  97   1   1  19 
C |  32  28   5   1   3  97  13 
G |  33  14   1   1   1   1  37 
T |  16  28  72   1  95   1  31
Position weight matrix (PWM)
A | -0.58 -0.06 -0.37  1.11 -3.47 -3.47 -0.52 
C |  0.58  0.44 -1.28 -2.89 -1.79  1.68 -0.33 
G |  0.61 -0.25 -2.89 -2.89 -2.89 -2.89  0.72 
T | -0.69 -0.13  0.81 -3.47  1.09 -3.47 -0.03
Fordyce et. al.
GAT1Harbison et. al.P = 0.004728View matrix ↘
Sequence logo for GAT1
Fisher’s P-value0.004728
Information content10.2
Max PWM score8.49
Recommended cutoff7.2
Position frequency matrix (PFM)
A | 0.638 0.015 0.967 0.015 0.967 0.967 0.015 
C | 0.099 0.009 0.009 0.009 0.009 0.009 0.009 
G | 0.099 0.961 0.009 0.009 0.009 0.009 0.961 
T | 0.162 0.015 0.015 0.967 0.015 0.015 0.015
Position count matrix (PCM)
A |  63   1  96   1  96  96   1 
C |   9   0   0   0   0   0   0 
G |   9  96   0   0   0   0  96 
T |  16   1   1  96   1   1   1
Position weight matrix (PWM)
A |  0.69 -3.06  1.11 -3.06  1.11  1.11 -3.06 
C | -0.60 -3.00 -3.00 -3.00 -3.00 -3.00 -3.00 
G | -0.60  1.68 -3.00 -3.00 -3.00 -3.00  1.68 
T | -0.68 -3.06 -3.06  1.11 -3.06 -3.06 -3.06
Harbison et. al.
GAT1Macisaac et. alP = 0.004728View matrix ↘
Sequence logo for GAT1
Fisher’s P-value0.004728
Information content10.21
Max PWM score8.49
Recommended cutoff7.2
Position frequency matrix (PFM)
A | 0.640 0.015 0.967 0.015 0.967 0.967 0.015 
C | 0.099 0.009 0.009 0.009 0.009 0.009 0.009 
G | 0.099 0.961 0.009 0.009 0.009 0.009 0.961 
T | 0.162 0.015 0.015 0.967 0.015 0.015 0.015
Position count matrix (PCM)
A |  64   1  96   1  96  96   1 
C |   9   0   0   0   0   0   0 
G |   9  96   0   0   0   0  96 
T |  16   1   1  96   1   1   1
Position weight matrix (PWM)
A |  0.69 -3.06  1.11 -3.06  1.11  1.11 -3.06 
C | -0.60 -3.00 -3.00 -3.00 -3.00 -3.00 -3.00 
G | -0.60  1.68 -3.00 -3.00 -3.00 -3.00  1.68 
T | -0.68 -3.06 -3.06  1.11 -3.06 -3.06 -3.06
Macisaac et. al
GAT1Morozov et. al.P = 0.7783View matrix ↘
Sequence logo for GAT1
Fisher’s P-value0.7783
Information content2.127
Max PWM score3.27
Recommended cutoff2.96
Position frequency matrix (PFM)
A | 0.090 0.587 0.090 0.032 
C | 0.232 0.113 0.113 0.781 
G | 0.119 0.110 0.194 0.071 
T | 0.558 0.190 0.603 0.116
Position count matrix (PCM)
A |   9  58   9   3 
C |  23  11  11  78 
G |  11  11  19   7 
T |  55  19  60  11
Position weight matrix (PWM)
A | -1.27  0.61 -1.27 -2.30 
C |  0.25 -0.47 -0.47  1.47 
G | -0.41 -0.49  0.07 -0.93 
T |  0.56 -0.52  0.63 -1.01
Morozov et. al.
GAT1Pachkov et alP = 0.007118View matrix ↘
Sequence logo for GAT1
Fisher’s P-value0.007118
Information content10.17
Max PWM score8.26
Recommended cutoff8.26
Position frequency matrix (PFM)
A | 0.001 0.001 0.001 1.000 0.001 0.001 0.276 
C | 0.782 0.112 0.001 0.001 0.001 1.000 0.001 
G | 0.048 0.001 0.001 0.001 0.049 0.001 0.089 
T | 0.171 0.888 1.000 0.001 0.951 0.001 0.635
Position count matrix (PCM)
A |   0   0   0 100   0   0  27 
C |  78  11   0   0   0 100   0 
G |   4   0   0   0   4   0   8 
T |  17  88 100   0  95   0  63
Position weight matrix (PWM)
A | -5.77 -5.77 -5.77  1.14 -5.77 -5.77 -0.15 
C |  1.47 -0.47 -5.19 -5.19 -5.19  1.71 -5.19 
G | -1.32 -5.19 -5.19 -5.19 -1.30 -5.19 -0.70 
T | -0.63  1.02  1.14 -5.77  1.09 -5.77  0.69
Pachkov et al
GAT1Zhao and StormoP = 0.01709View matrix ↘
Sequence logo for GAT1
Fisher’s P-value0.01709
Information content5.257
Max PWM score5.68
Recommended cutoff5.68
Position frequency matrix (PFM)
A | 0.043 0.955 0.040 0.723 0.470 0.193 
C | 0.024 0.004 0.019 0.036 0.153 0.277 
G | 0.897 0.009 0.011 0.019 0.205 0.367 
T | 0.037 0.032 0.929 0.222 0.171 0.163
Position count matrix (PCM)
A |   4  95   4  72  47  19 
C |   2   0   1   3  15  27 
G |  89   0   1   1  20  36 
T |   3   3  92  22  17  16
Position weight matrix (PWM)
A | -2.01  1.09 -2.08  0.82  0.38 -0.51 
C | -2.01 -3.81 -2.25 -1.61 -0.16  0.43 
G |  1.61 -3.00 -2.80 -2.25  0.13  0.71 
T | -2.16 -2.30  1.07 -0.37 -0.63 -0.67
Zhao and Stormo
03 / EXPERIMENTAL CONTEXT

Gene-level annotations and interactions.

Genes bound in ChIP-chip experiments 72 genes

YAL012W, YAL022C, YAL033W, YAL034C, YBL015W, YBR049C, YBR051W, YBR058C-A, YBR059C, YBR230C, YBR266C, YBR268W, YBR269C, YCL068C, YDL079C, YDL173W, YDL174C, YDR019C, YDR186C, YDR188W, YDR303C, YDR474C, YER187W, YER187W-A, YFL023W, YFL024C, YFR017C, YFR051C, YFR052W, YGR037C, YGR038W, YGR180C, YGR257C, YHR021C, YHR021W-A, YHR179W, YHR193C, YHR194W, YHR199C, YHR200W, YIL012W, YIL013C, YIL041W, YIL042C, YJL088W, YJL143W, YJL210W, YJL212C, YLR378C, YLR380W, YLR439W, YML098W, YML099C, YML115C, YMR034C, YMR035W, YMR192W, YMR302C, YNL098C, YNL303W, YNL304W, YNL305C, YNL321W, YNL322C, YNR017W, YOL140W, YOR113W, YOR162C, YOR163W, YOR317W, YPL177C, YPL265W

Genes affected by TF deletion 20 genes

YNL213C, YDR371W, YPL016W, YMR256C, YIL045W, YOR043W, YJR148W, YNL278W, YDL198C, YFL021W, YGL029W, YGR164W, YJR095W, YNL064C, YJL036W, YOL119C, YHR136C, YDL091C, YFL068W, YNR048W

Predicted TF–TF partners 1 genes

DAL80

Explore 1 original interaction plots →