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

SPT2

YER161C, EXA1, SIN1

View at SGD ↗

Protein involved in negative regulation of transcription; required for RNA polyadenylation; exhibits regulated interactions with both histones and SWI-SNF components, has similarity to mammalian HMG1 proteins

01 / RECOMMENDED MATRIX

Best-performing DNA-binding model.

RecommendedSource: Harbison et. al.
Fisher’s P-value3.68e-15
Information content10.57
Max PWM score10.26
Recommended cutoff7.27
View and copy the recommended matrices ↘
Position frequency matrix (PFM)
A | 0.056 0.417 0.167 0.028 0.112 0.584 0.001 0.056 0.112 1.001 0.445 
C | 0.526 0.581 0.001 0.001 0.001 0.332 0.001 0.360 0.139 0.001 0.138 
G | 0.001 0.001 0.056 0.941 0.001 0.028 0.139 0.001 0.111 0.001 0.001 
T | 0.417 0.001 0.779 0.028 0.890 0.056 0.862 0.584 0.640 0.001 0.417
Position count matrix (PCM)
A |   5  41  16   2  11  58   0   5  11 100  44 
C |  52  58   0   0   0  33   0  36  13   0  13 
G |   0   0   5  94   0   2  13   0  11   0   0 
T |  41   0  77   2  89   5  86  58  64   0  41
Position weight matrix (PWM)
A | -1.74  0.26 -0.65 -2.44 -1.05  0.60 -5.77 -1.74 -1.05  1.14  0.33 
C |  1.07  1.17 -5.19 -5.19 -5.19  0.61 -5.19  0.69 -0.26 -5.19 -0.27 
G | -5.19 -5.19 -1.17  1.65 -5.19 -1.86 -0.26 -5.19 -0.48 -5.19 -5.19 
T |  0.26 -5.77  0.89 -2.44  1.02 -1.74  0.99  0.60  0.69 -5.77  0.26
02 / COMPARATIVE BENCHMARKS

Alternative candidate matrices 2

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

SPT2Foat et. al.P = 7.26e-08View matrix ↘
Sequence logo for SPT2
Fisher’s P-value7.26e-08
Information content19.64
Max PWM score19.51
Recommended cutoff10.14
Position frequency matrix (PFM)
A | 0.15 0.10 0.13 0.01 0.01 0.95 0.45 0.01 0.13 0.01 0.01 0.96 0.01 0.20 0.08 
C | 0.11 0.08 0.01 0.97 0.97 0.03 0.51 0.09 0.38 0.01 0.01 0.01 0.06 0.01 0.30 
G | 0.56 0.73 0.67 0.01 0.01 0.01 0.01 0.65 0.25 0.97 0.97 0.02 0.04 0.78 0.60 
T | 0.18 0.09 0.20 0.01 0.01 0.01 0.04 0.25 0.24 0.01 0.01 0.01 0.89 0.01 0.02
Position count matrix (PCM)
A |  15  10  13   1   1  95  45   1  13   1   1  96   1  20   8 
C |  11   8   1  97  97   3  51   9  38   1   1   1   6   1  30 
G |  56  73  67   1   1   1   1  65  25  97  97   2   4  78  60 
T |  18   9  20   1   1   1   4  25  24   1   1   1  89   1   2
Position weight matrix (PWM)
A | -0.76 -1.16 -0.90 -3.47 -3.47  1.09  0.34 -3.47 -0.90 -3.47 -3.47  1.10 -3.47 -0.47 -1.39 
C | -0.49 -0.81 -2.89  1.68  1.68 -1.79  1.04 -0.69  0.75 -2.89 -2.89 -2.89 -1.10 -2.89  0.51 
G |  1.13  1.40  1.31 -2.89 -2.89 -2.89 -2.89  1.28  0.33  1.68  1.68 -2.20 -1.50  1.47  1.20 
T | -0.58 -1.27 -0.47 -3.47 -3.47 -3.47 -2.08 -0.25 -0.29 -3.47 -3.47 -3.47  1.02 -3.47 -2.77
Foat et. al.
SPT2Macisaac et. alP = 3.16e-07View matrix ↘
Sequence logo for SPT2
Fisher’s P-value3.16e-07
Information content9.449
Max PWM score8.11
Recommended cutoff5.92
Position frequency matrix (PFM)
A | 0.610 0.421 0.001 0.049 0.811 0.750 0.528 0.006 0.997 0.762 
C | 0.002 0.155 0.003 0.005 0.001 0.087 0.228 0.001 0.001 0.001 
G | 0.020 0.050 0.001 0.001 0.187 0.162 0.208 0.353 0.001 0.236 
T | 0.368 0.375 0.995 0.945 0.001 0.001 0.036 0.640 0.001 0.001
Position count matrix (PCM)
A |  61  42   0   4  81  75  52   0  99  76 
C |   0  15   0   0   0   8  22   0   0   0 
G |   2   5   0   0  18  16  20  35   0  23 
T |  36  37  99  94   0   0   3  64   0   0
Position weight matrix (PWM)
A |  0.65  0.27 -5.77 -1.88  0.93  0.85  0.50 -3.98  1.14  0.87 
C | -4.50 -0.15 -4.09 -3.58 -5.19 -0.73  0.24 -5.19 -5.19 -5.19 
G | -2.20 -1.28 -5.19 -5.19  0.04 -0.11  0.14  0.67 -5.19  0.27 
T |  0.14  0.16  1.13  1.08 -5.77 -5.77 -2.18  0.69 -5.77 -5.77
Macisaac et. al
03 / EXPERIMENTAL CONTEXT

Gene-level annotations and interactions.

Genes bound in ChIP-chip experiments 89 genes

YAL037W, YAR009C, YAR068W, YBL005W-A, YBL005W-B, YBR159W, YBR192W, YDL228C, YDR042C, YDR075W, YDR153C, YDR210W-D, YDR226W, YDR381W, YDR386W, YDR449C, YDR450W, YDR472W, YDR524C, YDR525W, YEL033W, YEL034W, YEL035C, YEL047C, YER007C-A, YER138C, YFL030W, YGR190C, YGR192C, YHL034C, YHR135C, YHR173C, YHR174W, YHR175W, YIL134W, YIL167W, YIL168W, YIL169C, YJL013C, YJL048C, YJL137C, YJL148W, YKL038W, YKL057C, YKL118W, YKL153W, YKL181W, YKL210W, YLL004W, YLL005C, YLL014W, YLL015W, YLL026W, YLL044W, YLL046C, YLR043C, YLR057W, YLR062C, YLR063W, YLR076C, YLR077W, YLR193C, YLR301W, YLR339C, YLR341W, YLR354C, YLR367W, YLR368W, YML027W, YML057W, YML124C, YMR193C-A, YNL066W, YNL160W, YNL189W, YNL299W, YOL041C, YOL087C, YOL121C, YOL154W, YOL155C, YOR042W, YOR236W, YOR272W, YPL060W, YPL241C, YPL252C, YPR066W, YPR091C

Genes affected by TF deletion 141 genes

YHL048W, YML114C, YDR222W, YDR399W, YML113W, YOL011W, YAL003W, YFR032C, YFR033C, YHR175W, YMR189W, YPL014W, YLL034C, YLR374C, YMR103C, YOL136C, YDR339C, YER055C, YGL103W, YGR250C, YLR156W, YLR186W, YML027W, YJL017W, YMR104C, YNL116W, YOR288C, YDR279W, YER081W, YER029C, YPL111W, YCR021C, YIL118W, YLR224W, YLR226W, YNL089C, YOR263C, YOR267C, YAL044C, YAR015W, YBR195C, YKL051W, YKL119C, YLR412W, YOR073W, YOR043W, YPL055C, YIL091C, YKR080W, YLR281C, YMR017W, YML124C, YMR023C, YNL055C, YOR264W, YJL122W, YJL124C, YLR099C, YLR101C, YOR384W, YMR145C, YPR060C, YBR265W, YDR347W, YER063W, YLR192C, YIR035C, YJR150C, YLL037W, YLR375W, YMR144W, YOL085C, YPL273W, YBL028C, YBR296C, YDL201W, YER064C, YGR219W, YKL181W, YML063W, YMR321C, YNR038W, YPR167C, YGR138C, YLR416C, YDR019C, YNL033W, YOR236W, YOR268C, YLR454W, YAR018C, YGR108W, YGR139W, YLR043C, YLR077W, YNL222W, YDL048C, YGR079W, YLR354C, YGR234W, YDR174W, YLR353W, YLR387C, YNL160W, YOL155C, YOR304W, YJL196C, YNR044W, YER091C, YBR054W, YLR297W, YLR301W, YOL070C, YML015C, YLR428C, YDR055W, YIL169C, YMR001C, YMR034C, YNL045W, YKL009W, YBR244W, YFR055W, YHR135C, YHR137W, YLR049C, YMR181C, YMR250W, YOR092W, YPL040C, YLR398C, YOL098C, YGR024C, YOR372C, YOR312C, YPR009W, YPR041W, YPR073C, YGR235C, YIL041W, YNR052C

Genes supported by both experiments 13 genes

YHR135C, YHR175W, YIL169C, YKL181W, YLR043C, YLR077W, YLR301W, YLR354C, YML027W, YML124C, YNL160W, YOL155C, YOR236W