Standard name
Human Ortholog
Description JmjC domain-containing histone demethylase; targets tri- and dimethylated H3K36; associates with actively transcribed regions and promotes elongation; repressor of autophagy-related genes in nutrient-replete conditions; damage-responsive repressor of PHR1; phosphorylated by the Rad53p-dependent DNA damage checkpoint pathway and by a Rim1p-mediated event during starvation; target of stress-induced hormesis; RPH1 has a paralog, GIS1, that arose from the whole genome duplication
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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 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
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
Bud Site 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 0 0 – 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Cytoplasm 0 0.05 0.05 0.08 0 0.05 0 0 0 – 0 0 0 0.06 0.12 0 0 0 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
Endosome 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
Mitochondria 0.21 0.27 0.08 0.14 0.08 0.18 0.29 0.2 0.42 – 0.42 0.33 0.06 0 0 0 0 0 0 0 0 0 0 0
Nucleus 0.93 0.78 0.88 0.89 0.88 0.86 0.84 0.84 0.84 – 0.82 0.8 0.96 0.91 0.84 0.93 0.91 0.9 0.82 0.78 0.8 0.84 0.7 0.65
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
Nucleolus 0.08 0.09 0 0 0 0 0.05 0.07 0.12 – 0.18 0.12 0 0 0.05 0.05 0 0.05 0.1 0.05 0 0 0.07 0.09
Peroxisomes 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
Vac/Vac Membrane 0 0 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0 0 0.06 0.09 0.08 0.16 0.16
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 1 0 1 0 0 0
Bud 0 0 0 0 2 1 10 5 1 – 7 5 0 0 0 0 0 1 1 3 1 0 1 7
Bud Neck 0 0 1 0 2 2 3 2 0 – 1 5 0 0 0 0 0 0 0 0 0 0 1 2
Bud Site 0 0 2 2 4 8 14 11 14 – 13 15 0 0 0 0 0 0 – – – – – –
Cell Periphery 0 0 0 0 0 0 0 0 0 – 1 0 0 0 1 0 1 0 0 0 0 0 0 0
Cytoplasm 2 8 15 13 13 20 25 16 15 – 9 11 3 15 29 7 9 8 0 2 1 0 1 1
Endoplasmic Reticulum 0 0 0 0 0 0 0 0 0 – 0 0 0 4 0 2 2 1 0 0 0 0 1 1
Endosome 0 0 4 0 6 5 1 2 0 – 0 0 0 1 3 1 4 1 0 5 1 0 2 4
Golgi 0 0 0 0 0 0 0 0 0 – 0 0 0 0 0 1 0 0 0 2 1 0 0 0
Mitochondria 23 46 22 23 26 76 170 126 166 – 149 117 9 7 4 1 3 5 1 1 5 0 2 5
Nucleus 100 132 256 141 272 357 497 522 333 – 292 284 144 219 209 297 241 219 101 148 248 85 174 214
Nuclear Periphery 1 2 0 0 1 6 6 15 5 – 6 1 0 0 3 1 2 4 0 1 1 0 0 2
Nucleolus 9 16 3 1 5 12 27 43 48 – 64 42 0 5 12 17 10 11 12 8 11 4 18 28
Peroxisomes 0 0 1 0 0 0 0 0 1 – 0 0 0 0 0 0 0 0 0 0 0 0 0 1
SpindlePole 1 1 11 4 9 14 13 16 5 – 4 12 1 0 0 0 5 1 0 2 4 0 2 3
Vac/Vac Membrane 0 4 3 1 3 3 2 5 2 – 2 0 0 0 7 9 4 8 3 10 27 7 40 51
Unique Cell Count 108 170 290 159 309 416 590 618 397 355 353 150 241 248 321 266 244 125 191 311 102 250 328
Labelled Cell Count 136 209 318 185 343 504 768 763 590 548 492 157 251 268 336 281 259 125 191 311 102 250 328


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) 5.0 5.1 5.6 5.3 5.4 4.7 4.8 5.2 4.5 – 4.2 4.4 5.5 5.8 5.9 11.2 10.9 10.9 5.0 5.3 5.7
Std Deviation (1e-4) 1.2 1.5 1.2 1.7 1.1 1.4 1.1 1.1 1.1 – 1.1 1.0 1.2 1.3 1.8 2.7 2.8 2.9 1.2 1.4 1.1
Intensity Change (Log2) – – – -0.08 -0.03 -0.25 -0.23 -0.11 -0.32 – -0.4 -0.35 -0.02 0.05 0.08 1.01 0.96 0.97 -0.16 -0.07 0.03


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
Bud 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
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 0 0 0 0 0 0 0
Cytoplasm 1.3 -0.6 -0.2 -0.6 -2.0 -0.9 – -1.8 -1.3 -1.6 0.5 2.8 -2.0 -1.0 -1.1
Endoplasmic Reticulum 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
Golgi 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0
Mitochondria 2.3 0.4 0 0 4.9 0 – 0 0 -0.6 -2.4 -3.2 -4.7 -3.7 -2.9
Nucleus 0.1 -0.1 -1.0 -1.6 -1.5 -1.6 – -2.1 -2.7 2.7 1.0 -1.4 1.8 0.9 0.5
Nuclear Periphery 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0
Nucleolus 0 0 0 0 3.8 0 – 0 0 0 0 2.7 3.0 2.1 2.5
Peroxisomes 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0
SpindlePole -0.7 -0.6 0 0 -1.0 0 – 0 0 0 0 -3.1 -3.5 -1.3 -2.6
Vacuole 0 0 0 0 0 0 – 0 0 0 0 0 1.6 0 1.8

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 1.8085 2.3752 1.5889 0.968 1.5939 1.7104 0.6565 0.4234 0.4005 0.3393 0.1801 0.3289 -0.0386 -0.2788 -0.4931 -0.4982 -0.6004 -0.4
Actin 0.0072 0.0276 0.0017 0.0007 0 0.0027 0.0166 0 0.0019 0 0.0177 0.0004 0.0373 0.0085 0.0221 0.0332 0.002 0.0027
Bud 0.0004 0.0006 0.0002 0.0002 0 0.0001 0.0006 0 0.0002 0 0.0003 0 0.0002 0.0006 0.0002 0.0001 0.0001 0.0001
Bud Neck 0.0028 0.0008 0.0016 0.0004 0.001 0.0019 0.0021 0.0001 0.0022 0.0001 0.0009 0.0006 0.0005 0.0002 0.0003 0.0002 0.0003 0.0008
Bud Periphery 0.0013 0.0019 0.0005 0.0008 0 0.0004 0.0014 0 0.0007 0 0.0014 0.0001 0.0004 0.0009 0.0002 0.0001 0.0001 0.0005
Bud Site 0.0011 0.0126 0.0119 0.0016 0.0001 0.0003 0.0022 0 0.0005 0 0.0011 0 0.0009 0.001 0.0023 0.0003 0.0002 0.0003
Cell Periphery 0.0005 0.0007 0.0011 0.0002 0 0.0001 0.0003 0 0.0001 0 0.0007 0 0.0001 0.0001 0 0 0 0.0001
Cytoplasm 0.0124 0.0062 0.0042 0.0001 0.0002 0.0005 0.005 0.0001 0.0008 0.0001 0.0018 0.0002 0.0038 0.0004 0.0008 0.0014 0.0022 0.0016
Cytoplasmic Foci 0.0074 0.0014 0.0053 0.0031 0 0.0002 0.0018 0 0.0012 0 0.0066 0.0001 0.0072 0.0001 0.0041 0.0039 0.0012 0.001
Eisosomes 0.0005 0.0004 0.0003 0.0001 0 0 0.0002 0 0 0 0.001 0 0.0012 0.0001 0.0002 0.0001 0 0
Endoplasmic Reticulum 0.0048 0.0043 0.001 0 0 0.0007 0.0016 0 0.0006 0 0.0006 0.0003 0.0013 0.0001 0.0002 0.0001 0.0027 0.0001
Endosome 0.0095 0.0056 0.0042 0.0022 0 0.0018 0.005 0 0.0057 0 0.0033 0.0008 0.0154 0.0002 0.002 0.0015 0.0233 0.0021
Golgi 0.0045 0.0007 0.001 0.0022 0 0.0005 0.0019 0 0.002 0 0.0053 0.0005 0.0049 0.0001 0.0009 0.0067 0.0024 0.0019
Lipid Particles 0.0074 0.0016 0.003 0.0179 0 0.0004 0.0069 0 0.0034 0 0.0163 0.0018 0.0174 0 0.0012 0.007 0.0019 0.0041
Mitochondria 0.0064 0.0083 0.0033 0.0179 0.0001 0.004 0.0044 0 0.0036 0.0001 0.0231 0.0022 0.0073 0.0066 0.0067 0.0006 0.0024 0.0035
None 0.0454 0.0078 0.0058 0.0002 0.0001 0.0011 0.0016 0 0.0007 0.0001 0.0146 0.0002 0.0063 0.0003 0.0113 0.0003 0.0009 0.007
Nuclear Periphery 0.0111 0.0187 0.005 0.0002 0.0011 0.0037 0.0134 0.001 0.0064 0.0008 0.0083 0.0035 0.0125 0.0022 0.0077 0.0017 0.0154 0.0038
Nucleolus 0.0247 0.0222 0.0119 0.007 0.0552 0.037 0.0177 0.0093 0.0111 0.0139 0.0419 0.0314 0.0093 0.0212 0.0081 0.0052 0.0108 0.0194
Nucleus 0.8086 0.8247 0.9154 0.921 0.9262 0.9328 0.8978 0.9857 0.9531 0.9794 0.8159 0.9513 0.8558 0.9559 0.92 0.9267 0.918 0.938
Peroxisomes 0.0088 0.0052 0.0019 0.021 0 0.0003 0.0029 0 0.0008 0 0.0247 0.0005 0.0064 0.0003 0.0038 0.0087 0.0002 0.0028
Punctate Nuclear 0.03 0.006 0.0186 0.0019 0.0158 0.0107 0.0136 0.0038 0.0034 0.0054 0.01 0.0058 0.0099 0.0009 0.0077 0.0023 0.0136 0.0091
Vacuole 0.004 0.0354 0.002 0.0009 0 0.0005 0.002 0 0.0011 0 0.0032 0.0002 0.0008 0.0001 0.0002 0 0.0011 0.0009
Vacuole Periphery 0.001 0.0074 0.0003 0.0003 0 0.0004 0.0009 0 0.0005 0 0.0014 0.0002 0.0009 0.0002 0.0002 0 0.0014 0.0004

Sequencing Data

R1 R2
G1 Post-START S/G2 Metaphase Anaphase Telophase G1 Post-START S/G2 Metaphase Anaphase Telophase
Gene Expression 13.1522 8.2507 13.1632 12.438 7.18 8.3021 13.0349 9.7126 9.8459 11.9484
Translational Efficiency 0.7453 1.0657 0.774 0.6527 1.015 0.9549 0.5225 0.7941 0.7556 0.624

Hit Data

Dataset Hit
Protein Concentration ✘
Protein Localization ✘
Gene Expression ✘
Translational Efficiency ✘
Standard name
Human Ortholog
Description JmjC domain-containing histone demethylase; targets tri- and dimethylated H3K36; associates with actively transcribed regions and promotes elongation; repressor of autophagy-related genes in nutrient-replete conditions; damage-responsive repressor of PHR1; phosphorylated by the Rad53p-dependent DNA damage checkpoint pathway and by a Rim1p-mediated event during starvation; target of stress-induced hormesis; RPH1 has a paralog, GIS1, that arose from the whole genome duplication
Localization
Cell Percentages nucleus (98%)
Cell Cycle Regulation No
Subcompartmental Group nucleus-4

Rph1

Rph1


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 (Rph1-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