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

REB1

YBR049C, GRF2

View at SGD ↗

RNA polymerase I enhancer binding protein; DNA binding protein which binds to genes transcribed by both RNA polymerase I and RNA polymerase II; required for termination of RNA polymerase I transcription

01 / RECOMMENDED MATRIX

Best-performing DNA-binding model.

RecommendedSource: Badis et. al.
Fisher’s P-value1.01e-160
Information content12.91
Max PWM score11.7
Recommended cutoff8.74
View and copy the recommended matrices ↘
Position frequency matrix (PFM)
A | 0.300 0.010 0.010 0.970 0.010 0.010 0.010 0.010 0.150 
C | 0.100 0.010 0.010 0.010 0.970 0.970 0.970 0.010 0.150 
G | 0.500 0.010 0.010 0.010 0.010 0.010 0.010 0.590 0.550 
T | 0.100 0.970 0.970 0.010 0.010 0.010 0.010 0.390 0.150
Position count matrix (PCM)
A |  30   1   1  97   1   1   1   1  15 
C |  10   1   1   1  97  97  97   1  15 
G |  50   1   1   1   1   1   1  59  55 
T |  10  97  97   1   1   1   1  39  15
Position weight matrix (PWM)
A | -0.06 -3.47 -3.47  1.11 -3.47 -3.47 -3.47 -3.47 -0.76 
C | -0.59 -2.89 -2.89 -2.89  1.68  1.68  1.68 -2.89 -0.18 
G |  1.02 -2.89 -2.89 -2.89 -2.89 -2.89 -2.89  1.19  1.12 
T | -1.16  1.11  1.11 -3.47 -3.47 -3.47 -3.47  0.20 -0.76
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.

REB1_AFoat et. al.P = 4.64e-129View matrix ↘
Sequence logo for REB1_A
Fisher’s P-value4.64e-129
Information content10.38
Max PWM score9.02
Recommended cutoff9.02
Position frequency matrix (PFM)
A | 0.16 0.01 0.01 0.01 0.01 0.54 0.81 
C | 0.82 0.01 0.11 0.01 0.01 0.08 0.01 
G | 0.01 0.97 0.87 0.97 0.01 0.20 0.18 
T | 0.01 0.01 0.01 0.01 0.97 0.18 0.01
Position count matrix (PCM)
A |  16   1   1   1   1  54  81 
C |  82   1  11   1   1   8   1 
G |   1  97  87  97   1  20  18 
T |   1   1   1   1  97  18   1
Position weight matrix (PWM)
A | -0.69 -3.47 -3.47 -3.47 -3.47  0.52  0.93 
C |  1.52 -2.89 -0.49 -2.89 -2.89 -0.81 -2.89 
G | -2.89  1.68  1.58  1.68 -2.89  0.11  0.00 
T | -3.47 -3.47 -3.47 -3.47  1.11 -0.58 -3.47
Foat et. al.
REB1_BFoat et. al.P = 2.59e-130View matrix ↘
Sequence logo for REB1_B
Fisher’s P-value2.59e-130
Information content11.54
Max PWM score9.63
Recommended cutoff7.71
Position frequency matrix (PFM)
A | 0.20 0.01 0.01 0.01 0.01 0.80 0.97 
C | 0.77 0.01 0.01 0.01 0.01 0.06 0.01 
G | 0.01 0.97 0.97 0.97 0.01 0.06 0.01 
T | 0.02 0.01 0.01 0.01 0.97 0.09 0.01
Position count matrix (PCM)
A |  20   1   1   1   1  80  97 
C |  77   1   1   1   1   6   1 
G |   1  97  97  97   1   6   1 
T |   2   1   1   1  97   9   1
Position weight matrix (PWM)
A | -0.47 -3.47 -3.47 -3.47 -3.47  0.92  1.11 
C |  1.45 -2.89 -2.89 -2.89 -2.89 -1.10 -2.89 
G | -2.89  1.68  1.68  1.68 -2.89 -1.10 -2.89 
T | -2.77 -3.47 -3.47 -3.47  1.11 -1.27 -3.47
Foat et. al.
REB1_CFoat et. al.P = 7.69e-144View matrix ↘
Sequence logo for REB1_C
Fisher’s P-value7.69e-144
Information content12.37
Max PWM score10.69
Recommended cutoff8.68
Position frequency matrix (PFM)
A | 0.19 0.01 0.01 0.01 0.01 0.85 0.97 0.05 
C | 0.80 0.01 0.01 0.01 0.01 0.01 0.01 0.47 
G | 0.01 0.97 0.97 0.97 0.01 0.07 0.01 0.17 
T | 0.01 0.01 0.01 0.01 0.97 0.07 0.01 0.31
Position count matrix (PCM)
A |  19   1   1   1   1  85  97   5 
C |  80   1   1   1   1   1   1  47 
G |   1  97  97  97   1   7   1  17 
T |   1   1   1   1  97   7   1  31
Position weight matrix (PWM)
A | -0.52 -3.47 -3.47 -3.47 -3.47  0.98  1.11 -1.86 
C |  1.49 -2.89 -2.89 -2.89 -2.89 -2.89 -2.89  0.96 
G | -2.89  1.68  1.68  1.68 -2.89 -0.94 -2.89 -0.06 
T | -3.47 -3.47 -3.47 -3.47  1.11 -1.52 -3.47 -0.03
Foat et. al.
REB1_AFordyce et. al.P = 1.25e-145View matrix ↘
Fisher’s P-value1.25e-145
Information content10.02
Max PWM score9.39
Recommended cutoff8.83
Position frequency matrix (PFM)
A | 0.47 0.01 0.01 0.07 0.01 0.82 0.84 0.01 
C | 0.46 0.04 0.01 0.01 0.01 0.01 0.01 0.33 
G | 0.03 0.94 0.97 0.80 0.01 0.05 0.12 0.30 
T | 0.04 0.01 0.01 0.12 0.97 0.13 0.03 0.36
Position count matrix (PCM)
A |  47   1   1   7   1  82  84   1 
C |  46   4   1   1   1   1   1  33 
G |   3  94  97  80   1   5  12  30 
T |   4   1   1  12  97  13   3  36
Position weight matrix (PWM)
A |  0.38 -3.47 -3.47 -1.52 -3.47  0.94  0.97 -3.47 
C |  0.94 -1.50 -2.89 -2.89 -2.89 -2.89 -2.89  0.61 
G | -1.79  1.65  1.68  1.49 -2.89 -1.28 -0.41  0.51 
T | -2.08 -3.47 -3.47 -0.98  1.11 -0.90 -2.37  0.12
Fordyce et. al.
REB1_BFordyce et. al.P = 1.25e-145View matrix ↘
Fisher’s P-value1.25e-145
Information content10.02
Max PWM score9.39
Recommended cutoff8.83
Position frequency matrix (PFM)
A | 0.36 0.03 0.13 0.97 0.12 0.01 0.01 0.04 
C | 0.30 0.12 0.05 0.01 0.80 0.97 0.94 0.03 
G | 0.33 0.01 0.01 0.01 0.01 0.01 0.04 0.46 
T | 0.01 0.84 0.82 0.01 0.07 0.01 0.01 0.47
Position count matrix (PCM)
A |  36   3  13  97  12   1   1   4 
C |  30  12   5   1  80  97  94   3 
G |  33   1   1   1   1   1   4  46 
T |   1  84  82   1   7   1   1  47
Position weight matrix (PWM)
A |  0.12 -2.37 -0.90  1.11 -0.98 -3.47 -3.47 -2.08 
C |  0.51 -0.41 -1.28 -2.89  1.49  1.68  1.65 -1.79 
G |  0.61 -2.89 -2.89 -2.89 -2.89 -2.89 -1.50  0.94 
T | -3.47  0.97  0.94 -3.47 -1.52 -3.47 -3.47  0.38
Fordyce et. al.
REB1_CFordyce et. al.P = 2.88e-131View matrix ↘
Fisher’s P-value2.88e-131
Information content9.605
Max PWM score9.65
Recommended cutoff8.98
Position frequency matrix (PFM)
A | 0.04 0.12 0.91 0.08 0.01 0.01 0.06 0.20 
C | 0.11 0.05 0.01 0.82 0.97 0.93 0.03 0.24 
G | 0.01 0.01 0.07 0.04 0.01 0.06 0.44 0.47 
T | 0.84 0.82 0.01 0.06 0.01 0.01 0.47 0.09
Position count matrix (PCM)
A |   4  12  91   8   1   1   6  20 
C |  11   5   1  82  97  93   3  24 
G |   1   1   7   4   1   6  44  47 
T |  84  82   1   6   1   1  47   9
Position weight matrix (PWM)
A | -2.08 -0.98  1.05 -1.39 -3.47 -3.47 -1.67 -0.47 
C | -0.49 -1.28 -2.89  1.52  1.68  1.64 -1.79  0.29 
G | -2.89 -2.89 -0.94 -1.50 -2.89 -1.10  0.89  0.96 
T |  0.97  0.94 -3.47 -1.67 -3.47 -3.47  0.38 -1.27
Fordyce et. al.
REB1Harbison et. al.P = 8.63e-131View matrix ↘
Sequence logo for REB1
Fisher’s P-value8.63e-131
Information content10.47
Max PWM score9.54
Recommended cutoff7
Position frequency matrix (PFM)
A | 0.114 0.033 0.032 0.032 0.057 0.923 0.888 
C | 0.814 0.018 0.018 0.017 0.007 0.013 0.027 
G | 0.025 0.918 0.919 0.918 0.008 0.028 0.030 
T | 0.047 0.031 0.031 0.032 0.927 0.036 0.055
Position count matrix (PCM)
A |  11   3   3   3   5  92  88 
C |  81   1   1   1   0   1   2 
G |   2  91  91  91   0   2   3 
T |   4   3   3   3  92   3   5
Position weight matrix (PWM)
A | -1.03 -2.27 -2.30 -2.30 -1.73  1.06  1.02 
C |  1.51 -2.30 -2.30 -2.36 -3.25 -2.63 -1.90 
G | -1.97  1.63  1.63  1.63 -3.11 -1.86 -1.79 
T | -1.92 -2.33 -2.33 -2.30  1.06 -2.18 -1.76
Harbison et. al.
REB1Macisaac et. alP = 1.43e-146View matrix ↘
Sequence logo for REB1
Fisher’s P-value1.43e-146
Information content12.78
Max PWM score10.88
Recommended cutoff8.47
Position frequency matrix (PFM)
A | 0.025 0.056 0.964 0.010 0.005 0.008 0.009 0.094 
C | 0.025 0.040 0.013 0.975 0.987 0.977 0.011 0.283 
G | 0.025 0.008 0.015 0.005 0.003 0.010 0.845 0.521 
T | 0.925 0.896 0.008 0.010 0.005 0.005 0.135 0.102
Position count matrix (PCM)
A |   2   5  96   1   0   0   0   9 
C |   2   4   1  97  98  97   1  28 
G |   2   0   1   0   0   1  84  52 
T |  92  89   0   1   0   0  13  10
Position weight matrix (PWM)
A | -2.55 -1.74  1.10 -3.47 -4.16 -3.69 -3.57 -1.23 
C | -1.97 -1.50 -2.63  1.69  1.70  1.69 -2.80  0.45 
G | -1.97 -3.11 -2.48 -3.58 -4.09 -2.89  1.55  1.06 
T |  1.06  1.03 -3.69 -3.47 -4.16 -4.16 -0.86 -1.14
Macisaac et. al
REB1Morozov et. al.P = 5.62e-141View matrix ↘
Sequence logo for REB1
Fisher’s P-value5.62e-141
Information content13.42
Max PWM score11.15
Recommended cutoff8.13
Position frequency matrix (PFM)
A | 0.067 0.109 0.005 0.002 0.003 0.015 0.910 0.938 
C | 0.634 0.848 0.001 0.002 0.004 0.015 0.017 0.025 
G | 0.244 0.024 0.992 0.995 0.990 0.017 0.037 0.015 
T | 0.055 0.019 0.001 0.001 0.002 0.952 0.036 0.023
Position count matrix (PCM)
A |   6  10   0   0   0   1  91  93 
C |  63  84   0   0   0   1   1   2 
G |  24   2  99  99  99   1   3   1 
T |   5   1   0   0   0  95   3   2
Position weight matrix (PWM)
A | -1.56 -1.08 -4.16 -5.08 -4.67 -3.06  1.05  1.08 
C |  1.26  1.55 -5.19 -4.50 -3.81 -2.48 -2.36 -1.97 
G |  0.30 -2.01  1.71  1.71  1.70 -2.36 -1.58 -2.48 
T | -1.76 -2.82 -5.77 -5.77 -5.08  1.09 -2.18 -2.63
Morozov et. al.
REB1Pachkov et alP = 3.80e-157View matrix ↘
Sequence logo for REB1
Fisher’s P-value3.80e-157
Information content14.62
Max PWM score13.07
Recommended cutoff10.18
Position frequency matrix (PFM)
A | 0.131 0.128 0.114 0.001 0.001 0.001 0.001 0.921 0.946 0.048 0.432 
C | 0.086 0.507 0.854 0.001 0.001 0.001 0.004 0.012 0.002 0.503 0.195 
G | 0.345 0.231 0.017 1.000 1.000 0.998 0.001 0.046 0.040 0.074 0.263 
T | 0.438 0.134 0.016 0.001 0.001 0.002 0.996 0.021 0.011 0.376 0.110
Position count matrix (PCM)
A |  13  12  11   0   0   0   0  92  94   4  43 
C |   8  50  85   0   0   0   0   1   0  50  19 
G |  34  23   1 100 100  99   0   4   4   7  26 
T |  43  13   1   0   0   0  99   2   1  37  11
Position weight matrix (PWM)
A | -0.89 -0.92 -1.03 -5.77 -5.77 -5.77 -5.77  1.06  1.08 -1.90  0.30 
C | -0.74  1.04  1.56 -5.19 -5.19 -5.19 -3.81 -2.71 -4.50  1.03  0.08 
G |  0.65  0.25 -2.36  1.71  1.71  1.71 -5.19 -1.36 -1.50 -0.89  0.38 
T |  0.31 -0.87 -3.00 -5.77 -5.77 -5.08  1.14 -2.72 -3.37  0.16 -1.07
Pachkov et al
REB1Zhu J and MQ ZhangP = 1.55e-129View matrix ↘
Sequence logo for REB1
Fisher’s P-value1.55e-129
Information content7.536
Max PWM score8.52
Recommended cutoff8.52
Position frequency matrix (PFM)
A | 0.05 0.11 0.84 0.05 0.05 0.05 0.05 
C | 0.16 0.21 0.05 0.84 0.84 0.84 0.05 
G | 0.05 0.05 0.05 0.05 0.05 0.05 0.74 
T | 0.74 0.63 0.05 0.05 0.05 0.05 0.16
Position count matrix (PCM)
A |   5  11  84   5   5   5   5 
C |  16  21   5  84  84  84   5 
G |   5   5   5   5   5   5  74 
T |  74  63   5   5   5   5  16
Position weight matrix (PWM)
A | -1.86 -1.07  0.97 -1.86 -1.86 -1.86 -1.86 
C | -0.12  0.15 -1.28  1.54  1.54  1.54 -1.28 
G | -1.28 -1.28 -1.28 -1.28 -1.28 -1.28  1.41 
T |  0.84  0.68 -1.86 -1.86 -1.86 -1.86 -0.69
Zhu J and MQ Zhang
03 / EXPERIMENTAL CONTEXT

Gene-level annotations and interactions.

Genes bound in ChIP-chip experiments 278 genes

YAL030W, YAL031C, YBL013W, YBL014C, YBL036C, YBL058W, YBL059C-A, YBR163W, YBR164C, YBR165W, YBR179C, YBR180W, YBR222C, YBR224W, YBR225W, YBR236C, YBR237W, YCR032W, YCR094W, YDL007W, YDL045W-A, YDL137W, YDL140C, YDL186W, YDL188C, YDL212W, YDL213C, YDL225W, YDL226C, YDL232W, YDR154C, YDR155C, YDR156W, YDR157W, YDR158W, YDR219C, YDR221W, YDR257C, YDR282C, YDR313C, YDR322C-A, YDR323C, YDR370C, YDR371W, YDR372C, YDR373W, YDR465C, YDR466W, YDR498C, YDR499W, YEL004W, YEL005C, YEL012W, YEL022W, YEL023C, YEL027W, YER007C-A, YER013W, YER039C, YER040W, YER049W, YER070W, YER105C, YER106W, YER156C, YER157W, YFL005W, YFL023W, YFL024C, YFR050C, YGL068W, YGL070C, YGL088W, YGL089C, YGL119W, YGL120C, YGL151W, YGL152C, YGL181W, YGL182C, YGL191W, YGL193C, YGL198W, YGL200C, YGL238W, YGL244W, YGR012W, YGR078C, YGR079W, YGR134W, YGR135W, YGR147C, YGR172C, YGR173W, YGR179C, YGR184C, YGR191W, YGR231C, YGR232W, YGR235C, YGR241C, YGR243W, YHL030W, YHL031C, YHR039C-A, YHR040W, YHR170W, YIL014W, YIL022W, YIL023C, YIL075C, YIL108W, YIL109C, YIL112W, YIL125W, YIL148W, YIL149C, YIR002C, YIR003W, YJL001W, YJL002C, YJL003W, YJL004C, YJL148W, YJL158C, YJL194W, YJL196C, YJR085C, YJR086W, YJR087W, YJR090C, YJR098C, YJR099W, YJR100C, YJR127C, YJR137C, YJR138W, YKL051W, YKL052C, YKL058W, YKL059C, YKL072W, YKL077W, YKL081W, YKL082C, YKL104C, YKL121W, YKL122C, YKL142W, YKL145W, YKL146W, YKL147C, YKL148C, YKL202W, YKL203C, YKR015C, YKR016W, YKR068C, YKR069W, YKR076W, YLL040C, YLR083C, YLR114C, YLR115W, YLR170C, YLR223C, YLR224W, YLR275W, YLR308W, YLR367W, YLR378C, YLR380W, YML001W, YML119W, YML120C, YML124C, YML129C, YMR001C, YMR002W, YMR039C, YMR040W, YMR047C, YMR048W, YMR117C, YMR121C, YMR122W-A, YMR182C, YMR186W, YMR188C, YMR189W, YMR214W, YMR221C, YMR260C, YMR280C, YMR281W, YNL008C, YNL090W, YNL091W, YNL111C, YNL113W, YNL115C, YNL117W, YNL118C, YNL161W, YNL169C, YNL171C, YNL243W, YNL244C, YNL262W, YNL263C, YNL279W, YNL280C, YNL284C, YNL308C, YNR011C, YNR012W, YNR013C, YNR014W, YNR017W, YNR039C, YNR040W, YOL004W, YOL005C, YOL006C, YOR044W, YOR048C, YOR074C, YOR075W, YOR076C, YOR077W, YOR093C, YOR094W, YOR116C, YOR117W, YOR122C, YOR128C, YOR148C, YOR149C, YOR150W, YOR151C, YOR157C, YOR158W, YOR187W, YOR196C, YOR197W, YOR237W, YOR272W, YOR318C, YOR319W, YOR324C, YOR326W, YOR335C, YOR336W, YOR340C, YOR341W, YOR353C, YPL180W, YPL182C, YPL204W, YPL206C, YPL211W, YPL212C, YPR025C, YPR026W, YPR052C, YPR053C, YPR055W, YPR067W, YPR074C, YPR076W, YPR099C, YPR101W, YPR119W, YPR163C, YPR164W, YPR181C, YPR182W, YPR197C

Genes affected by TF deletion 246 genes

YDR034C-C, YDR404C, YGR280C, YGR282C, YHL048W, YLR218C, YMR045C, YML117W-A, YMR046W-A, YOR192C-A, YOR193W, YDR194C, YGL009C, YHR119W, YKL049C, YLR058C, YBR031W, YBR005W, YCL054W, YDR034C-D, YGL168W, YIL147C, YJR047C, YKR072C, YKR042W, YMR046C, YOL014W, YOL046C, YOL016C, YOR192C-B, YPL240C, YAL003W, YAL036C, YDL097C, YGL012W, YGR122C-A, YHR142W, YHR179W, YJL116C, YJL086C, YPL048W, YPR138C, YDR158W, YFL010W-A, YHR025W, YIR034C, YJR147W, YLL034C, YMR105C, YOL106W, YOR347C, YOR289W, YDR337W, YGL105W, YHR208W, YIL018W, YLR157C-A, YMR316W, YHR183W, YDR098C-A, YDR525W, YFL010C, YHR026W, YJR146W, YLL061W, YLR339C, YOL103W-B, YOR344C, YER023W, YER052C, YER083C, YER057C, YGR211W, YGR243W, YIL051C, YKL199C, YML058W, YMR251W-A, YBR010W, YBR012C, YBR012W-B, YDR012W, YJR026W, YJR028W, YLR227W-A, YMR050C, YNL030W, YOL052C-A, YAR010C, YGR161C-C, YGR161W-A, YJL121C, YKL086W, YLR410W-B, YMR202W, YNL284C-A, YOR385W, YBR041W, YBR012W-A, YCL064C, YDR411C, YER150W, YHL021C, YIL117C, YJR027W, YJR029W, YLR256W-A, YMR051C, YNL054W-A, YNL057W, YOR230W, YOR202W, YPL218W, YAR009C, YGR161C-D, YGR161W-B, YLR035C-A, YLR410W-A, YOR078W, YPL028W, YDR168W, YDR502C, YFR015C, YIR042C, YLR344W, YLR380W, YOR323C, YPL274W, YHR215W, YJL217W, YJL159W, YJL191W, YLR162W, YLR194C, YFL014W, YDR170W-A, YGR038C-A, YHR030C, YHR060W, YJL027C, YJR150C, YDL229W, YDR316W-A, YER062C, YHR214C-C, YJL152W, YJL158C, YBR048W, YDR388W, YER131W, YIL094C, YJR032W, YKR087C, YPL223C, YPL193W, YPL257W-A, YDR261W-A, YGR109W-B, YLR414C, YOR049C, YBL101W-A, YER159C-A, YML126C, YML128C, YOL030W, YGR137W, YHR163W, YKL120W, YCR097W, YKL030W, YLL044W, YLR320W, YGR260W, YML045W-A, YDR176W, YGR074W, YIR043C, YLR355C, YNL160W, YPR002C-A, YBL005W-A, YDR354W, YER044C, YGR195W, YGR259C, YKL183W, YLR171W, YML040W, YML073C, YPL131W, YER091C, YBR054W, YER138C, YGL225W, YGL258W, YHL009W-A, YLR297W, YNL073W, YOL041C, YOR247W, YAR042W, YBR249C, YDR210W-D, YDR212W, YEL034W, YGL001C, YGR176W, YKL103C, YOR063W, YBR025C, YCR005C, YDR391C, YFL002W-B, YER137C-A, YGL253W, YGL224C, YGL226C-A, YHL033C, YHR015W, YHR019C, YJR105W, YJR043C, YJR075W, YMR038C, YNL072W, YOL040C, YOR248W, YOR280C, YPL257W-B, YPL198W, YDR210W-A, YDR210W-C, YFR055W, YOR056C, YPR158W-B, YMR158C-B, YOL103W-A, YOR343C-B, YPR074C, YDR365W-A, YKL161C, YBR084W, YCR103C, YGR027W-A, YOR343C-A, YER073W

Genes supported by both experiments 5 genes

YDR158W, YGR243W, YJL158C, YLR380W, YPR074C

Predicted TF–TF partners 5 genes

ABF1, MBP1, STB3, SWI4, SWI6

Explore 5 original interaction plots →