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

MSN1

YOL116W, PHD2, MSS10, HRB382, FUP1

View at SGD ↗

Transcriptional activator involved in regulation of invertase and glucoamylase expression, invasive growth and pseudohyphal differentiation, iron uptake, chromium accumulation, and response to osmotic stress; localizes to the nucleus

01 / RECOMMENDED MATRIX

Best-performing DNA-binding model.

RecommendedSource: Fordyce et. al.
Fisher’s P-value0.8246
Information content8.331
Max PWM score8.18
Recommended cutoff7.73
View and copy the recommended matrices ↘
Position frequency matrix (PFM)
A | 0.36 0.16 0.02 0.96 0.01 0.84 0.12 0.32 
C | 0.12 0.01 0.01 0.02 0.96 0.02 0.10 0.10 
G | 0.22 0.77 0.93 0.01 0.01 0.04 0.01 0.15 
T | 0.30 0.06 0.04 0.01 0.02 0.11 0.77 0.42
Position count matrix (PCM)
A |  36  16   2  96   1  84  12  32 
C |  12   1   1   2  96   2  10  10 
G |  22  77  93   1   1   4   1  15 
T |  30   6   4   1   2  11  77  42
Position weight matrix (PWM)
A |  0.12 -0.69 -2.77  1.10 -3.47  0.97 -0.98  0.00 
C | -0.41 -2.89 -2.89 -2.20  1.67 -2.20 -0.59 -0.59 
G |  0.20  1.45  1.64 -2.89 -2.89 -1.50 -2.89 -0.18 
T | -0.06 -1.67 -2.08 -3.47 -2.77 -1.07  0.88  0.27
02 / COMPARATIVE BENCHMARKS

Alternative candidate matrices 3

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

MSN1Foat et. al.P = 0.0001664View matrix ↘
Sequence logo for MSN1
Fisher’s P-value0.0001664
Information content16.71
Max PWM score16.93
Recommended cutoff11.25
Position frequency matrix (PFM)
A | 0.04 0.31 0.35 0.01 0.01 0.08 0.09 0.70 0.01 0.01 0.02 0.97 0.01 0.40 0.20 
C | 0.13 0.01 0.63 0.01 0.97 0.01 0.25 0.22 0.31 0.01 0.16 0.01 0.31 0.18 0.40 
G | 0.41 0.60 0.01 0.01 0.01 0.90 0.01 0.01 0.35 0.94 0.81 0.01 0.64 0.40 0.02 
T | 0.41 0.08 0.01 0.97 0.01 0.01 0.64 0.08 0.33 0.04 0.01 0.01 0.05 0.03 0.38
Position count matrix (PCM)
A |   4  31  35   1   1   8   9  70   1   1   2  97   1  40  20 
C |  13   1  63   1  97   1  25  22  31   1  16   1  31  18  40 
G |  41  60   1   1   1  90   1   1  35  94  81   1  64  40   2 
T |  41   8   1  97   1   1  64   8  33   4   1   1   5   3  38
Position weight matrix (PWM)
A | -2.08 -0.03  0.09 -3.47 -3.47 -1.39 -1.27  0.78 -3.47 -3.47 -2.77  1.11 -3.47  0.22 -0.47 
C | -0.33 -2.89  1.25 -2.89  1.68 -2.89  0.33  0.20  0.54 -2.89 -0.12 -2.89  0.54  0.00  0.80 
G |  0.82  1.20 -2.89 -2.89 -2.89  1.61 -2.89 -2.89  0.66  1.65  1.50 -2.89  1.27  0.80 -2.20 
T |  0.25 -1.39 -3.47  1.11 -3.47 -3.47  0.69 -1.39  0.03 -2.08 -3.47 -3.47 -1.86 -2.37  0.17
Foat et. al.
MSN1_AFordyce et. al.P = 1View matrix ↘
Fisher’s P-value1
Information content8.431
Max PWM score8.25
Recommended cutoff6.19
Position frequency matrix (PFM)
A | 0.84 0.12 0.34 0.32 0.18 0.01 0.96 0.01 
C | 0.02 0.10 0.10 0.15 0.04 0.01 0.02 0.97 
G | 0.04 0.01 0.13 0.23 0.74 0.95 0.01 0.01 
T | 0.11 0.77 0.43 0.31 0.05 0.03 0.01 0.01
Position count matrix (PCM)
A |  84  12  34  32  18   1  96   1 
C |   2  10  10  15   4   1   2  97 
G |   4   1  13  23  74  95   1   1 
T |  11  77  43  31   5   3   1   1
Position weight matrix (PWM)
A |  0.97 -0.98  0.06  0.00 -0.58 -3.47  1.10 -3.47 
C | -2.20 -0.59 -0.59 -0.18 -1.50 -2.89 -2.20  1.68 
G | -1.50 -2.89 -0.33  0.25  1.41  1.66 -2.89 -2.89 
T | -1.07  0.88  0.30 -0.03 -1.86 -2.37 -3.47 -3.47
Fordyce et. al.
MSN1_BFordyce et. al.P = 1View matrix ↘
Fisher’s P-value1
Information content8.209
Max PWM score8.04
Recommended cutoff6.03
Position frequency matrix (PFM)
A | 0.17 0.02 0.95 0.01 0.83 0.12 0.29 0.31 
C | 0.01 0.01 0.03 0.96 0.02 0.10 0.12 0.20 
G | 0.77 0.93 0.01 0.01 0.04 0.02 0.16 0.19 
T | 0.05 0.04 0.01 0.02 0.11 0.76 0.42 0.31
Position count matrix (PCM)
A |  17   2  95   1  83  12  28  31 
C |   1   1   3  96   2  10  12  20 
G |  77  93   1   1   4   2  16  19 
T |   5   4   1   2  11  76  42  31
Position weight matrix (PWM)
A | -0.63 -2.77  1.09 -3.47  0.95 -0.98 -0.10 -0.03 
C | -2.89 -2.89 -1.79  1.67 -2.20 -0.59 -0.41  0.11 
G |  1.45  1.64 -2.89 -2.89 -1.50 -2.20 -0.12  0.05 
T | -1.86 -2.08 -3.47 -2.77 -1.07  0.86  0.27 -0.03
Fordyce et. al.
03 / EXPERIMENTAL CONTEXT

Gene-level annotations and interactions.

Genes bound in ChIP-chip experiments 24 genes

YBL041W, YBL042C, YBR048W, YDL045W-A, YDL060W, YDL061C, YDR098C, YDR390C, YGL135W, YGL136C, YGL145W, YGL146C, YGR256W, YKL118W, YKR038C, YLR043C, YLR278C, YLR279W, YLR282C, YLR328W, YMR064W, YNL028W, YOR272W, YPR035W

Genes affected by TF deletion 68 genes

YDR064W, YIL148W, YDL130W, YBL087C, YER144C, YNR062C, YLR061W, YPL016W, YFL013W-A, YJL022W, YLL003W, YPL142C, YFR006W, YFL044C, YHR021C, YMR238W, YDR281C, YKL171W, YML057W, YPL143W, YMR173W, YBR041W, YML124C, YGR161C, YOR386W, YOL116W, YDL230W, YBR101C, YDR107C, YLR345W, YJL190C, YDR048C, YDR386W, YLR262C-A, YLR264W, YLR425W, YEL026W, YGL023C, YGL029W, YLR078C, YLR420W, YML130C, YJR127C, YHR128W, YDR179C, YHR072W-A, YKL030W, YLR388W, YDL242W, YDR323C, YER099C, YER072W, YOL119C, YPR035W, YBL042C, YKL156W, YPL157W, YMR065W, YAL033W, YHR136C, YKL133C, YBR021W, YNL264C, YCL004W, YDL029W, YFL068W, YCL006C, YNL007C

Genes supported by both experiments 2 genes

YBL042C, YPR035W