Standard name
Human Ortholog
Description RNA-Dependent ATPase, member of DExD/H-box family; involved in cleavage of site A3 within the ITS1 spacer during rRNA processing; not essential for growth, but deletion causes severe slow-growth phenotype
DOWNLOAD

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 0 0 0 0 0 0 0 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 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 0 0 0 0
Bud Site 0 0 0 0 0 0 0 0 0.06 0 0 0.06 0 0 0 0 0 0 – – – – – –
Cell Periphery 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Cytoplasm 0 0 0 0 0 0 0 0 0 0 0 0 0.06 0.07 0.11 0.14 0.05 0.08 0 0 0 0 0 0
Endoplasmic Reticulum 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Endosome 0 0 0 0 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 0 0 0 0
Mitochondria 0.44 0.34 0.27 0.35 0.25 0.31 0.25 0.12 0.3 0.26 0.2 0.29 0.36 0.38 0.27 0.07 0.07 0.06 0 0 0 0 0 0
Nucleus 0.19 0.26 0.2 0.1 0.07 0.07 0.07 0.06 0.07 0.08 0 0.09 0.16 0.06 0.06 0.14 0.16 0.17 0.12 0.18 0.1 0.06 0.05 0.1
Nuclear Periphery 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Nucleolus 0.92 0.85 0.87 0.91 0.94 0.92 0.89 0.91 0.84 0.85 0.93 0.84 0.85 0.86 0.81 0.78 0.81 0.81 0.81 0.74 0.82 0.85 0.83 0.74
Peroxisomes 0 0 0 0 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 0.05 0.05 0.13 0.14 0.12 0.18 0.19 0.14 0 0 0 0 0 0 0 0 0 0 0.05 0
Vac/Vac Membrane 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.06
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 0 0 0 0 0 0 0 1 0 0 0 0 0 0 2 0 0
Bud 1 0 0 0 0 1 2 2 2 3 3 3 0 1 3 0 0 0 2 1 2 11 8 21
Bud Neck 0 0 2 0 0 0 1 2 2 1 1 1 0 0 1 0 0 0 0 0 0 1 3 6
Bud Site 0 0 1 0 0 4 7 5 20 16 2 10 2 3 8 0 0 0 – – – – – –
Cell Periphery 0 1 0 0 0 0 0 0 0 1 0 0 1 0 0 0 0 0 0 0 0 0 0 0
Cytoplasm 1 0 3 7 4 3 7 5 5 7 6 5 48 67 109 8 4 7 0 2 0 0 1 0
Endoplasmic Reticulum 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 1 1 0 0 0 0 0 0 1
Endosome 0 2 0 0 4 1 12 17 0 5 0 1 5 9 12 0 1 0 0 2 2 1 8 11
Golgi 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 4 6 4
Mitochondria 96 97 70 67 80 108 120 74 107 138 31 45 279 355 271 4 5 5 1 1 0 4 8 9
Nucleus 41 75 53 19 21 23 32 40 24 42 6 14 124 53 61 8 12 14 27 53 26 44 54 109
Nuclear Periphery 0 2 0 2 0 0 1 1 6 0 0 0 0 0 1 0 0 0 0 0 0 2 4 3
Nucleolus 198 246 226 173 302 318 435 561 302 445 143 129 651 803 810 46 61 68 179 216 208 607 910 797
Peroxisomes 0 0 2 1 2 3 6 8 8 5 1 1 0 7 8 0 0 0 0 0 0 1 1 0
SpindlePole 0 0 1 5 15 18 62 89 43 93 30 21 5 21 37 0 0 0 4 5 6 12 50 28
Vac/Vac Membrane 2 3 2 0 0 1 1 5 1 2 0 1 9 10 12 0 2 0 2 7 6 10 27 63
Unique Cell Count 216 289 259 190 321 347 488 619 361 521 154 154 770 930 1006 59 75 84 221 293 256 713 1093 1073
Labelled Cell Count 339 426 360 274 428 480 686 809 520 758 223 231 1124 1330 1334 67 86 94 221 293 256 713 1093 1073


Nucleolus, Nucleus

(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) 25.1 21.8 21.8 22.1 17.8 13.6 11.3 10.4 9.6 8.7 8.1 7.7 32.5 29.3 26.7 35.8 39.3 47.3 31.7 28.6 30.8
Std Deviation (1e-4) 9.8 7.6 7.6 7.8 5.2 3.6 3.4 2.9 3.6 2.8 2.8 3.6 12.9 12.6 12.5 20.5 20.0 24.2 10.3 9.1 10.0
Intensity Change (Log2) – – – 0.02 -0.29 -0.68 -0.95 -1.07 -1.18 -1.33 -1.44 -1.5 0.58 0.42 0.29 0.71 0.85 1.12 0.54 0.39 0.5


Localization RAP60 RAP140 RAP220 RAP300 RAP380 RAP460 RAP540 RAP620 RAP700 HU80 HU120 HU160 rpd3Δ_1 rpd3Δ_2 rpd3Δ_3
Cortical Patches 0 0 0 0 0 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
Bud Neck 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Bud Site 0 0 0 0 0 3.5 2.4 0 0 0 0 0 0 0 0
Cell Periphery 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Cytoplasm 0 0 0 0 0 0 0 0 0 3.3 3.7 4.9 0 0 0
Endoplasmic Reticulum 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Endosome 0 0 0 0 2.7 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
Mitochondria 1.9 -0.6 1.1 -0.7 -5.5 0.7 -0.2 -1.6 0.5 2.7 3.3 0 -3.3 -3.7 -4.1
Nucleus -3.0 -5.0 -5.1 -5.7 -6.1 -5.1 -5.0 -4.7 -3.0 -1.6 -7.4 -7.2 -1.2 -0.9 -0.8
Nuclear Periphery 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Nucleolus 1.3 2.9 1.8 0.8 1.5 -1.2 -0.7 1.8 -1.0 -1.1 -0.4 -2.5 -1.8 -1.3 -1.4
Peroxisomes 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
SpindlePole 0 3.1 3.4 5.8 6.2 5.5 7.1 7.1 5.8 0 0 2.8 0 0 0
Vacuole 0 0 0 0 0 0 0 0 0 0 0 0 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 23.3487 32.9417 27.2932 29.537 28.1305 30.0018 24.9814 27.52 24.6668 23.149 19.3666 24.0098 23.426 31.6467 27.7307 26.364 21.8856 26.7924
Actin 0.0056 0 0.0005 0.0001 0.0001 0 0.0077 0 0.011 0 0.0001 0 0.0192 0 0.0079 0 0.0001 0
Bud 0.0001 0 0.0001 0.0001 0 0 0.0002 0 0.0001 0 0 0 0.0004 0 0.0001 0 0 0
Bud Neck 0.0002 0 0.0005 0.0001 0.0001 0 0.0003 0.0001 0.0001 0 0.0002 0 0.0009 0 0 0.0002 0.0001 0
Bud Periphery 0.0001 0 0.0003 0.0001 0.0001 0 0.0003 0 0.0001 0 0.0001 0 0.0007 0 0.0001 0 0 0
Bud Site 0.0007 0.0001 0.0012 0.0002 0.0002 0 0.0011 0.0001 0.0003 0 0.0002 0 0.0071 0 0.0002 0 0.0002 0
Cell Periphery 0.0002 0.0002 0.0003 0.0002 0.0003 0.0001 0.0002 0.0001 0.0001 0.0001 0.0002 0 0.0003 0.0001 0.0001 0.0001 0.0003 0
Cytoplasm 0.0274 0.0005 0.0002 0 0 0 0.0009 0 0.0001 0 0 0 0.0022 0 0 0 0.0004 0
Cytoplasmic Foci 0.0146 0 0.0051 0.0013 0.0008 0.0045 0.0192 0.0033 0.0087 0.0001 0.0113 0 0.023 0 0.0013 0.0001 0.0092 0
Eisosomes 0.0001 0 0.0001 0.0002 0.0001 0 0.0002 0 0.0001 0 0.0001 0 0.0003 0 0 0 0.0001 0
Endoplasmic Reticulum 0.0025 0 0.0001 0 0 0 0.0013 0 0.0002 0 0 0 0.0008 0 0 0 0.0002 0
Endosome 0.009 0 0.0067 0 0 0 0.0305 0.0001 0.001 0 0.0005 0 0.0085 0 0.0004 0 0.0007 0
Golgi 0.0017 0 0.0034 0.0001 0.0001 0 0.0085 0.0002 0.0021 0 0.001 0 0.0033 0 0.0016 0 0.0003 0
Lipid Particles 0.0064 0 0.0108 0.0027 0.0051 0.0028 0.0784 0.0102 0.0092 0.0001 0.0571 0.0001 0.0165 0 0.0011 0.0001 0.0056 0.0001
Mitochondria 0.0038 0.0007 0.0228 0.012 0.0116 0.0016 0.0039 0.0016 0.0017 0.0002 0.01 0.0002 0.0284 0.0004 0.0037 0.0002 0.0224 0.0003
None 0.0112 0 0.0003 0.0003 0.0001 0.0001 0.0047 0 0.0002 0 0.0001 0 0.0083 0 0 0 0.0007 0
Nuclear Periphery 0.0314 0.0022 0.0006 0.0004 0.0001 0 0.0101 0 0.0003 0 0.0001 0 0.0195 0 0 0 0.001 0
Nucleolus 0.7507 0.8292 0.8643 0.9008 0.9177 0.921 0.7747 0.8789 0.8696 0.9322 0.8565 0.9133 0.7494 0.8314 0.9091 0.9379 0.8952 0.9289
Nucleus 0.0865 0.1534 0.0619 0.0789 0.0606 0.0687 0.0357 0.1028 0.0881 0.0671 0.0552 0.0861 0.0684 0.1677 0.0695 0.061 0.0435 0.0704
Peroxisomes 0.0025 0 0.0017 0.0005 0.0007 0.0002 0.0064 0.0017 0.0003 0 0.0045 0 0.0042 0 0.0011 0 0.0007 0
Punctate Nuclear 0.0426 0 0.014 0.0006 0.0016 0.0005 0.0092 0.0006 0.0062 0.0001 0.0019 0.0001 0.0313 0.0001 0.0028 0.0001 0.0182 0.0001
Vacuole 0.001 0.0034 0.0034 0.0003 0.0003 0.0001 0.0023 0.0002 0.0002 0.0001 0.0004 0 0.0032 0.0001 0.0002 0.0001 0.0005 0
Vacuole Periphery 0.0016 0.01 0.0018 0.0011 0.0004 0.0003 0.0043 0.0002 0.0003 0 0.0006 0 0.0041 0.0001 0.0007 0 0.0005 0

Sequencing Data

R1 R2
G1 Post-START S/G2 Metaphase Anaphase Telophase G1 Post-START S/G2 Metaphase Anaphase Telophase
Gene Expression 100.3733 99.7671 92.6557 65.7721 98.7414 55.4203 67.884 50.7414 45.9325 66.3498
Translational Efficiency 1.5722 1.7089 1.4303 1.7188 1.3786 1.7995 1.5433 1.5068 1.3558 1.5317

Hit Data

Dataset Hit
Protein Concentration ✔
Protein Localization ✔
Gene Expression ✔
Translational Efficiency ✘
Standard name
Human Ortholog
Description RNA-Dependent ATPase, member of DExD/H-box family; involved in cleavage of site A3 within the ITS1 spacer during rRNA processing; not essential for growth, but deletion causes severe slow-growth phenotype
Localization
Cell Percentages nucleolus (93%)
Cell Cycle Regulation No
Subcompartmental Group nucleolus-2

Dbp3

Dbp3


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 (Dbp3-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