Standard name
Human Ortholog
Description Subunit of RNAPII-associated chromatin remodeling Paf1 complex; regulates gene expression by directing cotranscriptional histone modification, influences transcription and chromatin structure through several independent functional domains; directly or indirectly regulates DNA-binding properties of Spt15p and relative activities of different TATA elements; involved in transcription elongation as demonstrated by the G-less-based run-on (GLRO) assay
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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 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 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 0
Cytoplasm 0 0 0 0.06 0.06 0.05 0 0 0.05 0 0 0 0.09 0.1 0.12 0 0 0.05 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 0 0 0 0 0 0 0 0.06 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Nucleus 0.77 0.83 0.85 0.79 0.86 0.77 0.75 0.7 0.59 0.65 0.64 0.61 0.78 0.77 0.71 0.74 0.78 0.78 0.66 0.74 0.67 0.64 0.73 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 0
Nucleolus 0.59 0.49 0.29 0.3 0.19 0.31 0.38 0.4 0.58 0.57 0.6 0.59 0.39 0.35 0.31 0.38 0.35 0.31 0.31 0.22 0.29 0.24 0.19 0.22
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 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 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 1 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1
Bud Neck 0 0 0 0 0 0 1 3 1 1 2 4 0 0 0 0 1 0 0 0 0 0 0 0
Bud Site 0 0 0 0 0 1 1 1 1 1 5 6 0 1 0 1 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 8 2 0 9 12 15 18 22 11 7 7 5 18 33 40 5 6 12 0 0 0 0 3 7
Endoplasmic Reticulum 0 0 0 1 0 0 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0
Endosome 0 0 0 1 1 0 4 1 1 0 0 0 2 2 0 1 1 0 1 0 0 0 1 4
Golgi 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 1 0
Mitochondria 5 2 0 1 1 2 4 5 13 4 16 9 0 0 0 12 6 9 0 0 0 0 2 3
Nucleus 188 132 99 126 180 256 333 386 139 165 251 337 160 254 244 198 184 183 162 125 89 34 172 183
Nuclear Periphery 0 0 0 0 0 0 0 2 4 0 1 1 0 1 0 0 1 1 0 0 0 0 0 0
Nucleolus 145 78 34 48 40 103 170 220 137 144 233 322 80 117 106 102 84 72 76 36 38 13 44 61
Peroxisomes 0 0 0 0 1 0 0 1 0 0 1 1 0 2 3 2 1 1 0 0 0 0 0 0
SpindlePole 0 0 1 0 2 0 0 3 0 0 0 4 3 5 11 2 1 1 1 0 0 1 1 3
Vac/Vac Membrane 0 1 3 2 1 1 6 6 2 1 2 2 0 2 5 2 8 6 2 2 2 1 5 11
Unique Cell Count 244 159 117 160 210 331 444 549 236 252 391 548 206 332 344 267 237 235 246 170 134 55 237 280
Labelled Cell Count 346 215 137 188 238 378 538 651 309 323 518 691 263 417 410 325 293 285 246 170 134 55 237 280


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) 15.3 19.8 17.3 14.9 15.8 12.6 12.8 12.5 10.8 11.7 10.6 11.0 16.7 16.0 15.6 21.8 20.7 20.9 14.4 15.6 16.2
Std Deviation (1e-4) 6.1 6.0 4.6 5.5 5.6 3.8 3.5 3.2 3.6 3.3 3.0 3.5 6.4 5.5 5.5 9.2 8.6 9.1 2.9 4.7 4.8
Intensity Change (Log2) – – – -0.22 -0.13 -0.46 -0.43 -0.46 -0.68 -0.56 -0.71 -0.65 -0.05 -0.12 -0.15 0.33 0.26 0.27 -0.27 -0.15 -0.09


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 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
Cytoplasm 0 0 0 0 0 0 0 0 0 3.3 3.5 3.9 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 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
Mitochondria 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Nucleus -1.2 0.3 -1.7 -2.2 -3.2 -4.9 -3.8 -4.2 -4.8 -1.5 -1.8 -2.9 -2.3 -1.5 -1.5
Nuclear Periphery 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Nucleolus 0.2 -2.1 0.4 1.8 2.2 5.1 5.0 5.8 5.8 1.8 1.2 0.4 1.7 1.2 0.3
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 12.8722 11.6082 10.7417 11.1691 9.3578 11.1749 10.6863 12.0309 10.794 9.76 7.4911 10.184 8.5304 10.9557 9.6526 7.2128 6.8998 8.8917
Actin 0.0044 0 0.0172 0 0.0024 0 0.0059 0 0.0012 0.0651 0.0202 0.0016 0.0296 0 0.0075 0.0109 0.0726 0.0131
Bud 0.0001 0.0001 0.0001 0 0 0 0.0002 0 0.0001 0.0003 0.0009 0 0.0004 0 0.0001 0.0009 0.0024 0.0014
Bud Neck 0.0025 0.0001 0.0004 0.0002 0.0003 0.0002 0.0002 0 0 0.0001 0.0004 0.0003 0.001 0 0.0004 0.0002 0.0029 0.0008
Bud Periphery 0.0002 0 0.0002 0.0002 0.0001 0 0.0003 0 0.0001 0.0003 0.002 0.0001 0.0004 0 0.0001 0.0019 0.0015 0.0027
Bud Site 0.0026 0.0002 0.0009 0.0001 0.0001 0 0.0005 0 0.0002 0.0007 0.0022 0.0002 0.0036 0.0001 0.0003 0.0011 0.092 0.001
Cell Periphery 0.0002 0 0.0001 0.0002 0.0001 0 0.0002 0 0.0001 0 0.0005 0.0001 0.0002 0 0 0.0002 0.0004 0.0001
Cytoplasm 0.0008 0.0044 0.0006 0 0 0 0.0029 0 0.0003 0 0.0007 0 0.0077 0 0.0001 0.001 0.001 0.001
Cytoplasmic Foci 0.0017 0.0001 0.0008 0.0002 0.001 0 0.0098 0 0.0074 0.0018 0.0077 0.0032 0.0533 0 0.0053 0.0343 0.0175 0.0013
Eisosomes 0.0001 0 0.0002 0 0.0002 0 0 0 0.0001 0 0.0003 0 0.0001 0 0 0.0002 0.0002 0.0001
Endoplasmic Reticulum 0.0009 0 0.0013 0 0 0 0.0009 0 0.0001 0 0.0028 0 0.0029 0 0.0001 0.001 0.0006 0.0016
Endosome 0.0058 0 0.0038 0.0003 0.0009 0 0.0058 0 0.0109 0.0002 0.0251 0.0005 0.0216 0 0.005 0.0066 0.007 0.0124
Golgi 0.0006 0 0.0027 0.0001 0.0013 0 0.0019 0 0.0024 0.0011 0.0065 0.0013 0.0091 0 0.0073 0.0027 0.005 0.0047
Lipid Particles 0.0012 0 0.0035 0.0017 0.0186 0.0002 0.0124 0 0.0086 0.0002 0.0379 0.0043 0.0188 0 0.0021 0.0197 0.0452 0.0027
Mitochondria 0.0008 0.0001 0.0029 0.0003 0.0026 0.0001 0.0017 0.0001 0.0117 0.0004 0.0913 0.0016 0.0035 0.0002 0.002 0.0203 0.0228 0.0033
None 0.0007 0.0001 0.0019 0.0001 0.0004 0 0.0046 0 0.0003 0 0.0012 0 0.0057 0 0.0001 0.0019 0.0005 0.0003
Nuclear Periphery 0.0049 0.0004 0.0041 0.0012 0.0005 0.0002 0.0044 0 0.0002 0 0.004 0.0004 0.0117 0.007 0.0001 0.0171 0.0025 0.0071
Nucleolus 0.1414 0.0944 0.0797 0.1486 0.4911 0.2996 0.1411 0.0841 0.0575 0.0786 0.4582 0.2825 0.1435 0.0625 0.0557 0.0939 0.2674 0.2582
Nucleus 0.8252 0.8993 0.8769 0.844 0.4692 0.6991 0.7807 0.9155 0.8904 0.8443 0.3156 0.701 0.6483 0.9297 0.9032 0.7281 0.4377 0.6831
Peroxisomes 0.0004 0 0.001 0.0001 0.0097 0 0.0156 0 0.0071 0.0068 0.0035 0.0017 0.0169 0 0.0099 0.0498 0.0114 0.0006
Punctate Nuclear 0.0048 0.0005 0.0009 0.0013 0.0012 0.0003 0.0084 0.0001 0.0003 0.0001 0.001 0.0003 0.019 0.0001 0.0002 0.0037 0.0029 0.001
Vacuole 0.0004 0.0003 0.0003 0.0009 0.0001 0.0001 0.0017 0 0.0005 0 0.0082 0.0003 0.0014 0.0001 0.0002 0.0016 0.0041 0.0025
Vacuole Periphery 0.0004 0.0001 0.0004 0.0005 0.0002 0 0.0009 0 0.0005 0 0.0097 0.0005 0.0013 0.0001 0.0002 0.003 0.0024 0.0009

Sequencing Data

R1 R2
G1 Post-START S/G2 Metaphase Anaphase Telophase G1 Post-START S/G2 Metaphase Anaphase Telophase
Gene Expression 17.107 28.2326 31.4247 32.0979 30.2843 18.4128 26.7618 29.9034 38.3423 27.2149
Translational Efficiency 6.8022 3.9828 3.2351 3.2356 3.1735 5.0523 3.1947 2.8985 2.1971 3.1701

Hit Data

Dataset Hit
Protein Concentration ✔
Protein Localization ✘
Gene Expression ✔
Translational Efficiency ✘
Standard name
Human Ortholog
Description Subunit of RNAPII-associated chromatin remodeling Paf1 complex; regulates gene expression by directing cotranscriptional histone modification, influences transcription and chromatin structure through several independent functional domains; directly or indirectly regulates DNA-binding properties of Spt15p and relative activities of different TATA elements; involved in transcription elongation as demonstrated by the G-less-based run-on (GLRO) assay
Localization
Cell Percentages nucleus (89%)
Cell Cycle Regulation No
Subcompartmental Group nucleus-2

Rtf1

Rtf1


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 (Rtf1-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