Standard name
Human Ortholog
Description RNA binding protein that sequesters CLN3 mRNA in cytoplasmic foci; regulates genes involved in the cell cycle, sister chromatid cohesion, and stress response; acts as a cytoplasmic retention factor for Cdc28p and associated cyclins; regulates cell fate and dose-dependently regulates the critical cell size required for passage through Start; Tpk1p (PKA) mediated phosphorylation (S568) inhibits Whi3p function, decreasing its interaction with CLN3 mRNA; regulates ploidy
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Micrographs

ensLOC DeepLoc
Localization WT1 WT2 WT3 RAP60 RAP140 RAP220 RAP300 RAP380 RAP460 RAP540 RAP620 RAP700 HU80 HU120 HU160 rpd3Δ_1 rpd3Δ_2 rpd3Δ_3 WT1 WT2 WT3 AF100 AF140 AF180
Cortical Patches 0 0 0 0 0 0 0.05 – 0.06 0 0.05 0 0 0 0 – – – 0 0 0 0 0 0
Bud 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 – – – 0 0 0 0 0 0
Bud Neck 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 – – – 0 0 0 0 0 0
Bud Site 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 – – – – – – – – –
Cell Periphery 0 0 0 0 0 0 0.05 – 0.06 0.07 0.06 0.06 0 0 0.05 – – – 0 0 0 0 0 0
Cytoplasm 0.98 0.97 0.94 0.95 0.87 0.83 0.76 – 0.73 0.71 0.7 0.59 0.96 0.96 0.97 – – – 0.94 0.92 0.83 0.9 0.95 0.95
Endoplasmic Reticulum 0 0 0 0 0.07 0.12 0.15 – 0.2 0.19 0.11 0.14 0 0 0 – – – 0 0 0.08 0 0 0
Endosome 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 – – – 0 0 0 0 0 0
Golgi 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 – – – 0 0 0 0 0 0
Mitochondria 0 0 0 0 0 0 0.05 – 0.05 0.05 0.19 0.19 0 0 0 – – – 0 0 0 0 0 0
Nucleus 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 – – – 0 0 0 0 0 0
Nuclear Periphery 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 – – – 0 0 0 0 0 0
Nucleolus 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 – – – 0 0 0 0 0 0
Peroxisomes 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 – – – 0 0 0 0 0 0
SpindlePole 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 – – – 0 0 0 0 0 0
Vac/Vac Membrane 0 0 0 0 0.05 0 0.05 – 0 0 0 0.09 0 0 0 – – – 0 0 0 0 0 0
ensLOC DeepLoc
Localization WT1 WT2 WT3 RAP60 RAP140 RAP220 RAP300 RAP380 RAP460 RAP540 RAP620 RAP700 HU80 HU120 HU160 rpd3Δ_1 rpd3Δ_2 rpd3Δ_3 WT1 WT2 WT3 AF100 AF140 AF180
Cortical Patches 0 0 0 1 2 12 28 – 21 20 15 9 0 1 4 – – – 0 0 1 0 0 0
Bud 0 0 0 0 0 0 2 – 0 0 1 5 0 1 0 – – – 0 0 0 0 1 0
Bud Neck 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 – – – 0 0 0 0 0 0
Bud Site 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 – – – – – – – – –
Cell Periphery 1 2 6 7 8 19 30 – 24 32 17 21 1 9 19 – – – 0 0 0 0 0 0
Cytoplasm 174 113 147 221 320 361 468 – 273 319 216 209 133 272 360 – – – 163 115 142 84 207 224
Endoplasmic Reticulum 3 4 6 10 26 54 92 – 76 86 34 49 3 8 11 – – – 5 3 13 2 3 4
Endosome 0 0 0 0 1 1 2 – 0 2 1 1 0 1 1 – – – 0 0 0 0 0 1
Golgi 0 0 0 0 7 2 4 – 2 3 4 6 0 0 0 – – – 0 0 1 0 0 0
Mitochondria 0 0 1 0 3 18 29 – 20 22 57 66 0 0 0 – – – 0 0 1 0 0 0
Nucleus 1 0 2 0 0 0 0 – 2 0 0 0 1 1 1 – – – 0 0 0 0 1 0
Nuclear Periphery 0 0 0 1 0 0 0 – 0 2 0 1 1 0 0 – – – 0 1 0 1 0 0
Nucleolus 0 0 0 0 0 0 0 – 0 0 0 2 0 1 0 – – – 0 0 0 0 0 0
Peroxisomes 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 – – – 0 0 0 0 0 0
SpindlePole 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 – – – 0 0 0 0 0 0
Vac/Vac Membrane 0 0 1 1 20 8 28 – 5 6 7 33 0 1 0 – – – 1 2 5 1 2 0
Unique Cell Count 177 116 156 233 368 433 617 376 447 308 354 138 282 372 173 126 172 93 220 236
Labelled Cell Count 179 119 163 241 387 475 683 423 492 352 402 139 295 396 173 126 172 93 220 236


Cytoplasm

(Huh et al. Nature 2003 425:686)
Screen WT1 WT2 WT3 RAP60 RAP140 RAP220 RAP300 RAP380 RAP460 RAP540 RAP620 RAP700 HU80 HU120 HU160 rpd3Δ_1 rpd3Δ_2 rpd3Δ_3 AF100 AF140 AF180
Mean Cell GFP Intensity (1e-4) 12.8 16.0 12.5 12.6 13.7 12.3 12.4 – 11.7 12.2 11.7 11.7 13.1 13.4 12.8 – – – 10.0 12.0 12.0
Std Deviation (1e-4) 1.5 2.5 2.3 1.6 1.9 1.8 1.9 – 1.9 2.1 9.0 4.6 2.2 1.8 1.7 – – – 1.6 1.6 1.7
Intensity Change (Log2) – – – 0.01 0.13 -0.03 -0.01 – -0.1 -0.03 -0.1 -0.1 0.07 0.1 0.03 – – – -0.32 -0.06 -0.06


Localization RAP60 RAP140 RAP220 RAP300 RAP380 RAP460 RAP540 RAP620 RAP700 HU80 HU120 HU160 rpd3Δ_1 rpd3Δ_2 rpd3Δ_3
Cortical Patches 0 0 0 2.7 – 3.0 2.7 2.8 0 0 0 0 – – –
Bud 0 0 0 0 – 0 0 0 0 0 0 0 – – –
Bud Neck 0 0 0 0 – 0 0 0 0 0 0 0 – – –
Bud Site 0 0 0 0 – 0 0 0 0 0 0 0 – – –
Cell Periphery -0.5 0 0.3 0.5 – 1.2 1.5 0.8 1.0 0 -0.4 0.6 – – –
Cytoplasm 0.3 -2.4 -3.4 -5.1 – -5.6 -5.9 -5.9 -8.0 0.9 1.1 1.4 – – –
Endoplasmic Reticulum 0.2 1.4 3.1 3.7 – 4.8 4.6 2.6 3.4 0 0 -0.5 – – –
Endosome 0 0 0 0 – 0 0 0 0 0 0 0 – – –
Golgi 0 0 0 0 – 0 0 0 0 0 0 0 – – –
Mitochondria 0 0 2.1 2.3 – 2.5 2.4 5.5 5.5 0 0 0 – – –
Nucleus 0 0 0 0 – 0 0 0 0 0 0 0 – – –
Nuclear Periphery 0 0 0 0 – 0 0 0 0 0 0 0 – – –
Nucleolus 0 0 0 0 – 0 0 0 0 0 0 0 – – –
Peroxisomes 0 0 0 0 – 0 0 0 0 0 0 0 – – –
SpindlePole 0 0 0 0 – 0 0 0 0 0 0 0 – – –
Vacuole 0 2.6 0 2.3 – 0 0 0 3.6 0 0 0 – – –

Images

Circle plot not available

Protein Concentration and Protein Localization Data

R1 R2 R3
G1 Pre-START G1 Post-START S/G2 Metaphase Anaphase Telophase G1 Pre-START G1 Post-START S/G2 Metaphase Anaphase Telophase G1 Pre-START G1 Post-START S/G2 Metaphase Anaphase Telophase
Concentration 7.105 9.3345 8.3938 6.7759 8.0097 8.205 8.9671 11.2909 10.8406 11.0384 9.6079 10.6204 8.5335 10.5263 10.0129 10.0975 10.026 9.9932
Actin 0.0219 0.0006 0.0122 0.0034 0.0007 0.0057 0.0077 0.0006 0.006 0.0006 0.0056 0.0056 0.0029 0.0004 0.0012 0.0008 0.0005 0.0006
Bud 0.001 0.0004 0.0015 0.001 0.0003 0.0006 0.0023 0.0003 0.0006 0.0013 0.0007 0.0008 0.0006 0.0003 0.0004 0.0014 0.0004 0.0002
Bud Neck 0.0006 0.0003 0.0007 0.0007 0.0005 0.0015 0.002 0.0002 0.0005 0.0007 0.0008 0.001 0.0004 0.0002 0.0004 0.0006 0.0004 0.001
Bud Periphery 0.0017 0.0001 0.0011 0.0003 0 0.0004 0.0018 0.0001 0.0005 0.0008 0.0009 0.0008 0.0005 0 0.0005 0.0008 0.0001 0.0001
Bud Site 0.0061 0.0006 0.0009 0.0008 0.0001 0.0003 0.0051 0.0007 0.0018 0.0004 0.0039 0.0002 0.0008 0.0048 0.0003 0.0002 0.0001 0.0001
Cell Periphery 0.0009 0.0003 0.0002 0.0001 0 0.0001 0.0004 0.0001 0.0004 0.0003 0.0002 0.0003 0.0003 0.0001 0.0001 0.0001 0 0.0001
Cytoplasm 0.7117 0.9439 0.8582 0.7041 0.8653 0.7264 0.7347 0.9431 0.8564 0.6934 0.7836 0.7613 0.7819 0.9359 0.8915 0.7904 0.8866 0.8818
Cytoplasmic Foci 0.0197 0.0104 0.012 0.0296 0.0328 0.0297 0.0286 0.0096 0.0146 0.0128 0.0228 0.0168 0.0161 0.0114 0.0128 0.0228 0.0164 0.0156
Eisosomes 0.0007 0 0.0001 0 0 0 0.0002 0 0.0001 0 0.0001 0 0.0001 0 0 0 0 0
Endoplasmic Reticulum 0.0854 0.0089 0.0219 0.0034 0.0038 0.0413 0.0801 0.0196 0.0283 0.0472 0.0052 0.0946 0.0874 0.0148 0.0242 0.0468 0.0141 0.0426
Endosome 0.0757 0.0234 0.0394 0.1245 0.0861 0.1081 0.0562 0.0175 0.0437 0.1089 0.0728 0.0745 0.0593 0.0238 0.0444 0.0886 0.0618 0.0421
Golgi 0.0141 0.003 0.0044 0.0557 0.0038 0.0323 0.0106 0.0022 0.0085 0.0028 0.009 0.0093 0.0064 0.0022 0.0052 0.0049 0.0043 0.0049
Lipid Particles 0.0114 0.0001 0.0007 0.0235 0.0001 0.0011 0.0144 0.0001 0.003 0.0003 0.0124 0.0025 0.0015 0.0001 0.0001 0.0001 0 0.0001
Mitochondria 0.0211 0.0012 0.0131 0.0158 0.0006 0.0322 0.0098 0.0004 0.0106 0.0039 0.0363 0.0139 0.0088 0.0006 0.0043 0.004 0.0024 0.0038
None 0.0021 0.0005 0.0015 0.0004 0.0004 0.0008 0.0026 0.0007 0.001 0.0008 0.001 0.0011 0.0041 0.0008 0.001 0.0006 0.0007 0.001
Nuclear Periphery 0.0079 0.0009 0.0089 0.001 0.0006 0.0029 0.0087 0.0011 0.0024 0.0117 0.0026 0.0035 0.0068 0.0007 0.003 0.0036 0.0022 0.0011
Nucleolus 0.0002 0 0.003 0.0001 0 0 0.0004 0 0 0 0.0006 0 0.0004 0 0 0 0 0
Nucleus 0.0018 0.0007 0.0077 0.0009 0.0005 0.0011 0.0026 0.0008 0.0011 0.0034 0.0017 0.0015 0.0031 0.0007 0.0013 0.0014 0.0011 0.0009
Peroxisomes 0.0017 0 0.0004 0.0039 0.0001 0.0038 0.0121 0 0.0087 0.0001 0.0131 0.0032 0.0005 0 0.0001 0.0002 0.0001 0.0001
Punctate Nuclear 0.0005 0.0001 0.0019 0.0005 0.0001 0.0003 0.0048 0.0001 0.0002 0.0002 0.0018 0.0003 0.0031 0.0001 0.0003 0.0001 0.0001 0.0001
Vacuole 0.0103 0.0039 0.0079 0.0233 0.0025 0.0067 0.012 0.0025 0.0099 0.0834 0.0139 0.006 0.0121 0.0025 0.0068 0.0252 0.0059 0.0024
Vacuole Periphery 0.0032 0.0008 0.0023 0.0068 0.0016 0.0045 0.0029 0.0005 0.0019 0.0272 0.0111 0.0028 0.0029 0.0006 0.0021 0.0073 0.0027 0.0014

Sequencing Data

R1 R2
G1 Post-START S/G2 Metaphase Anaphase Telophase G1 Post-START S/G2 Metaphase Anaphase Telophase
Gene Expression 30.0019 33.2765 22.1128 29.6245 35.2971 26.0983 40.1742 34.402 20.8768 41.5304
Translational Efficiency 1.6406 1.4478 1.3711 0.7774 0.9862 1.6858 1.0327 1.1377 1.4119 1.0113

Hit Data

Dataset Hit
Protein Concentration ✘
Protein Localization ✘
Gene Expression ✘
Translational Efficiency ✘
Standard name
Human Ortholog
Description RNA binding protein that sequesters CLN3 mRNA in cytoplasmic foci; regulates genes involved in the cell cycle, sister chromatid cohesion, and stress response; acts as a cytoplasmic retention factor for Cdc28p and associated cyclins; regulates cell fate and dose-dependently regulates the critical cell size required for passage through Start; Tpk1p (PKA) mediated phosphorylation (S568) inhibits Whi3p function, decreasing its interaction with CLN3 mRNA; regulates ploidy
Localization
Cell Percentages cytoplasm (99%)
Cell Cycle Regulation No
Subcompartmental Group cytoplasm-5

Whi3

Whi3


Nearest neighbours ( genes)

correlation threshold

0.6

1.0

0.80


Biological Process (Gene Ontology)
Molecular Function (Gene Ontology)
Cellular Component (Gene Ontology)

Endocytosis
Temp Actin Patch (Sac6-tdTomato) Cortical Patch (Sla1-GFP) Late Endosome (Snf7-GFP) Vacuole (Vph1-GFP)
37℃
RT
Cell Cycle Omics

CYCLoPs (Whi3-GFP)
Gene / Allele Actin Patch (Sac6-tdTomato) Cortical Patch (Sla1-GFP) Late Endosome (Snf7-GFP) Vacuole (Sac6-tdTomato)
Gene Images
Gene Images
Images are not yet available
Images are not yet available