Standard name
Human Ortholog
Description Ski complex component and putative RNA helicase; mediates 3'-5' RNA degradation by the cytoplasmic exosome; null mutants have superkiller phenotype of increased viral dsRNAs and are synthetic lethal with mutations in 5'-3' mRNA decay; mutations in the human ortholog, SKIV2L, causes Syndromic diarrhea/Trichohepatoenteric (SD/THE) syndrome
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
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 0.05 0 0 0 0 0 0 0 0 – 0 0.05 0 0.05 0 0 0 0.05 0 0 0 0 0 0
Cytoplasm 0.91 0.96 0.93 0.94 0.85 0.82 0.72 0.7 0.61 – 0.57 0.54 0.93 0.96 0.97 0.84 0.86 0.84 0.91 0.93 0.87 0.87 0.87 0.77
Endoplasmic Reticulum 0 0 0 0 0 0 0 0 0 – 0.06 0.05 0 0 0 0.05 0.05 0 0 0 0 0.07 0.06 0.14
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 0.12 0.15 0.26 0.33 0.33 0.48 – 0.56 0.56 0 0 0.1 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
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 0.1 0.13 0.14 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 2 2 0 3 7 3 4 2 – 4 5 3 2 1 3 1 3 0 0 2 0 0 1
Bud 0 2 6 1 2 5 5 5 6 – 7 8 1 0 3 0 0 0 0 0 0 0 0 1
Bud Neck 0 0 0 0 0 0 0 0 0 – 0 0 0 0 0 0 0 0 0 1 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 26 6 10 3 14 8 16 6 14 – 16 28 1 12 6 5 7 11 0 0 0 0 0 0
Cytoplasm 458 370 331 279 286 369 346 375 251 – 243 296 188 245 273 274 168 200 519 369 331 151 180 172
Endoplasmic Reticulum 18 14 12 9 13 14 19 20 15 – 24 27 5 3 2 16 9 9 12 7 15 12 12 31
Endosome 1 0 0 0 0 0 2 1 0 – 0 0 3 1 0 5 1 1 2 0 1 0 1 2
Golgi 3 1 1 0 0 0 0 0 0 – 0 0 0 0 1 3 3 2 0 0 2 0 1 1
Mitochondria 5 0 9 35 49 117 161 176 199 – 239 307 3 4 27 6 1 3 8 1 9 2 1 1
Nucleus 2 1 1 0 0 0 2 2 1 – 0 3 0 2 0 5 3 3 2 4 1 0 0 0
Nuclear Periphery 0 2 0 0 0 0 1 0 0 – 0 1 0 0 1 1 0 0 3 0 0 0 0 1
Nucleolus 1 0 0 0 0 0 0 0 0 – 0 0 0 0 1 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 1 1 0 0 0 0 0 0
Vac/Vac Membrane 17 4 6 0 8 5 8 13 14 – 9 16 6 2 0 32 25 34 17 10 10 3 5 5
Unique Cell Count 504 385 355 297 336 451 481 532 412 430 546 202 254 281 326 195 237 569 399 382 174 208 224
Labelled Cell Count 532 402 378 327 375 525 563 602 502 542 691 210 271 315 350 220 267 569 399 382 174 208 224


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) 14.6 11.6 8.4 7.7 8.0 7.2 6.9 6.4 6.1 – 5.8 5.6 9.9 9.7 8.9 11.5 12.9 12.1 10.9 11.9 12.3
Std Deviation (1e-4) 4.5 1.9 1.3 1.1 1.4 1.1 1.3 1.1 1.3 – 1.2 1.1 1.5 1.5 1.4 2.8 3.0 3.2 1.8 2.1 2.2
Intensity Change (Log2) – – – -0.13 -0.07 -0.21 -0.28 -0.39 -0.46 – -0.52 -0.59 0.24 0.2 0.08 0.46 0.63 0.53 0.38 0.51 0.55


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 -0.3 – -0.1 -0.3 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 -1.6 1.0 -1.0 0.4 -1.9 0.5 – 0.7 1.7 0 1.2 -0.5 -1.1 0.5 1.2
Cytoplasm 0.4 -3.5 -4.8 -7.8 -8.2 -10.4 – -11.6 -12.4 -0.1 1.7 2.2 -3.8 -2.7 -3.5
Endoplasmic Reticulum -0.3 0.3 -0.2 0.4 0.3 0.2 – 1.5 1.1 -0.6 -1.7 -2.3 1.0 0.7 0.3
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 4.7 5.7 9.1 11.0 11.0 14.2 – 15.9 16.5 0 -0.8 3.8 -0.6 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 0.6 0 0 0.8 1.5 – 0.4 1.2 0 0 0 4.6 5.4 6.0

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 10.7253 13.9374 12.5071 11.1939 11.6014 12.3356 9.5185 12.4463 11.1359 10.5066 10.0554 11.2516 11.1996 12.6508 11.9623 11.577 11.0361 12.0383
Actin 0.001 0.001 0.0009 0.0023 0.0011 0.001 0.0021 0.0002 0.0016 0.0003 0.0001 0.0004 0.0013 0.0024 0.001 0.0009 0.0002 0.0009
Bud 0.0011 0.0007 0.0013 0.0022 0.0006 0.0008 0.0004 0.0004 0.0006 0.0006 0.0003 0.0002 0.0005 0.0007 0.0006 0.0005 0.0004 0.0005
Bud Neck 0.0011 0.0008 0.0012 0.0014 0.0016 0.0033 0.0004 0.0002 0.0004 0.0006 0.0004 0.0011 0.0004 0.0004 0.0005 0.0006 0.0006 0.0012
Bud Periphery 0.0022 0.0008 0.0015 0.0048 0.0005 0.0017 0.0003 0.0002 0.0004 0.0003 0.0002 0.0001 0.0004 0.0002 0.0004 0.0003 0.0001 0.0005
Bud Site 0.0009 0.0014 0.0016 0.0011 0.0003 0.0003 0.0005 0.0004 0.0006 0.0004 0.0001 0.0001 0.0007 0.0018 0.0006 0.0003 0.0002 0.0002
Cell Periphery 0.0035 0.002 0.0018 0.0042 0.0005 0.0024 0.0004 0.0001 0.0002 0.0001 0.0001 0.0001 0.0009 0.0003 0.0003 0.0002 0 0.0003
Cytoplasm 0.7853 0.9037 0.8294 0.7871 0.8287 0.8349 0.8521 0.9576 0.9025 0.8631 0.8714 0.8865 0.8434 0.9118 0.8834 0.8079 0.9048 0.8635
Cytoplasmic Foci 0.008 0.0064 0.0072 0.013 0.0117 0.0102 0.0204 0.0086 0.0173 0.0218 0.0163 0.0184 0.0172 0.0178 0.0152 0.0168 0.0199 0.0215
Eisosomes 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Endoplasmic Reticulum 0.0982 0.0435 0.0724 0.0321 0.0832 0.0846 0.0434 0.0069 0.0099 0.0076 0.0188 0.0272 0.0521 0.0161 0.0193 0.0347 0.0034 0.0267
Endosome 0.0324 0.0165 0.0313 0.0669 0.0398 0.0274 0.0478 0.0153 0.044 0.08 0.0697 0.0473 0.0543 0.0301 0.0523 0.0822 0.0576 0.0549
Golgi 0.0065 0.0032 0.0036 0.0085 0.0061 0.0048 0.008 0.0022 0.0043 0.0036 0.0034 0.0073 0.0093 0.0079 0.005 0.0106 0.0033 0.0127
Lipid Particles 0.0008 0.0002 0.0004 0.0002 0.0003 0.0002 0.0034 0 0.0004 0 0 0 0.0003 0.0002 0.0002 0.0002 0 0.0001
Mitochondria 0.0136 0.0029 0.0047 0.0044 0.0036 0.012 0.0058 0.0028 0.0024 0.0021 0.0023 0.0051 0.0051 0.0025 0.0033 0.0037 0.0014 0.0099
None 0.0087 0.0007 0.0007 0.0007 0.0007 0.0008 0.003 0.0008 0.0014 0.0012 0.0015 0.001 0.0017 0.0009 0.0007 0.0006 0.0005 0.0008
Nuclear Periphery 0.0041 0.0015 0.0045 0.0043 0.0034 0.002 0.0021 0.0004 0.0009 0.0012 0.002 0.0006 0.0016 0.0008 0.0014 0.0017 0.0005 0.0007
Nucleolus 0.0001 0 0 0.0001 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Nucleus 0.002 0.0013 0.0021 0.0024 0.0015 0.0013 0.001 0.0005 0.001 0.001 0.0012 0.0007 0.0008 0.0008 0.0009 0.0008 0.0007 0.0007
Peroxisomes 0.0001 0.0001 0.0001 0.0001 0.0001 0.0001 0.001 0 0.0019 0.0001 0 0.0001 0.0001 0.0001 0.0001 0.0001 0.0001 0.0001
Punctate Nuclear 0.0001 0 0.0001 0.0001 0.0001 0.0001 0.0005 0 0.0001 0.0001 0.0001 0.0001 0.0001 0.0001 0.0001 0.0001 0 0.0001
Vacuole 0.0255 0.0115 0.0295 0.0516 0.013 0.0089 0.0058 0.0025 0.0081 0.0115 0.0082 0.0025 0.0078 0.0042 0.0114 0.0335 0.0045 0.0032
Vacuole Periphery 0.0047 0.0019 0.0057 0.0127 0.0031 0.0032 0.0016 0.0006 0.0019 0.0044 0.0038 0.0012 0.0021 0.001 0.0033 0.004 0.0018 0.0016

Sequencing Data

R1 R2
G1 Post-START S/G2 Metaphase Anaphase Telophase G1 Post-START S/G2 Metaphase Anaphase Telophase
Gene Expression 29.1271 27.3142 33.9069 37.482 25.3615 25.1154 31.8762 34.4054 39.1013 34.6752
Translational Efficiency 1.5402 1.3103 1.1063 1.2249 1.2374 1.4417 1.087 0.8938 0.8978 0.9892

Hit Data

Dataset Hit
Protein Concentration ✘
Protein Localization ✘
Gene Expression ✔
Translational Efficiency ✘
Standard name
Human Ortholog
Description Ski complex component and putative RNA helicase; mediates 3'-5' RNA degradation by the cytoplasmic exosome; null mutants have superkiller phenotype of increased viral dsRNAs and are synthetic lethal with mutations in 5'-3' mRNA decay; mutations in the human ortholog, SKIV2L, causes Syndromic diarrhea/Trichohepatoenteric (SD/THE) syndrome
Localization
Cell Percentages cytoplasm (99%)
Cell Cycle Regulation No
Subcompartmental Group cytoplasm-5

Ski2

Ski2


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 (Ski2-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