Standard name
Human Ortholog
Description Evolutionarily-conserved 5'-3' exonuclease; component of cytoplasmic processing (P) bodies involved in mRNA decay; enters the nucleus and positively regulates transcription initiation and elongation; involved in microtubule-mediated processes, filamentous growth, ribosomal RNA maturation, and telomere maintenance; negative regulator of autophagy; activated by the scavenger decapping enzyme Dcs1p; expression regulated by Ash1p in rich conditions
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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 0 0 0.06 0.08 0.06 0.18 0.15 0.22 0 0 0 0 0 0 0 0 0
Bud 0 0 0 0 0 0 0 0 0 0 0 0 0.05 0.08 0.12 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 0 0 0 0 0 0 0 0 0 – – – – – –
Cell Periphery 0 0 0 0 0 0 0.05 0.05 0.07 0.11 0.07 0.09 0 0 0 0 0.07 0.06 0 0 0 0 0 0
Cytoplasm 0.98 0.97 0.98 0.99 0.95 0.88 0.77 0.7 0.65 0.59 0.58 0.59 0.57 0.56 0.54 0.94 0.97 0.96 0.93 0.94 0.9 0.91 0.87 0.74
Endoplasmic Reticulum 0 0 0 0 0 0.09 0.15 0.17 0.18 0.16 0.15 0.15 0.07 0.06 0.06 0.06 0 0 0.05 0 0.07 0.05 0.09 0.18
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 0.36 0.31 0.25 0 0 0 0 0 0 0 0 0
Mitochondria 0 0 0 0 0 0 0.08 0.12 0.12 0.22 0.29 0.24 0 0 0 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 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 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 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 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 0 0 0 0
Vac/Vac Membrane 0 0 0 0 0 0 0 0 0.05 0 0 0 0 0 0 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 1 0 1 0 0 7 6 16 6 16 16 17 59 56 90 0 0 0 0 0 0 0 1 2
Bud 0 0 2 0 0 1 2 4 4 3 1 5 16 30 47 0 0 0 0 2 0 0 0 3
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 0 0 0 0 0 0 0 0 0 – – – – – –
Cell Periphery 4 6 3 3 8 8 19 20 11 27 14 24 1 4 8 6 11 8 0 0 0 0 0 0
Cytoplasm 204 300 145 148 240 221 268 254 106 152 109 157 182 214 219 168 144 138 190 300 140 176 307 325
Endoplasmic Reticulum 4 12 2 2 9 23 54 62 29 40 29 41 23 21 23 10 5 2 9 5 10 9 32 79
Endosome 0 0 0 0 0 0 0 0 0 0 0 0 2 10 6 0 0 0 0 0 0 0 0 3
Golgi 0 0 0 0 0 0 0 6 0 2 1 1 114 117 101 1 0 4 0 0 0 0 1 7
Mitochondria 1 0 0 3 2 10 29 42 20 56 54 63 0 4 10 2 0 2 0 0 0 0 0 2
Nucleus 0 0 0 0 0 0 1 2 0 0 0 1 1 0 1 1 0 0 0 0 0 0 0 0
Nuclear Periphery 0 0 0 0 0 0 0 0 1 2 0 0 0 0 0 0 0 0 0 1 0 0 0 0
Nucleolus 0 0 1 0 0 1 0 0 0 0 0 1 2 5 10 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 0 0 0 0
SpindlePole 0 0 0 0 0 0 0 0 0 0 0 0 0 2 6 0 0 0 0 0 0 0 0 1
Vac/Vac Membrane 0 1 0 0 2 1 5 7 9 4 5 8 0 1 4 3 2 1 1 4 1 2 3 5
Unique Cell Count 208 310 148 150 252 250 350 365 164 256 189 266 321 379 402 179 148 144 205 319 156 194 354 440
Labelled Cell Count 214 319 154 156 261 272 384 413 186 302 229 318 400 464 525 191 162 155 205 319 156 194 354 440


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) 32.9 23.5 16.7 17.4 18.9 18.1 16.7 15.8 14.8 14.2 12.9 12.9 27.8 27.1 23.9 25.9 30.4 32.3 25.5 26.2 27.7
Std Deviation (1e-4) 6.1 4.7 3.0 3.7 3.7 4.5 3.5 3.5 4.1 3.5 3.6 3.5 4.8 5.3 5.3 7.5 8.2 7.7 4.8 5.7 5.4
Intensity Change (Log2) – – – 0.06 0.18 0.11 -0.0 -0.08 -0.17 -0.24 -0.37 -0.37 0.74 0.7 0.52 0.64 0.86 0.95 0.61 0.65 0.73


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 2.7 3.2 2.7 5.3 4.7 6.1 0 0 0
Bud 0 0 0 0 0 0 0 0 0 1.9 2.8 3.8 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 0 0 0 0 0 0 0 0 0 0
Cell Periphery 0 0 0 1.7 1.7 2.0 3.1 2.2 2.8 0 0 0 0 2.2 1.6
Cytoplasm 0.5 -1.4 -3.4 -5.8 -7.0 -7.4 -8.5 -8.5 -8.6 -9.0 -9.2 -9.6 -1.8 -0.4 -1.1
Endoplasmic Reticulum 0 0 3.1 4.5 4.9 4.8 4.5 4.4 4.5 2.6 2.1 2.2 2.0 0 0
Endosome 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 8.3 7.7 6.7 0 0 0
Mitochondria 0 0 0 3.6 4.3 4.4 6.1 7.1 6.4 0 0 0 0 0 0
Nucleus 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
Nucleolus 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
SpindlePole 0 0 0 0 0 0 0 0 0 0 0 0 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 24.7495 31.0582 28.9016 25.3548 30.6895 32.0015 27.2714 37.651 35.1508 34.3675 32.7221 35.1496 27.2455 33.9656 31.2648 28.4328 29.9878 31.1842
Actin 0.0145 0.0016 0.0153 0.01 0.001 0.0061 0.0047 0.0006 0.0079 0.0102 0.0051 0.0026 0.0059 0.0016 0.0185 0.0061 0.002 0.0039
Bud 0.0012 0.0009 0.0013 0.0016 0.0007 0.001 0.001 0.0006 0.0024 0.0012 0.0004 0.0004 0.0008 0.0004 0.0011 0.0045 0.0002 0.0004
Bud Neck 0.001 0.0015 0.0017 0.0009 0.0018 0.0029 0.0006 0.0004 0.0016 0.002 0.0006 0.0018 0.0007 0.0003 0.0008 0.001 0.0007 0.003
Bud Periphery 0.0016 0.0005 0.0011 0.0007 0.0002 0.0008 0.0008 0.0001 0.0047 0.0009 0.0005 0.0002 0.0008 0.0001 0.0005 0.0027 0 0.0002
Bud Site 0.0028 0.02 0.0043 0.0004 0.0001 0.0002 0.001 0.0008 0.0017 0.0012 0.0003 0.0001 0.0014 0.0004 0.0006 0.0008 0.0001 0.0001
Cell Periphery 0.0028 0.003 0.003 0.0007 0.0004 0.0003 0.0005 0.0003 0.0007 0.0013 0.0001 0.0002 0.0011 0.0006 0.0005 0.0008 0.0001 0.0002
Cytoplasm 0.531 0.8367 0.7413 0.6883 0.848 0.7506 0.7992 0.9607 0.8963 0.8438 0.8344 0.8579 0.7548 0.8947 0.8367 0.8398 0.9543 0.7733
Cytoplasmic Foci 0.007 0.0087 0.0078 0.0171 0.0042 0.0107 0.0156 0.0059 0.0118 0.0084 0.0143 0.0123 0.0102 0.0108 0.013 0.0077 0.0079 0.0158
Eisosomes 0.0004 0 0.0001 0.0001 0 0 0 0 0.0002 0.0001 0.0001 0 0.0008 0 0.0001 0.0003 0 0
Endoplasmic Reticulum 0.1624 0.0683 0.078 0.0055 0.0582 0.085 0.0517 0.0111 0.0199 0.0092 0.0112 0.0524 0.1255 0.0488 0.0378 0.0076 0.0115 0.1133
Endosome 0.0223 0.0087 0.0269 0.017 0.0162 0.0621 0.0482 0.0103 0.0235 0.0396 0.0681 0.0477 0.0324 0.0232 0.0248 0.0348 0.0157 0.0462
Golgi 0.0049 0.0095 0.0071 0.0037 0.0006 0.0055 0.0052 0.0011 0.004 0.0144 0.0056 0.0082 0.0063 0.0104 0.0106 0.0068 0.0012 0.0239
Lipid Particles 0.0102 0.0056 0.0037 0.0248 0.0004 0.0004 0.0016 0.0002 0.0017 0.0019 0.0015 0.0002 0.0051 0.0004 0.0037 0.0076 0.0001 0.001
Mitochondria 0.0291 0.0018 0.0024 0.0577 0.0008 0.0063 0.0042 0.0003 0.001 0.0067 0.0067 0.0038 0.0128 0.0024 0.0126 0.0277 0.0005 0.0057
None 0.0015 0.0002 0.0017 0.0008 0.0022 0.0007 0.0042 0.0002 0.0007 0.0003 0.0006 0.0003 0.0042 0.0002 0.0029 0.0012 0.0003 0.0004
Nuclear Periphery 0.055 0.0068 0.017 0.0103 0.0274 0.0363 0.0249 0.0013 0.0067 0.0045 0.014 0.003 0.0093 0.0013 0.0036 0.0036 0.0013 0.0034
Nucleolus 0.0019 0.0001 0.0007 0.0002 0 0.0004 0.0003 0.0001 0.0001 0.0001 0.0001 0 0.0012 0 0.0001 0.0003 0 0
Nucleus 0.0149 0.0026 0.0051 0.0039 0.0042 0.0079 0.015 0.0009 0.0018 0.0021 0.0018 0.0012 0.0035 0.0005 0.0012 0.0017 0.0008 0.0011
Peroxisomes 0.0013 0.0008 0.0018 0.0141 0.0001 0.0002 0.0004 0.0001 0.0002 0.0005 0.0002 0.0001 0.001 0.0001 0.0033 0.0005 0.0001 0.0001
Punctate Nuclear 0.0133 0.0001 0.0015 0.0038 0.0001 0.0003 0.002 0.0001 0.0006 0.0002 0.0003 0.0001 0.0004 0.0001 0.0077 0.0002 0.0001 0.0001
Vacuole 0.0859 0.0208 0.0649 0.1143 0.0246 0.0115 0.0149 0.0043 0.0104 0.0455 0.024 0.0051 0.0172 0.0028 0.0143 0.0322 0.0021 0.0051
Vacuole Periphery 0.0348 0.002 0.0134 0.0242 0.0087 0.0107 0.004 0.0007 0.0021 0.006 0.0102 0.0025 0.0045 0.0009 0.0054 0.0121 0.0011 0.0026

Sequencing Data

R1 R2
G1 Post-START S/G2 Metaphase Anaphase Telophase G1 Post-START S/G2 Metaphase Anaphase Telophase
Gene Expression 165.2581 146.6555 152.0673 180.876 152.1994 143.5291 174.4284 182.1858 174.7641 190.0552
Translational Efficiency 0.951 1.032 0.9902 0.8515 0.8743 1.0986 0.9466 0.7973 0.8636 0.838

Hit Data

Dataset Hit
Protein Concentration ✘
Protein Localization ✘
Gene Expression ✘
Translational Efficiency ✘
Standard name
Human Ortholog
Description Evolutionarily-conserved 5'-3' exonuclease; component of cytoplasmic processing (P) bodies involved in mRNA decay; enters the nucleus and positively regulates transcription initiation and elongation; involved in microtubule-mediated processes, filamentous growth, ribosomal RNA maturation, and telomere maintenance; negative regulator of autophagy; activated by the scavenger decapping enzyme Dcs1p; expression regulated by Ash1p in rich conditions
Localization
Cell Percentages cytoplasm (90%)
Cell Cycle Regulation No
Subcompartmental Group cytoplasm-5

Xrn1

Xrn1


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 (Xrn1-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