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

FKH1

YIL131C

View at SGD ↗

Forkhead family transcription factor with a minor role in the expression of G2/M phase genes; negatively regulates transcriptional elongation; positive role in chromatin silencing at HML and HMR; regulates donor preference during switching

01 / RECOMMENDED MATRIX

Best-performing DNA-binding model.

RecommendedSource: Foat et. al.
Fisher’s P-value1.75e-38
Information content9.317
Max PWM score9.63
Recommended cutoff7.12
View and copy the recommended matrices ↘
Position frequency matrix (PFM)
A | 0.13 0.04 0.74 0.83 0.97 0.01 0.89 0.55 0.20 
C | 0.01 0.03 0.24 0.15 0.01 0.81 0.04 0.10 0.17 
G | 0.85 0.03 0.01 0.01 0.01 0.01 0.06 0.12 0.54 
T | 0.01 0.90 0.01 0.01 0.01 0.18 0.01 0.23 0.09
Position count matrix (PCM)
A |  13   4  74  83  97   1  89  55  20 
C |   1   3  24  15   1  81   4  10  17 
G |  85   3   1   1   1   1   6  12  54 
T |   1  90   1   1   1  18   1  23   9
Position weight matrix (PWM)
A | -0.90 -2.08  0.84  0.95  1.11 -3.47  1.02  0.54 -0.47 
C | -2.89 -1.79  0.29 -0.18 -2.89  1.50 -1.50 -0.59 -0.06 
G |  1.55 -1.79 -2.89 -2.89 -2.89 -2.89 -1.10 -0.41  1.10 
T | -3.47  1.03 -3.47 -3.47 -3.47 -0.58 -3.47 -0.33 -1.27
02 / COMPARATIVE BENCHMARKS

Alternative candidate matrices 6

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

FKH1Harbison et. al.P = 4.44e-30View matrix ↘
Sequence logo for FKH1
Fisher’s P-value4.44e-30
Information content8.12
Max PWM score8.63
Recommended cutoff8.63
Position frequency matrix (PFM)
A | 0.115 0.037 0.165 0.017 0.005 0.019 0.754 0.051 
C | 0.085 0.024 0.017 0.038 0.012 0.021 0.068 0.599 
G | 0.051 0.025 0.775 0.021 0.021 0.042 0.080 0.035 
T | 0.750 0.914 0.042 0.924 0.962 0.918 0.098 0.315
Position count matrix (PCM)
A |  11   3  16   1   0   1  75   5 
C |   8   2   1   3   1   2   6  59 
G |   5   2  77   2   2   4   8   3 
T |  75  91   4  92  96  91   9  31
Position weight matrix (PWM)
A | -1.02 -2.16 -0.66 -2.94 -4.16 -2.82  0.86 -1.84 
C | -0.75 -2.01 -2.36 -1.56 -2.71 -2.15 -0.97  1.20 
G | -1.26 -1.97  1.46 -2.15 -2.15 -1.46 -0.81 -1.64 
T |  0.85  1.05 -2.03  1.06  1.10  1.05 -1.18 -0.02
Harbison et. al.
FKH1Macisaac et. alP = 1.42e-36View matrix ↘
Sequence logo for FKH1
Fisher’s P-value1.42e-36
Information content10.2
Max PWM score10.63
Recommended cutoff7.97
Position frequency matrix (PFM)
A | 0.497 0.497 0.428 0.267 0.165 0.069 0.890 0.982 0.964 0.025 0.981 0.699 
C | 0.118 0.112 0.124 0.165 0.001 0.032 0.080 0.005 0.004 0.866 0.004 0.021 
G | 0.167 0.165 0.193 0.244 0.768 0.033 0.021 0.012 0.025 0.001 0.009 0.105 
T | 0.218 0.226 0.255 0.325 0.066 0.866 0.009 0.001 0.007 0.108 0.006 0.175
Position count matrix (PCM)
A |  49  49  42  26  16   6  89  98  96   2  98  69 
C |  11  11  12  16   0   3   8   0   0  86   0   2 
G |  16  16  19  24  76   3   2   1   2   0   0  10 
T |  21  22  25  32   6  86   0   0   0  10   0  17
Position weight matrix (PWM)
A |  0.44  0.44  0.29 -0.18 -0.66 -1.53  1.02  1.12  1.10 -2.55  1.12  0.78 
C | -0.42 -0.47 -0.37 -0.09 -5.19 -1.73 -0.81 -3.58 -3.81  1.57 -3.81 -2.15 
G | -0.07 -0.09  0.07  0.30  1.45 -1.70 -2.15 -2.71 -1.97 -5.19 -3.00 -0.54 
T | -0.38 -0.35 -0.23  0.02 -1.58  1.00 -3.57 -5.77 -3.82 -1.09 -3.98 -0.60
Macisaac et. al
FKH1Morozov et. al.P = 4.81e-11View matrix ↘
Sequence logo for FKH1
Fisher’s P-value4.81e-11
Information content9.215
Max PWM score11.31
Recommended cutoff5.84
Position frequency matrix (PFM)
A | 0.227 0.090 0.829 0.980 0.846 0.123 0.899 0.627 0.257 0.892 0.223 0.784 
C | 0.112 0.107 0.093 0.010 0.062 0.569 0.026 0.136 0.073 0.033 0.573 0.091 
G | 0.614 0.095 0.057 0.002 0.041 0.210 0.037 0.190 0.235 0.063 0.168 0.056 
T | 0.047 0.708 0.021 0.008 0.051 0.098 0.039 0.048 0.436 0.011 0.036 0.069
Position count matrix (PCM)
A |  22   9  82  98  84  12  89  62  25  89  22  78 
C |  11  10   9   1   6  56   2  13   7   3  57   9 
G |  61   9   5   0   4  21   3  19  23   6  16   5 
T |   4  70   2   0   5   9   3   4  43   1   3   6
Position weight matrix (PWM)
A | -0.34 -1.27  0.95  1.12  0.97 -0.96  1.03  0.67 -0.22  1.03 -0.36  0.90 
C | -0.47 -0.52 -0.66 -2.89 -1.07  1.15 -1.93 -0.28 -0.90 -1.70  1.16 -0.68 
G |  1.23 -0.64 -1.15 -4.50 -1.48  0.15 -1.58  0.05  0.27 -1.05 -0.07 -1.17 
T | -1.92  0.79 -2.72 -3.69 -1.84 -1.18 -2.10 -1.90  0.31 -3.37 -2.18 -1.53
Morozov et. al.
FKH1Pachkov et alP = 9.06e-28View matrix ↘
Sequence logo for FKH1
Fisher’s P-value9.06e-28
Information content12.14
Max PWM score12.5
Recommended cutoff8.8
Position frequency matrix (PFM)
A | 0.482 0.699 0.690 0.532 0.346 0.394 0.001 1.000 0.988 0.994 0.001 0.944 0.782 0.442 0.390 
C | 0.226 0.097 0.168 0.103 0.143 0.001 0.122 0.001 0.001 0.001 0.821 0.001 0.006 0.148 0.204 
G | 0.211 0.107 0.066 0.122 0.248 0.600 0.040 0.001 0.006 0.001 0.001 0.056 0.127 0.190 0.254 
T | 0.081 0.098 0.076 0.243 0.263 0.006 0.838 0.001 0.006 0.006 0.179 0.001 0.085 0.221 0.152
Position count matrix (PCM)
A |  48  69  69  53  34  39   0 100  98  99   0  94  78  44  39 
C |  22   9  16  10  14   0  12   0   0   0  82   0   0  14  20 
G |  21  10   6  12  24  60   4   0   0   0   0   5  12  19  25 
T |   8   9   7  24  26   0  83   0   0   0  17   0   8  22  15
Position weight matrix (PWM)
A |  0.41  0.78  0.77  0.51  0.08  0.21 -5.77  1.14  1.13  1.13 -5.77  1.08  0.89  0.32  0.20 
C |  0.23 -0.62 -0.07 -0.56 -0.23 -5.19 -0.39 -5.19 -5.19 -5.19  1.52 -5.19 -3.40 -0.20  0.13 
G |  0.16 -0.52 -1.00 -0.39  0.32  1.20 -1.50 -5.19 -3.40 -5.19 -5.19 -1.17 -0.35  0.05  0.34 
T | -1.37 -1.18 -1.44 -0.28 -0.20 -3.98  0.96 -5.77 -3.98 -3.98 -0.58 -5.77 -1.33 -0.37 -0.74
Pachkov et al
FKH1Zhu et. al.P = 5.42e-26View matrix ↘
Sequence logo for FKH1
Fisher’s P-value5.42e-26
Information content12.48
Max PWM score12.29
Recommended cutoff8.04
Position frequency matrix (PFM)
A | 0.52 0.53 0.37 0.12 0.14 0.01 0.94 0.97 0.97 0.01 0.97 0.87 0.67 
C | 0.08 0.08 0.07 0.15 0.01 0.01 0.04 0.01 0.01 0.91 0.01 0.04 0.05 
G | 0.10 0.13 0.15 0.13 0.84 0.01 0.01 0.01 0.01 0.01 0.01 0.02 0.07 
T | 0.30 0.27 0.41 0.60 0.01 0.97 0.01 0.01 0.01 0.07 0.01 0.07 0.21
Position count matrix (PCM)
A |  52  53  37  12  14   1  94  97  97   1  97  87  67 
C |   8   8   7  15   1   1   4   1   1  91   1   4   5 
G |  10  13  15  13  84   1   1   1   1   1   1   2   7 
T |  30  27  41  60   1  97   1   1   1   7   1   7  21
Position weight matrix (PWM)
A |  0.49  0.50  0.15 -0.98 -0.83 -3.47  1.08  1.11  1.11 -3.47  1.11  1.00  0.74 
C | -0.81 -0.81 -0.94 -0.18 -2.89 -2.89 -1.50 -2.89 -2.89  1.62 -2.89 -1.50 -1.28 
G | -0.59 -0.33 -0.18 -0.33  1.54 -2.89 -2.89 -2.89 -2.89 -2.89 -2.89 -2.20 -0.94 
T | -0.06 -0.17  0.25  0.63 -3.47  1.11 -3.47 -3.47 -3.47 -1.52 -3.47 -1.52 -0.42
Zhu et. al.
FKH1Zhao and StormoP = 1.12e-31View matrix ↘
Sequence logo for FKH1
Fisher’s P-value1.12e-31
Information content5.062
Max PWM score6.77
Recommended cutoff6.35
Position frequency matrix (PFM)
A | 0.299 0.137 0.689 0.759 0.850 0.104 0.857 
C | 0.092 0.087 0.256 0.159 0.031 0.651 0.026 
G | 0.540 0.076 0.021 0.009 0.035 0.038 0.051 
T | 0.069 0.700 0.034 0.072 0.084 0.206 0.066
Position count matrix (PCM)
A |  29  13  68  75  85  10  85 
C |   9   8  25  15   3  65   2 
G |  54   7   2   0   3   3   5 
T |   6  70   3   7   8  20   6
Position weight matrix (PWM)
A | -0.07 -0.85  0.77  0.86  0.98 -1.12  0.99 
C | -0.67 -0.73  0.35 -0.12 -1.76  1.29 -1.93 
G |  1.10 -0.86 -2.15 -3.00 -1.64 -1.56 -1.26 
T | -1.53  0.78 -2.24 -1.49 -1.34 -0.44 -1.58
Zhao and Stormo
03 / EXPERIMENTAL CONTEXT

Gene-level annotations and interactions.

Genes bound in ChIP-chip experiments 284 genes

YAR014C, YAR015W, YAR070C, YAR071W, YBL056W, YBL057C, YBL081W, YBL082C, YBL083C, YBL097W, YBR009C, YBR010W, YBR029C, YBR030W, YBR070C, YBR071W, YBR077C, YBR078W, YBR104W, YBR109C, YBR110W, YBR138C, YBR139W, YBR158W, YBR163W, YCL027W, YCL063W, YCL064C, YCR025C, YCR075C, YCR077C, YCR079W, YCR089W, YCR092C, YCR093W, YDL017W, YDL018C, YDL049C, YDL084W, YDL230W, YDL231C, YDL240W, YDR003W, YDR027C, YDR084C, YDR085C, YDR107C, YDR108W, YDR113C, YDR115W, YDR179C, YDR179W-A, YDR259C, YDR263C, YDR284C, YDR285W, YDR324C, YDR325W, YDR331W, YDR370C, YDR371W, YDR378C, YDR379W, YDR451C, YDR452W, YDR488C, YDR489W, YDR500C, YDR501W, YDR538W, YEL015W, YEL016C, YEL017C-A, YEL017W, YER031C, YER032W, YER046W, YER064C, YER070W, YER071C, YER072W, YER087W, YER094C, YER095W, YER122C, YER123W, YER124C, YER125W, YFL021W, YFL022C, YFL037W, YFL038C, YFR003C, YFR004W, YFR017C, YFR018C, YFR019W, YFR023W, YFR044C, YFR045W, YFR051C, YFR052W, YGL028C, YGL073W, YGL075C, YGL092W, YGL116W, YGL256W, YGL257C, YGR037C, YGR038W, YGR041W, YGR050C, YGR092W, YGR098C, YGR099W, YGR107W, YGR168C, YGR171C, YGR188C, YGR268C, YGR270W, YHL024W, YHR049W, YHR060W, YHR084W, YHR086W, YHR090C, YHR094C, YHR095W, YHR101C, YHR102W, YHR103W, YHR117W, YHR118C, YHR119W, YHR143W, YHR183W, YHR199C, YHR200W, YIL015W, YIL059C, YIL076W, YIL077C, YIL158W, YJL078C, YJL100W, YJL101C, YJL102W, YJL103C, YJL105W, YJL189W, YJL190C, YJL210W, YJL212C, YJR010C-A, YJR091C, YJR092W, YJR094C, YJR111C, YJR112W, YKL001C, YKL063C, YKL069W, YKL096W-A, YKL097C, YKL157W, YKL170W, YKL195W, YKL196C, YKL217W, YKR011C, YKR013W, YKR014C, YKR054C, YKR055W, YKR059W, YKR093W, YLR011W, YLR092W, YLR113W, YLR114C, YLR115W, YLR131C, YLR209C, YLR210W, YLR257W, YLR272C, YLR286C, YLR300W, YLR353W, YLR390W-A, YLR399C, YLR400W, YLR406C, YLR407W, YLR408C, YML063W, YML064C, YML100W, YML101C, YML102C-A, YML104C, YMR076C, YMR078C, YMR079W, YMR086W, YMR117C, YMR144W, YMR176W, YMR183C, YMR184W, YMR197C, YMR198W, YMR199W, YMR215W, YMR232W, YMR261C, YMR262W, YMR264W, YMR304C-A, YMR305C, YMR306W, YNL091W, YNL093W, YNL100W, YNL103W, YNL104C, YNL138W, YNL139C, YNL140C, YNL145W, YNL174W, YNL176C, YNL212W, YNL213C, YNL218W, YNL219C, YNL272C, YNR046W, YOL023W, YOL030W, YOL031C, YOL113W, YOL114C, YOL165C, YOR095C, YOR096W, YOR098C, YOR099W, YOR239W, YOR240W, YOR309C, YOR310C, YOR312C, YOR315W, YOR357C, YOR358W, YPL024W, YPL025C, YPL032C, YPL048W, YPL049C, YPL116W, YPL117C, YPL139C, YPL140C, YPL141C, YPL155C, YPL179W, YPL226W, YPL227C, YPR009W, YPR013C, YPR033C, YPR034W, YPR035W, YPR045C, YPR046W, YPR075C, YPR104C, YPR119W, YPR195C, YPR204W

Genes affected by TF deletion 27 genes

YAL034W-A, YHR146W, YMR192W, YOR038C, YOR231W, YOR043W, YER124C, YKL219W, YHR215W, YPL122C, YDL040C, YFL050C, YGL112C, YNR038W, YDL046W, YPR001W, YDR298C, YPR035W, YNR042W, YMR034C, YNL043C, YHR135C, YLR427W, YMR215W, YOR094W, YBL051C, YOR370C

Genes supported by both experiments 3 genes

YER124C, YMR215W, YPR035W

Predicted TF–TF partners 6 genes

MBP1, MCM1, NDD1, STB1, SWI4, SWI6

Explore 6 original interaction plots →