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

YAP3

YHL009C

View at SGD ↗

Basic leucine zipper (bZIP) transcription factor

01 / RECOMMENDED MATRIX

Best-performing DNA-binding model.

RecommendedSource: Morozov et. al.
Fisher’s P-value0.006203
Information content5.592
Max PWM score6.44
Recommended cutoff4.79
View and copy the recommended matrices ↘
Position frequency matrix (PFM)
A | 0.089 0.015 0.629 0.011 0.011 0.800 0.692 
C | 0.069 0.166 0.215 0.914 0.238 0.045 0.150 
G | 0.132 0.030 0.086 0.063 0.073 0.036 0.059 
T | 0.710 0.789 0.069 0.012 0.678 0.118 0.099
Position count matrix (PCM)
A |   8   1  62   1   1  80  69 
C |   6  16  21  91  23   4  15 
G |  13   3   8   6   7   3   5 
T |  71  78   6   1  67  11   9
Position weight matrix (PWM)
A | -1.28 -3.06  0.68 -3.37 -3.37  0.92  0.77 
C | -0.96 -0.08  0.18  1.62  0.28 -1.39 -0.18 
G | -0.31 -1.79 -0.74 -1.05 -0.90 -1.61 -1.12 
T |  0.80  0.90 -1.53 -3.28  0.75 -1.00 -1.17
02 / COMPARATIVE BENCHMARKS

Alternative candidate matrices 8

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

YAP3Badis et. al.P = 0.3335View matrix ↘
Sequence logo for YAP3
Fisher’s P-value0.3335
Information content10.43
Max PWM score8.48
Recommended cutoff4.48
Position frequency matrix (PFM)
A | 0.65 0.01 0.01 0.97 0.01 0.01 0.02 
C | 0.19 0.01 0.01 0.01 0.97 0.01 0.02 
G | 0.12 0.01 0.01 0.01 0.01 0.97 0.02 
T | 0.04 0.97 0.97 0.01 0.01 0.01 0.94
Position count matrix (PCM)
A |  65   1   1  97   1   1   2 
C |  19   1   1   1  97   1   2 
G |  12   1   1   1   1  97   2 
T |   4  97  97   1   1   1  94
Position weight matrix (PWM)
A |  0.71 -3.47 -3.47  1.11 -3.47 -3.47 -2.77 
C |  0.05 -2.89 -2.89 -2.89  1.68 -2.89 -2.20 
G | -0.41 -2.89 -2.89 -2.89 -2.89  1.68 -2.20 
T | -2.08  1.11  1.11 -3.47 -3.47 -3.47  1.08
Badis et. al.
YAP3_AFoat et. al.P = 0.05223View matrix ↘
Sequence logo for YAP3_A
Fisher’s P-value0.05223
Information content10.35
Max PWM score12.8
Recommended cutoff8.92
Position frequency matrix (PFM)
A | 0.61 0.56 0.29 0.02 0.49 0.17 0.30 0.40 0.21 0.19 0.01 0.01 0.51 0.25 
C | 0.08 0.23 0.01 0.43 0.01 0.68 0.09 0.15 0.19 0.68 0.03 0.04 0.34 0.03 
G | 0.01 0.01 0.70 0.37 0.50 0.01 0.18 0.43 0.12 0.05 0.09 0.95 0.05 0.01 
T | 0.31 0.20 0.01 0.17 0.01 0.15 0.43 0.02 0.48 0.07 0.87 0.01 0.10 0.71
Position count matrix (PCM)
A |  61  56  28   2  49  17  30  40  21  19   1   1  51  25 
C |   8  23   1  43   1  68   9  15  19  68   3   4  34   3 
G |   1   1  70  37  50   1  18  43  12   5   9  95   5   1 
T |  31  20   1  17   1  15  43   2  48   7  87   1  10  71
Position weight matrix (PWM)
A |  0.65  0.56 -0.10 -2.77  0.43 -0.63 -0.06  0.22 -0.42 -0.52 -3.47 -3.47  0.47 -0.25 
C | -0.81  0.25 -2.89  0.87 -2.89  1.33 -0.69 -0.18  0.05  1.33 -1.79 -1.50  0.64 -1.79 
G | -2.89 -2.89  1.36  0.72  1.02 -2.89  0.00  0.87 -0.41 -1.28 -0.69  1.66 -1.28 -2.89 
T | -0.03 -0.47 -3.47 -0.63 -3.47 -0.76  0.30 -2.77  0.41 -1.52  1.00 -3.47 -1.16  0.80
Foat et. al.
YAP3_BFoat et. al.P = 1View matrix ↘
Sequence logo for YAP3_B
Fisher’s P-value1
Information content18.21
Max PWM score18.17
Recommended cutoff13.63
Position frequency matrix (PFM)
A | 0.01 0.46 0.69 0.03 0.01 0.93 0.47 0.45 0.37 0.01 0.01 0.02 0.97 0.01 0.77 0.01 0.01 0.30 
C | 0.45 0.10 0.01 0.01 0.95 0.05 0.02 0.49 0.06 0.22 0.12 0.01 0.01 0.95 0.21 0.74 0.45 0.01 
G | 0.03 0.41 0.01 0.02 0.01 0.01 0.17 0.01 0.01 0.76 0.08 0.46 0.01 0.03 0.01 0.03 0.46 0.33 
T | 0.51 0.03 0.30 0.94 0.03 0.01 0.35 0.06 0.57 0.01 0.79 0.51 0.01 0.01 0.01 0.23 0.08 0.37
Position count matrix (PCM)
A |   1  46  69   3   1  93  47  45  37   1   1   2  97   1  77   1   1  30 
C |  45  10   1   1  95   5   2  49   6  22  12   1   1  95  21  74  45   1 
G |   3  41   1   2   1   1  17   1   1  76   8  46   1   3   1   3  46  33 
T |  51   3  30  94   3   1  35   6  56   1  79  51   1   1   1  23   8  37
Position weight matrix (PWM)
A | -3.47  0.36  0.77 -2.37 -3.47  1.07  0.38  0.34  0.15 -3.47 -3.47 -2.77  1.11 -3.47  0.88 -3.47 -3.47 -0.06 
C |  0.92 -0.59 -2.89 -2.89  1.66 -1.28 -2.20  1.00 -1.10  0.20 -0.41 -2.89 -2.89  1.66  0.15  1.41  0.92 -2.89 
G | -1.79  0.82 -2.89 -2.20 -2.89 -2.89 -0.06 -2.89 -2.89  1.44 -0.81  0.94 -2.89 -1.79 -2.89 -1.79  0.94  0.61 
T |  0.47 -2.37 -0.06  1.08 -2.37 -3.47  0.09 -1.67  0.58 -3.47  0.90  0.47 -3.47 -3.47 -3.47 -0.33 -1.39  0.15
Foat et. al.
YAP3_AFordyce et. al.P = 0.1865View matrix ↘
Fisher’s P-value0.1865
Information content9.42
Max PWM score8.84
Recommended cutoff4.84
Position frequency matrix (PFM)
A | 0.01 0.07 0.03 0.86 0.97 0.02 0.01 0.64 
C | 0.23 0.13 0.01 0.07 0.01 0.01 0.02 0.15 
G | 0.65 0.79 0.01 0.06 0.01 0.01 0.01 0.18 
T | 0.11 0.01 0.95 0.01 0.01 0.96 0.96 0.03
Position count matrix (PCM)
A |   1   7   3  86  97   2   1  64 
C |  23  13   1   7   1   1   2  15 
G |  65  79   1   6   1   1   1  18 
T |  11   1  95   1   1  96  96   3
Position weight matrix (PWM)
A | -3.47 -1.52 -2.37  0.99  1.11 -2.77 -3.47  0.69 
C |  0.25 -0.33 -2.89 -0.94 -2.89 -2.89 -2.20 -0.18 
G |  1.28  1.48 -2.89 -1.10 -2.89 -2.89 -2.89  0.00 
T | -1.07 -3.47  1.09 -3.47 -3.47  1.10  1.10 -2.37
Fordyce et. al.
YAP3_BFordyce et. al.P = 0.3139View matrix ↘
Fisher’s P-value0.3139
Information content9.44
Max PWM score8.83
Recommended cutoff5.3
Position frequency matrix (PFM)
A | 0.63 0.01 0.06 0.03 0.84 0.97 0.02 0.01 
C | 0.16 0.22 0.14 0.01 0.07 0.01 0.01 0.01 
G | 0.18 0.64 0.80 0.01 0.08 0.01 0.01 0.01 
T | 0.03 0.13 0.01 0.95 0.01 0.01 0.97 0.97
Position count matrix (PCM)
A |  63   1   6   3  84  97   2   1 
C |  16  22  14   1   7   1   1   1 
G |  18  64  80   1   8   1   1   1 
T |   3  13   1  95   1   1  97  97
Position weight matrix (PWM)
A |  0.68 -3.47 -1.67 -2.37  0.97  1.11 -2.77 -3.47 
C | -0.12  0.20 -0.25 -2.89 -0.94 -2.89 -2.89 -2.89 
G |  0.00  1.27  1.49 -2.89 -0.81 -2.89 -2.89 -2.89 
T | -2.37 -0.90 -3.47  1.09 -3.47 -3.47  1.11  1.11
Fordyce et. al.
YAP3_CFordyce et. al.P = 0.09187View matrix ↘
Fisher’s P-value0.09187
Information content9.672
Max PWM score8.69
Recommended cutoff5.28
Position frequency matrix (PFM)
A | 0.01 0.01 0.90 0.03 0.01 0.02 0.96 0.97 
C | 0.01 0.09 0.03 0.62 0.47 0.01 0.02 0.01 
G | 0.01 0.08 0.04 0.14 0.52 0.01 0.01 0.01 
T | 0.97 0.82 0.04 0.21 0.01 0.96 0.01 0.01
Position count matrix (PCM)
A |   1   1  90   3   1   2  96  97 
C |   1   9   3  62  47   1   2   1 
G |   1   8   4  14  52   1   1   1 
T |  97  82   4  21   1  96   1   1
Position weight matrix (PWM)
A | -3.47 -3.47  1.03 -2.37 -3.47 -2.77  1.10  1.11 
C | -2.89 -0.69 -1.79  1.24  0.96 -2.89 -2.20 -2.89 
G | -2.89 -0.81 -1.50 -0.25  1.06 -2.89 -2.89 -2.89 
T |  1.11  0.94 -2.08 -0.42 -3.47  1.10 -3.47 -3.47
Fordyce et. al.
YAP3Harbison et. al.P = 0.05633View matrix ↘
Sequence logo for YAP3
Fisher’s P-value0.05633
Information content10.48
Max PWM score8.28
Recommended cutoff4.47
Position frequency matrix (PFM)
A | 0.012 0.012 0.964 0.012 0.012 0.964 0.964 
C | 0.012 0.012 0.012 0.965 0.012 0.012 0.012 
G | 0.012 0.012 0.012 0.012 0.012 0.012 0.012 
T | 0.964 0.964 0.012 0.012 0.964 0.012 0.012
Position count matrix (PCM)
A |   1   1  96   1   1  96  96 
C |   1   1   1  96   1   1   1 
G |   1   1   1   1   1   1   1 
T |  96  96   1   1  96   1   1
Position weight matrix (PWM)
A | -3.28 -3.28  1.10 -3.28 -3.28  1.10  1.10 
C | -2.71 -2.71 -2.71  1.68 -2.71 -2.71 -2.71 
G | -2.71 -2.71 -2.71 -2.71 -2.71 -2.71 -2.71 
T |  1.10  1.10 -3.28 -3.28  1.10 -3.28 -3.28
Harbison et. al.
YAP3Macisaac et. alP = 0.05633View matrix ↘
Sequence logo for YAP3
Fisher’s P-value0.05633
Information content10.47
Max PWM score8.28
Recommended cutoff4.47
Position frequency matrix (PFM)
A | 0.012 0.012 0.964 0.012 0.012 0.964 0.964 
C | 0.012 0.012 0.012 0.964 0.012 0.012 0.012 
G | 0.012 0.012 0.012 0.012 0.012 0.012 0.012 
T | 0.964 0.964 0.012 0.012 0.964 0.012 0.012
Position count matrix (PCM)
A |   1   1  96   1   1  96  96 
C |   1   1   1  96   1   1   1 
G |   1   1   1   1   1   1   1 
T |  96  96   1   1  96   1   1
Position weight matrix (PWM)
A | -3.28 -3.28  1.10 -3.28 -3.28  1.10  1.10 
C | -2.71 -2.71 -2.71  1.68 -2.71 -2.71 -2.71 
G | -2.71 -2.71 -2.71 -2.71 -2.71 -2.71 -2.71 
T |  1.10  1.10 -3.28 -3.28  1.10 -3.28 -3.28
Macisaac et. al
03 / EXPERIMENTAL CONTEXT

Gene-level annotations and interactions.

Genes bound in ChIP-chip experiments 84 genes

YAR009C, YAR035W, YBL001C, YBR040W, YBR041W, YBR057C, YBR102C, YBR103W, YBR143C, YBR232C, YCR042C, YCR096C, YDL092W, YDL094C, YDL127W, YDL161W, YDL163W, YDL164C, YDR160W, YDR319C, YDR461W, YEL002C, YER013W, YGL047W, YGL048C, YGL108C, YGL178W, YGL205W, YGL206C, YGL249W, YHL008C, YHR155W, YHR178W, YIL116W, YIL117C, YJR044C, YJR154W, YKL009W, YKL010C, YKR035C, YKR073C, YLL035W, YLL036C, YLL038C, YLR006C, YLR007W, YLR035C-A, YLR207W, YLR292C, YLR346C, YLR425W, YLR452C, YLR463C, YLR465C, YLR467W, YML055W, YML056C, YML082W, YML083C, YML116W, YMR135W-A, YMR193W, YMR283C, YNL025C, YNL048W, YNL049C, YNL145W, YNR011C, YNR012W, YOL042W, YOL043C, YOL142W, YOL143C, YOR033C, YOR074C, YOR075W, YOR093C, YOR094W, YOR129C, YOR148C, YPL257W-A, YPL257W-B, YPR048W, YPR183W

Genes affected by TF deletion 113 genes

YCR040W, YGL199C, YGR280C, YIL084C, YKR012C, YGL009C, YPL019C, YCR013C, YCR041W, YKR013W, YML113W, YMR044W, YOR194C, YOR226C, YCR097W-A, YHR143W-A, YPR079W, YPR140W, YCR073W-A, YFR005C, YGR005C, YHR025W, YLR340W, YOR351C, YPL187W, YHR208W, YML085C, YBR067C, YDR461W, YFR006W, YHR021C, YHR026W, YLR339C, YNL146W, YPR015C, YCL012W, YCL018W, YDR281C, YIL015W, YML055W, YMR253C, YNL300W, YNR071C, YOR229W, YDR077W, YER154W, YNL057W, YJR148W, YAL012W, YER001W, YLR440C, YDR502C, YMR113W, YOL144W, YPR026W, YPL195W, YBR265W, YKL209C, YKL178C, YLR343W, YLR349W, YOL111C, YOL143C, YNR043W, YCL027W, YJL158C, YKL177W, YNL308C, YCR059C, YKR093W, YOR239W, YOR243C, YLR040C, YLR416C, YLR420W, YDL058W, YCL066W, YKR086W, YOR210W, YLR454W, YKL120W, YLR041W, YML010W, YCR097W, YFL026W, YKL032C, YOL126C, YGL089C, YBR145W, YDL014W, YFL023W, YJR004C, YKL216W, YNR044W, YNL322C, YGL226W, YLR303W, YOR247W, YPL043W, YGL224C, YHL009C, YLR267W, YLR302C, YOR246C, YOR248W, YGL032C, YPL044C, YOR034C, YCL009C, YGR274C, YMR094W, YER073W, YOR152C

Genes supported by both experiments 3 genes

YDR461W, YML055W, YOL143C