Standard name
Human Ortholog
Description ATP-dependent 3'-5' RNA helicase of the DExD/H family; involved in nuclear RNA processing and degradation both as a component of TRAMP complex and in TRAMP-independent processes; TRAMP unwinds RNA duplexes, with Mtr4p unwinding activity stimulated by Pap2p/Air2p but not dependent on ongoing polyadenylation; contains an arch domain, with two coiled-coil arms/stalks and a globular fist/KOW domain, which has RNA binding activity and is required for 5.8S rRNA processing
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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 0.05 0.06 0.1
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 0.05 0.06 0.05
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 0.05 0.07 0 0 0 0 0 0 0
Cytoplasm 0.96 0.96 0.97 1.0 0.98 0.98 0.91 0.88 0.86 – 0.78 0.79 0.99 0.99 0.98 0.96 0.97 0.96 0.88 0.9 0.77 0.75 0.74 0.65
Endoplasmic Reticulum 0 0 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0.05 0 0 0 0 0 0.05
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 0 0 0.07 0 0.11 0.17 0.19 0.28 – 0.45 0.45 0 0 0 0 0 0 0 0 0.05 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
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 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
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 0.11 0.06 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 0 0 0 0 0 0 0 – 0 1 1 0 0 2 0 3 3 1 1 8 18 39
Bud 0 5 3 3 1 1 1 9 2 – 11 8 0 3 15 1 1 1 0 1 0 2 8 13
Bud Neck 0 0 0 0 1 0 0 1 0 – 0 0 0 0 0 0 0 0 2 5 1 9 18 17
Bud Site 0 0 0 0 0 0 0 0 1 – 0 1 0 0 0 0 0 0 – – – – – –
Cell Periphery 6 3 2 1 2 6 4 8 9 – 2 5 7 3 5 23 18 18 0 0 0 0 1 3
Cytoplasm 189 251 108 149 213 214 284 377 215 – 204 249 269 399 468 451 261 392 182 240 101 136 234 249
Endoplasmic Reticulum 4 6 2 0 3 0 3 3 3 – 1 3 2 3 4 18 11 22 6 1 1 6 6 20
Endosome 3 0 0 0 1 0 0 0 0 – 0 0 0 1 1 1 1 2 2 1 0 3 4 6
Golgi 0 0 0 0 0 0 0 0 0 – 0 0 0 0 0 1 0 1 1 1 0 0 1 1
Mitochondria 2 3 1 11 3 25 54 82 70 – 118 142 1 0 6 2 4 5 2 3 7 2 9 14
Nucleus 1 1 0 0 1 1 0 1 0 – 0 1 0 0 1 4 2 1 0 0 0 0 0 0
Nuclear Periphery 1 0 0 0 1 0 1 0 0 – 2 1 0 0 0 0 0 1 0 0 0 0 0 0
Nucleolus 0 0 0 0 0 0 0 0 0 – 0 0 0 0 0 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 0 0 0
SpindlePole 0 0 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0 1 0 0 0 0 1
Vac/Vac Membrane 2 0 0 0 0 0 0 2 1 – 1 5 0 0 0 10 4 9 1 5 14 10 9 9
Unique Cell Count 197 262 111 149 218 219 311 428 251 263 314 272 402 477 470 270 410 206 266 132 182 318 384
Labelled Cell Count 209 269 116 164 226 247 347 483 301 339 416 280 409 500 513 303 455 206 266 132 182 318 384


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) 7.1 6.0 4.5 4.5 4.9 4.6 4.4 4.4 4.0 – 4.0 3.7 6.4 6.3 5.5 7.3 8.2 8.2 6.6 6.0 6.8
Std Deviation (1e-4) 0.8 0.8 0.6 0.8 0.9 1.0 0.8 0.8 0.7 – 1.0 0.8 0.8 1.0 1.1 1.1 1.7 1.4 1.6 1.2 1.2
Intensity Change (Log2) – – – -0.0 0.13 0.03 -0.05 -0.04 -0.16 – -0.16 -0.3 0.5 0.49 0.28 0.7 0.85 0.85 0.54 0.42 0.59


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 1.9 0
Cytoplasm 2.0 0.2 0.2 -2.1 -2.9 -3.3 – -4.7 -4.4 1.1 1.7 0.5 -0.7 -0.3 -0.8
Endoplasmic Reticulum 0 0 0 0 0 0 – 0 0 0 0 0 0 0 1.6
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 0 0 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
Nuclear Periphery 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
Peroxisomes 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
Vacuole 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 3.1632 3.4892 3.1853 3.1195 3.1037 3.2806 3.4695 3.903 3.9066 3.6934 3.1984 3.714 3.3969 3.5578 3.3825 3.3434 3.0576 3.4658
Actin 0.0423 0.0019 0.0071 0.0423 0.0032 0.0038 0.03 0.0029 0.0168 0.0024 0.0051 0.0125 0.0509 0.0049 0.0097 0.0634 0.0018 0.0168
Bud 0.0008 0.0022 0.0019 0.0012 0.0002 0.0009 0.0013 0.0063 0.0026 0.0061 0.0107 0.0014 0.001 0.0045 0.0052 0.0009 0.0003 0.0013
Bud Neck 0.0036 0.0006 0.0013 0.0015 0.0008 0.0139 0.0019 0.0005 0.0047 0.0005 0.0029 0.0031 0.0021 0.0006 0.0045 0.009 0.0008 0.0079
Bud Periphery 0.0015 0.0014 0.004 0.0014 0.0007 0.0007 0.001 0.0041 0.0032 0.0137 0.0076 0.0024 0.001 0.0061 0.005 0.0013 0.0001 0.0033
Bud Site 0.0064 0.0257 0.0026 0.0037 0.0002 0.0003 0.019 0.0144 0.0178 0.0042 0.0181 0.0006 0.0115 0.0206 0.0128 0.0049 0.0038 0.0005
Cell Periphery 0.0038 0.0013 0.0009 0.0022 0.0021 0.0005 0.0014 0.001 0.0005 0.0005 0.0002 0.0002 0.0008 0.001 0.0012 0.0023 0.0001 0.0006
Cytoplasm 0.621 0.8194 0.7807 0.7441 0.8018 0.865 0.6162 0.8402 0.784 0.8035 0.8361 0.8431 0.6169 0.8154 0.7626 0.717 0.9074 0.8184
Cytoplasmic Foci 0.0279 0.0086 0.0261 0.0196 0.0179 0.0206 0.0565 0.0068 0.0119 0.0187 0.0109 0.013 0.0484 0.0184 0.0225 0.0307 0.0315 0.0114
Eisosomes 0.0006 0.0001 0.0001 0.0003 0.0002 0.0001 0.0003 0.0001 0.0001 0 0.0001 0.0001 0.0009 0.0001 0.0001 0.0008 0 0.0001
Endoplasmic Reticulum 0.0168 0.0055 0.0055 0.0062 0.0056 0.0091 0.026 0.0035 0.004 0.0031 0.0026 0.0078 0.0082 0.0054 0.0041 0.0104 0.002 0.0028
Endosome 0.0374 0.0056 0.0126 0.0199 0.0101 0.0069 0.0568 0.0042 0.0163 0.0422 0.014 0.0277 0.0325 0.0052 0.0079 0.0196 0.0089 0.0102
Golgi 0.0068 0.0008 0.0032 0.0041 0.0009 0.0013 0.0133 0.0008 0.0074 0.0073 0.0042 0.0077 0.0215 0.0016 0.0027 0.009 0.0019 0.008
Lipid Particles 0.011 0.0004 0.0084 0.0062 0.0013 0.0004 0.0145 0.0005 0.0011 0.0121 0.0044 0.003 0.0121 0.0009 0.0014 0.0196 0.0022 0.0006
Mitochondria 0.0045 0.0003 0.001 0.0232 0.0008 0.0071 0.0082 0.0046 0.0029 0.0051 0.0055 0.0094 0.0045 0.0003 0.0013 0.0029 0.0004 0.0057
None 0.1523 0.1163 0.1168 0.1114 0.1446 0.0646 0.0909 0.1034 0.1114 0.0631 0.0701 0.0488 0.1676 0.1099 0.1383 0.0871 0.0249 0.1082
Nuclear Periphery 0.0111 0.0008 0.0021 0.0013 0.0012 0.0004 0.0157 0.0005 0.0029 0.0013 0.0015 0.0044 0.0032 0.0006 0.0012 0.0021 0.0005 0.0004
Nucleolus 0.0028 0.0004 0.0007 0.0004 0.0001 0.0001 0.0024 0.0003 0.0004 0.0003 0.0003 0.0001 0.0003 0.0001 0.001 0.0003 0.0003 0
Nucleus 0.015 0.0019 0.0028 0.0015 0.0012 0.0009 0.0124 0.0011 0.0041 0.0019 0.0012 0.001 0.001 0.0008 0.0016 0.0011 0.0008 0.0006
Peroxisomes 0.0169 0.0001 0.008 0.0036 0.0034 0.0006 0.0142 0.0003 0.0015 0.0032 0.0012 0.0094 0.0098 0.0007 0.0088 0.0102 0.0028 0.0018
Punctate Nuclear 0.0082 0.0011 0.0094 0.0014 0.0003 0.0006 0.0096 0.0004 0.0009 0.0008 0.0007 0.0008 0.0034 0.0015 0.0006 0.0035 0.0087 0.0002
Vacuole 0.0076 0.0053 0.0044 0.0035 0.0034 0.002 0.007 0.0039 0.0046 0.0085 0.002 0.0024 0.0019 0.0012 0.007 0.0031 0.0006 0.0011
Vacuole Periphery 0.0015 0.0003 0.0005 0.0009 0.0004 0.0003 0.0014 0.0003 0.0009 0.0014 0.0007 0.0012 0.0007 0.0001 0.0005 0.0007 0.0001 0.0003

Sequencing Data

R1 R2
G1 Post-START S/G2 Metaphase Anaphase Telophase G1 Post-START S/G2 Metaphase Anaphase Telophase
Gene Expression 85.1012 92.1475 71.7849 58.3495 77.2584 59.2127 57.8058 50.871 45.911 66.5278
Translational Efficiency 1.5773 1.5741 1.4438 1.4676 1.3612 1.3909 1.5466 1.1091 1.0499 1.1606

Hit Data

Dataset Hit
Protein Concentration ✘
Protein Localization ✘
Gene Expression ✔
Translational Efficiency ✘
Standard name
Human Ortholog
Description ATP-dependent 3'-5' RNA helicase of the DExD/H family; involved in nuclear RNA processing and degradation both as a component of TRAMP complex and in TRAMP-independent processes; TRAMP unwinds RNA duplexes, with Mtr4p unwinding activity stimulated by Pap2p/Air2p but not dependent on ongoing polyadenylation; contains an arch domain, with two coiled-coil arms/stalks and a globular fist/KOW domain, which has RNA binding activity and is required for 5.8S rRNA processing
Localization
Cell Percentages cytoplasm (68%)
Cell Cycle Regulation No
Subcompartmental Group cytoplasm-10

Mtr4

Mtr4


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 (Mtr4-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