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

FKH2

YNL068C

View at SGD ↗

Forkhead family transcription factor with a major role in the expression of G2/M phase genes; positively regulates transcriptional elongation; negative role in chromatin silencing at HML and HMR; substrate of the Cdc28p/Clb5p kinase

01 / RECOMMENDED MATRIX

Best-performing DNA-binding model.

RecommendedSource: Badis et. al.
Fisher’s P-value6.00e-21
Information content10.95
Max PWM score8.78
Recommended cutoff8.78
View and copy the recommended matrices ↘
Position frequency matrix (PFM)
A | 0.13 0.01 0.97 0.97 0.97 0.01 0.97 
C | 0.01 0.01 0.01 0.01 0.01 0.97 0.01 
G | 0.85 0.01 0.01 0.01 0.01 0.01 0.01 
T | 0.01 0.97 0.01 0.01 0.01 0.01 0.01
Position count matrix (PCM)
A |  13   1  97  97  97   1  97 
C |   1   1   1   1   1  97   1 
G |  85   1   1   1   1   1   1 
T |   1  97   1   1   1   1   1
Position weight matrix (PWM)
A | -0.90 -3.47  1.11  1.11  1.11 -3.47  1.11 
C | -2.89 -2.89 -2.89 -2.89 -2.89  1.68 -2.89 
G |  1.55 -2.89 -2.89 -2.89 -2.89 -2.89 -2.89 
T | -3.47  1.11 -3.47 -3.47 -3.47 -3.47 -3.47
02 / COMPARATIVE BENCHMARKS

Alternative candidate matrices 9

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

FKH2_AFoat et. al.P = 1.02e-19View matrix ↘
Sequence logo for FKH2_A
Fisher’s P-value1.02e-19
Information content9.201
Max PWM score8.69
Recommended cutoff8.69
Position frequency matrix (PFM)
A | 0.20 0.13 0.81 0.97 0.97 0.01 0.97 0.56 
C | 0.01 0.01 0.18 0.01 0.01 0.86 0.01 0.13 
G | 0.78 0.12 0.01 0.01 0.01 0.01 0.01 0.19 
T | 0.01 0.74 0.01 0.01 0.01 0.12 0.01 0.12
Position count matrix (PCM)
A |  20  13  81  97  97   1  97  56 
C |   1   1  18   1   1  86   1  13 
G |  78  12   1   1   1   1   1  19 
T |   1  74   1   1   1  12   1  12
Position weight matrix (PWM)
A | -0.47 -0.90  0.93  1.11  1.11 -3.47  1.11  0.56 
C | -2.89 -2.89  0.00 -2.89 -2.89  1.56 -2.89 -0.33 
G |  1.47 -0.41 -2.89 -2.89 -2.89 -2.89 -2.89  0.05 
T | -3.47  0.84 -3.47 -3.47 -3.47 -0.98 -3.47 -0.98
Foat et. al.
FKH2_BFoat et. al.P = 8.81e-20View matrix ↘
Sequence logo for FKH2_B
Fisher’s P-value8.81e-20
Information content9.237
Max PWM score10.46
Recommended cutoff7.25
Position frequency matrix (PFM)
A | 0.51 0.61 0.23 0.01 0.12 0.45 0.97 0.84 0.01 0.76 0.53 
C | 0.01 0.02 0.06 0.16 0.09 0.54 0.01 0.01 0.89 0.01 0.15 
G | 0.18 0.07 0.47 0.82 0.12 0.01 0.01 0.01 0.01 0.22 0.08 
T | 0.31 0.31 0.24 0.01 0.66 0.01 0.01 0.14 0.09 0.01 0.23
Position count matrix (PCM)
A |  51  61  23   1  12  45  97  84   1  76  53 
C |   1   2   6  16   9  54   1   1  89   1  15 
G |  18   7  47  82  12   1   1   1   1  22   8 
T |  31  31  24   1  66   1   1  14   9   1  23
Position weight matrix (PWM)
A |  0.47  0.65 -0.33 -3.47 -0.98  0.34  1.11  0.97 -3.47  0.86  0.50 
C | -2.89 -2.20 -1.10 -0.12 -0.69  1.10 -2.89 -2.89  1.60 -2.89 -0.18 
G |  0.00 -0.94  0.96  1.52 -0.41 -2.89 -2.89 -2.89 -2.89  0.20 -0.81 
T | -0.03 -0.03 -0.29 -3.47  0.72 -3.47 -3.47 -0.83 -1.27 -3.47 -0.33
Foat et. al.
FKH2_CFoat et. al.P = 3.23e-22View matrix ↘
Sequence logo for FKH2_C
Fisher’s P-value3.23e-22
Information content9.157
Max PWM score8.04
Recommended cutoff8.01
Position frequency matrix (PFM)
A | 0.21 0.07 0.62 0.97 0.97 0.01 0.97 
C | 0.01 0.05 0.36 0.01 0.01 0.85 0.01 
G | 0.78 0.01 0.01 0.01 0.01 0.01 0.01 
T | 0.01 0.87 0.01 0.01 0.01 0.13 0.01
Position count matrix (PCM)
A |  21   7  62  97  97   1  97 
C |   1   5  36   1   1  85   1 
G |  78   1   1   1   1   1   1 
T |   1  87   1   1   1  13   1
Position weight matrix (PWM)
A | -0.42 -1.52  0.66  1.11  1.11 -3.47  1.11 
C | -2.89 -1.28  0.69 -2.89 -2.89  1.55 -2.89 
G |  1.47 -2.89 -2.89 -2.89 -2.89 -2.89 -2.89 
T | -3.47  1.00 -3.47 -3.47 -3.47 -0.90 -3.47
Foat et. al.
FKH2Harbison et. al.P = 1.07e-32View matrix ↘
Sequence logo for FKH2
Fisher’s P-value1.07e-32
Information content9.466
Max PWM score10.85
Recommended cutoff7.8
Position frequency matrix (PFM)
A | 0.614 0.545 0.584 0.317 0.211 0.095 0.930 0.940 0.948 0.031 0.936 0.544 
C | 0.107 0.104 0.101 0.125 0.009 0.057 0.051 0.019 0.011 0.808 0.013 0.119 
G | 0.107 0.112 0.102 0.251 0.763 0.014 0.011 0.021 0.023 0.026 0.032 0.133 
T | 0.173 0.239 0.214 0.306 0.016 0.835 0.009 0.020 0.018 0.135 0.020 0.204
Position count matrix (PCM)
A |  61  54  58  31  21   9  93  94  94   3  93  54 
C |  10  10  10  12   0   5   5   1   1  80   1  11 
G |  10  11  10  25  76   1   1   2   2   2   3  13 
T |  17  23  21  30   1  83   0   2   1  13   2  20
Position weight matrix (PWM)
A |  0.65  0.53  0.60 -0.01 -0.42 -1.21  1.07  1.08  1.09 -2.33  1.07  0.53 
C | -0.52 -0.55 -0.58 -0.36 -3.00 -1.15 -1.26 -2.25 -2.80  1.50 -2.63 -0.41 
G | -0.52 -0.47 -0.57  0.33  1.44 -2.55 -2.80 -2.15 -2.06 -1.93 -1.73 -0.30 
T | -0.62 -0.29 -0.40 -0.04 -3.00  0.96 -3.57 -2.77 -2.88 -0.86 -2.77 -0.45
Harbison et. al.
FKH2Macisaac et. alP = 1.32e-35View matrix ↘
Sequence logo for FKH2
Fisher’s P-value1.32e-35
Information content10.01
Max PWM score12.13
Recommended cutoff7.55
Position frequency matrix (PFM)
A | 0.248 0.394 0.493 0.610 0.498 0.439 0.294 0.207 0.059 0.901 0.964 0.967 0.031 0.952 0.544 
C | 0.119 0.172 0.128 0.103 0.103 0.121 0.152 0.021 0.006 0.064 0.001 0.001 0.825 0.016 0.118 
G | 0.444 0.216 0.176 0.108 0.147 0.134 0.256 0.721 0.024 0.020 0.034 0.020 0.032 0.011 0.126 
T | 0.188 0.217 0.203 0.179 0.252 0.306 0.299 0.051 0.911 0.015 0.001 0.012 0.112 0.021 0.212
Position count matrix (PCM)
A |  24  39  49  61  49  43  29  20   5  90  96  96   3  95  54 
C |  11  17  12  10  10  12  15   2   0   6   0   0  82   1  11 
G |  44  21  17  10  14  13  25  72   2   2   3   2   3   1  12 
T |  18  21  20  17  25  30  29   5  91   1   0   1  11   2  21
Position weight matrix (PWM)
A | -0.25  0.21  0.43  0.65  0.44  0.32 -0.08 -0.44 -1.69  1.04  1.10  1.11 -2.33  1.09  0.53 
C | -0.41 -0.05 -0.34 -0.56 -0.56 -0.40 -0.17 -2.15 -3.40 -1.03 -5.19 -5.19  1.52 -2.42 -0.42 
G |  0.90  0.18 -0.02 -0.51 -0.20 -0.30  0.35  1.39 -2.01 -2.20 -1.67 -2.20 -1.73 -2.80 -0.36 
T | -0.53 -0.39 -0.46 -0.58 -0.24 -0.04 -0.07 -1.84  1.05 -3.06 -5.77 -3.28 -1.05 -2.72 -0.41
Macisaac et. al
FKH2Morozov et. al.P = 2.56e-10View matrix ↘
Sequence logo for FKH2
Fisher’s P-value2.56e-10
Information content9.361
Max PWM score11.28
Recommended cutoff8.14
Position frequency matrix (PFM)
A | 0.376 0.267 0.865 0.961 0.816 0.177 0.881 0.780 0.362 0.939 0.113 0.877 
C | 0.115 0.062 0.074 0.026 0.074 0.529 0.037 0.096 0.059 0.017 0.670 0.063 
G | 0.452 0.104 0.051 0.005 0.045 0.181 0.022 0.085 0.111 0.034 0.144 0.013 
T | 0.057 0.567 0.010 0.008 0.065 0.113 0.060 0.039 0.468 0.011 0.073 0.046
Position count matrix (PCM)
A |  37  26  86  96  81  17  88  78  36  93  11  87 
C |  11   6   7   2   7  52   3   9   5   1  67   6 
G |  45  10   5   0   4  18   2   8  11   3  14   1 
T |   5  56   1   0   6  11   6   3  46   1   7   4
Position weight matrix (PWM)
A |  0.16 -0.18  0.99  1.10  0.94 -0.59  1.01  0.89  0.12  1.08 -1.04  1.01 
C | -0.45 -1.07 -0.89 -1.93 -0.89  1.08 -1.58 -0.63 -1.12 -2.36  1.31 -1.05 
G |  0.92 -0.55 -1.26 -3.58 -1.39  0.01 -2.10 -0.75 -0.48 -1.67 -0.22 -2.63 
T | -1.73  0.57 -3.47 -3.69 -1.59 -1.04 -1.67 -2.10  0.38 -3.37 -1.48 -1.94
Morozov et. al.
FKH2Pachkov et alP = 2.20e-27View matrix ↘
Sequence logo for FKH2
Fisher’s P-value2.20e-27
Information content11.7
Max PWM score11.46
Recommended cutoff8.35
Position frequency matrix (PFM)
A | 0.750 0.654 0.541 0.387 0.335 0.001 0.989 0.988 0.970 0.001 0.941 0.717 
C | 0.076 0.079 0.135 0.124 0.007 0.051 0.011 0.001 0.011 0.823 0.001 0.035 
G | 0.075 0.103 0.129 0.219 0.658 0.001 0.001 0.012 0.012 0.001 0.059 0.086 
T | 0.099 0.165 0.195 0.270 0.001 0.949 0.001 0.001 0.006 0.177 0.001 0.162
Position count matrix (PCM)
A |  75  65  54  38  33   0  98  98  97   0  94  71 
C |   7   7  13  12   0   5   1   0   1  82   0   3 
G |   7  10  12  21  65   0   0   1   1   0   5   8 
T |   9  16  19  27   0  94   0   0   0  17   0  16
Position weight matrix (PWM)
A |  0.85  0.71  0.53  0.19  0.05 -5.77  1.13  1.13  1.11 -5.77  1.08  0.81 
C | -0.86 -0.82 -0.29 -0.37 -3.25 -1.26 -2.80 -5.19 -2.80  1.52 -5.19 -1.64 
G | -0.88 -0.56 -0.33  0.20  1.30 -5.19 -5.19 -2.71 -2.71 -5.19 -1.12 -0.74 
T | -1.17 -0.66 -0.50 -0.17 -5.77  1.09 -5.77 -5.77 -3.98 -0.59 -5.77 -0.68
Pachkov et al
FKH2Zhu et. al.P = 1.02e-19View matrix ↘
Sequence logo for FKH2
Fisher’s P-value1.02e-19
Information content11.42
Max PWM score11.36
Recommended cutoff7.77
Position frequency matrix (PFM)
A | 0.57 0.50 0.38 0.18 0.01 0.93 0.97 0.97 0.01 0.97 0.82 0.68 
C | 0.15 0.11 0.16 0.01 0.01 0.05 0.01 0.01 0.78 0.01 0.07 0.03 
G | 0.14 0.18 0.13 0.80 0.01 0.01 0.01 0.01 0.01 0.01 0.03 0.11 
T | 0.14 0.22 0.34 0.01 0.97 0.01 0.01 0.01 0.20 0.01 0.07 0.18
Position count matrix (PCM)
A |  56  50  38  18   1  93  97  97   1  97  82  68 
C |  15  11  16   1   1   5   1   1  78   1   7   3 
G |  14  18  13  80   1   1   1   1   1   1   3  11 
T |  14  22  34   1  97   1   1   1  20   1   7  18
Position weight matrix (PWM)
A |  0.58  0.45  0.17 -0.58 -3.47  1.07  1.11  1.11 -3.47  1.11  0.94  0.75 
C | -0.18 -0.49 -0.12 -2.89 -2.89 -1.28 -2.89 -2.89  1.47 -2.89 -0.94 -1.79 
G | -0.25  0.00 -0.33  1.49 -2.89 -2.89 -2.89 -2.89 -2.89 -2.89 -1.79 -0.49 
T | -0.83 -0.37  0.06 -3.47  1.11 -3.47 -3.47 -3.47 -0.47 -3.47 -1.52 -0.58
Zhu et. al.
FKH2Zhao and StormoP = 1View matrix ↘
Sequence logo for FKH2
Fisher’s P-value1
Information content3.01
Max PWM score5.66
Recommended cutoff5.66
Position frequency matrix (PFM)
A | 0.123 0.292 0.115 0.120 0.096 0.594 0.112 
C | 0.102 0.091 0.066 0.045 0.046 0.108 0.461 
G | 0.061 0.521 0.068 0.150 0.261 0.115 0.136 
T | 0.714 0.096 0.751 0.685 0.598 0.182 0.291
Position count matrix (PCM)
A |  12  29  11  12   9  59  11 
C |  10   9   6   4   4  10  46 
G |   6  52   6  15  26  11  13 
T |  71   9  75  68  59  18  29
Position weight matrix (PWM)
A | -0.96 -0.09 -1.02 -0.98 -1.20  0.62 -1.05 
C | -0.57 -0.68 -1.00 -1.39 -1.36 -0.51  0.94 
G | -1.08  1.06 -0.97 -0.18  0.37 -0.45 -0.28 
T |  0.80 -1.20  0.85  0.76  0.63 -0.56 -0.09
Zhao and Stormo
03 / EXPERIMENTAL CONTEXT

Gene-level annotations and interactions.

Genes bound in ChIP-chip experiments 216 genes

YAL024C, YAL028W, YAL029C, YAL053W, YAL054C, YAR018C, YBL032W, YBL033C, YBL081W, YBL082C, YBL083C, YBL097W, YBR009C, YBR010W, YBR037C, YBR038W, YBR049C, YBR051W, YBR065C, YBR077C, YBR078W, YBR092C, YBR133C, YBR135W, YBR138C, YBR139W, YBR158W, YCL059C, YCL063W, YCL064C, YCR024C-A, YCR075C, YDL017W, YDL018C, YDL173W, YDL174C, YDL215C, YDL224C, YDR033W, YDR113C, YDR115W, YDR146C, YDR147W, YDR148C, YDR150W, YDR259C, YDR263C, YDR312W, YDR313C, YDR324C, YDR325W, YDR451C, YDR452W, YDR500C, YDR501W, YER070W, YER078C, YER079W, YER094C, YER095W, YER124C, YER125W, YER189W, YER190W, YFL021W, YFL022C, YFR017C, YFR023W, YGL007W, YGL008C, YGL021W, YGL028C, YGL114W, YGL116W, YGL162W, YGL183C, YGL256W, YGL257C, YGR050C, YGR092W, YGR098C, YGR099W, YGR184C, YGR229C, YGR230W, YHL023C, YHL024W, YHR001W, YHR031C, YHR032W, YHR061C, YHR143W, YHR151C, YHR152W, YIL123W, YIL130W, YIL131C, YIL158W, YIL169C, YIL173W, YJL036W, YJL051W, YJL078C, YJL079C, YJL112W, YJL158C, YJR091C, YJR092W, YJR109C, YJR110W, YJR127C, YJR145C, YJR146W, YJR147W, YKL069W, YKL096W, YKL096W-A, YKL097C, YKR040C, YKR042W, YKR054C, YKR055W, YKR059W, YKR093W, YLL016W, YLL063C, YLR044C, YLR084C, YLR103C, YLR104W, YLR105C, YLR131C, YLR154C, YLR189C, YLR190W, YLR272C, YLR286C, YLR287C-A, YLR300W, YLR390W-A, YLR399C, YLR400W, YLR437C, YLR438W, YLR439W, YML035C, YML050W, YML052W, YML053C, YML057W, YML063W, YML064C, YML068W, YML111W, YML116W, YML124C, YML125C, YMR076C, YMR105C, YMR117C, YMR144W, YMR145C, YMR163C, YMR166C, YMR167W, YMR183C, YMR184W, YMR197C, YMR198W, YMR199W, YMR204C, YMR215W, YNL040W, YNL041C, YNL046W, YNL047C, YNL056W, YNL058C, YNL145W, YNL170W, YNL172W, YNL173C, YNL174W, YNL176C, YNL196C, YNL218W, YNL219C, YOL023W, YOR095C, YOR096W, YOR138C, YOR140W, YOR236W, YOR246C, YOR247W, YOR248W, YOR312C, YOR315W, YOR316C, YOR369C, YOR372C, YOR373W, YPL024W, YPL025C, YPL111W, YPL116W, YPL117C, YPL140C, YPL141C, YPL142C, YPL155C, YPL198W, YPR035W, YPR119W, YPR149W, YPR184W

Genes affected by TF deletion 162 genes

YMR109W, YGR093W, YMR220W, YMR192W, YCR009C, YLR243W, YPL236C, YAL036C, YDL063C, YKL079W, YKL110C, YLR433C, YLR435W, YGR033C, YMR101C, YOL077C, YPL266W, YDR339C, YDR280W, YMR314W, YMR290C, YPL084W, YJL050W, YBR129C, YNL112W, YOL076W, YOL139C, YOR344C, YOR290C, YER029C, YJL208C, YLR183C, YMR289W, YPL215W, YGR160W, YGR134W, YMR202W, YNL283C, YOR043W, YBR009C, YER148W, YMR049C, YOR198C, YOR232W, YJR148W, YLL008W, YBR166C, YGR159C, YJL124C, YKL087C, YLR437C, YNL248C, YOR008C-A, YOR074C, YOR323C, YPR060C, YGL111W, YLR196W, YML093W, YPL086C, YPL122C, YKL021C, YLL037W, YMR140W, YMR142C, YNL182C, YNL120C, YNL124W, YOL115W, YOL149W, YOR294W, YOR354C, YPL273W, YPR023C, YPR055W, YPR025C, YPR057W, YNL039W, YDL201W, YGL078C, YGR253C, YKL144C, YKL212W, YLR129W, YLR163C, YLR195C, YML035C, YML063W, YML094W, YMR290W-A, YMR321C, YNL308C, YNR038W, YKR030W, YOR209C, YLR074C, YNL289W, YOR051C, YOR021C, YPL066W, YER156C, YKR056W, YLR260W, YMR027W, YML130C, YNL068C, YNL100W, YOR272W, YJR041C, YDL143W, YHR132C, YMR173W-A, YMR239C, YBR142W, YGR079W, YOR300W, YOR361C, YER072W, YJL167W, YLR140W, YNR012W, YPL098C, YPL130W, YPL162C, YDR481C, YFL054C, YMR146C, YNL160W, YNL132W, YCL031C, YDR322W, YPL159C, YHL034C, YMR033W, YNL046W, YOL070C, YGR117C, YPL070W, YGL255W, YMR001C, YPL259C, YPL202C, YKL009W, YBR216C, YDL085W, YDL117W, YEL037C, YGR145W, YHR137W, YNL232W, YNL264C, YNL234W, YPL044C, YMR093W, YNL141W, YOR343C, YIL011W, YML052W, YGR024C, YJL044C, YGR267C, YPL169C

Genes supported by both experiments 6 genes

YBR009C, YLR437C, YML035C, YML052W, YML063W, YNL046W

Predicted TF–TF partners 6 genes

HCM1, MBP1, MCM1, NDD1, STB1, SWI4

Explore 6 original interaction plots →