Standard name
Human Ortholog
Description Component of RNA polymerase transcription factor TFIIH holoenzyme; acts as dsDNA-dependent translocase in context of TFIIH, unwinds DNA strands during initiation and promotes transcription start site (TSS) scanning; has DNA-dependent ATPase/helicase activity; interacts functionally with TFIIB, has roles in TSS selection and gene looping to juxtapose initiation and termination regions; involved in DNA repair; relocalizes to cytosol under hypoxia; homolog of human ERCC3
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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
Bud 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
Bud Site 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
Cytoplasm 0.06 0 0 0 0.06 0 0 0 0 – 0 – 0 0.06 0.1 0.1 0.09 0.08 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
Endosome 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
Mitochondria 0.1 0.07 0 0.11 0 0.12 0.11 0.08 0.21 – 0.35 – 0 0 0 0 0 0 0 0 0 0 0 0
Nucleus 0.85 0.92 0.95 0.91 0.92 0.9 0.93 0.9 0.86 – 0.8 – 0.95 0.91 0.87 0.85 0.81 0.84 0.79 0.91 0.9 0.84 0.79 0.7
Nuclear Periphery 0 0 0 0 0 0 0 0 0 – 0 – 0 0 0 0 0 0 0 0 0 0 0 0
Nucleolus 0.18 0.15 0 0.06 0 0 0 0 0.06 – 0.06 – 0.06 0.06 0.06 0 0 0 0.08 0 0 0.05 0.1 0.12
Peroxisomes 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
Vac/Vac Membrane 0 0 0 0 0 0 0 0 0 – 0 – 0 0 0 0 0 0.06 0 0 0 0.05 0.07 0.09
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 3
Bud 0 0 0 1 0 0 2 1 1 – 0 – 0 1 1 0 0 0 0 1 1 1 3 8
Bud Neck 0 0 0 0 0 0 1 0 0 – 0 – 0 1 0 0 0 0 1 0 0 0 3 2
Bud Site 0 0 0 0 0 0 3 0 2 – 8 – 0 0 0 0 0 0 – – – – – –
Cell Periphery 0 0 0 0 0 0 0 0 0 – 0 – 0 0 0 1 0 0 0 0 0 0 0 0
Cytoplasm 7 2 8 7 18 13 16 17 15 – 13 – 11 38 57 33 19 17 0 0 1 2 0 0
Endoplasmic Reticulum 0 0 0 0 2 0 1 0 0 – 0 – 0 0 0 3 6 7 0 0 0 1 0 1
Endosome 0 0 1 0 1 2 2 4 2 – 0 – 1 0 2 0 4 3 2 0 1 1 2 6
Golgi 0 0 0 0 0 0 1 0 0 – 0 – 0 0 0 1 1 0 1 0 0 2 0 3
Mitochondria 11 12 2 21 4 42 63 50 95 – 132 – 10 1 1 3 0 3 1 0 3 1 0 4
Nucleus 93 165 286 170 287 311 545 547 384 – 297 – 396 540 518 279 179 181 85 177 288 196 412 418
Nuclear Periphery 2 0 0 0 2 1 1 9 3 – 3 – 1 3 0 0 1 2 0 0 0 0 0 0
Nucleolus 20 27 1 12 3 8 17 27 25 – 22 – 26 36 37 11 8 3 8 7 8 12 53 69
Peroxisomes 0 0 0 0 0 0 0 1 0 – 0 – 0 3 3 0 0 0 0 0 0 0 0 1
SpindlePole 0 0 1 2 2 2 3 14 6 – 8 – 2 1 4 0 5 2 0 0 0 0 3 10
Vac/Vac Membrane 0 3 5 2 2 1 2 5 5 – 8 – 0 1 5 12 9 12 1 6 11 11 37 56
Unique Cell Count 109 179 302 186 312 345 587 606 448 373 419 595 593 329 221 215 108 196 322 235 522 596
Labelled Cell Count 133 209 304 215 321 380 657 675 538 491 447 625 628 343 232 230 108 196 322 235 522 596


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) 6.4 7.1 7.1 6.1 7.7 6.1 6.0 6.2 5.3 – 4.7 – 7.9 8.1 7.5 10.4 10.2 10.3 6.8 6.5 7.2
Std Deviation (1e-4) 1.2 1.3 1.2 1.7 1.7 1.5 1.5 1.7 1.4 – 1.2 – 1.6 1.8 1.9 2.3 2.5 2.5 1.5 1.4 1.6
Intensity Change (Log2) – – – -0.23 0.11 -0.24 -0.25 -0.2 -0.44 – -0.61 – 0.15 0.18 0.06 0.54 0.51 0.53 -0.08 -0.13 0.01


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
Bud 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
Bud Site 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
Cytoplasm 0.7 1.9 0.8 0.1 0.1 0.5 – 0.6 – 0 2.4 3.8 3.8 3.0 2.7
Endoplasmic Reticulum 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
Golgi 0 0 0 0 0 0 – 0 – 0 0 0 0 0 0
Mitochondria 5.4 0 5.8 5.5 4.6 8.2 – 0 – 1.8 0 0 0 0 0
Nucleus -1.4 -1.3 -2.2 -1.1 -2.3 -3.9 – -5.7 – -0.1 -2.1 -3.4 -4.1 -4.9 -4.0
Nuclear Periphery 0 0 0 0 0 0 – 0 – 0 0 0 0 0 0
Nucleolus 0 0 0 2.6 3.4 3.9 – 0 – 4.1 4.1 4.1 2.8 0 0
Peroxisomes 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
Vacuole 0 0 0 0 0 0 – 0.5 – 0 0 0 1.5 1.7 2.5

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 4.5666 5.2522 4.629 4.5921 4.4447 4.6634 2.2545 4.2324 3.187 2.7655 2.1087 2.6699 3.938 5.111 4.4262 4.3994 3.6427 4.0183
Actin 0.0308 0 0.0036 0 0.0329 0.0107 0.0118 0 0.0017 0 0.0002 0.0016 0.013 0 0.0077 0.0071 0.0046 0.0001
Bud 0.0001 0 0.0001 0 0.0002 0.0001 0.0006 0 0.0001 0 0.0002 0.0001 0.0002 0 0 0.0017 0.0012 0
Bud Neck 0.0005 0.0001 0.0003 0 0.0023 0.0009 0.0007 0 0.0001 0.0001 0.0005 0.0006 0.0003 0 0.0003 0.0009 0.0017 0.0007
Bud Periphery 0.0002 0 0.0004 0 0.0004 0.0001 0.0013 0 0.0001 0 0.0006 0.0003 0.0003 0 0.0001 0.0025 0.0022 0
Bud Site 0.0003 0 0.0008 0 0.002 0.0001 0.0035 0 0.0002 0 0.001 0.0002 0.0008 0 0.0001 0.0022 0.0012 0.0001
Cell Periphery 0 0 0.0004 0 0.0002 0.0001 0.0006 0 0 0 0.0006 0.0001 0.0002 0 0.0001 0.0003 0.0002 0
Cytoplasm 0.0006 0 0.0007 0 0.0002 0 0.0014 0 0.0002 0 0.0001 0.0001 0.0009 0 0.0001 0.0032 0.0043 0.0005
Cytoplasmic Foci 0.0032 0 0.0025 0 0.0041 0.0002 0.024 0 0.0053 0 0.0127 0.0007 0.004 0 0.0012 0.0031 0.0048 0.0061
Eisosomes 0.0001 0 0.0002 0 0.0006 0.0001 0.0001 0 0 0 0 0 0.0004 0 0 0.0003 0.0002 0
Endoplasmic Reticulum 0.0006 0 0.0004 0 0.0001 0.0003 0.0033 0 0.0004 0 0.0001 0.0002 0.002 0 0.0001 0.0021 0.0017 0.0001
Endosome 0.0025 0 0.0008 0 0.0013 0.0009 0.0287 0 0.008 0 0.0048 0.0013 0.0087 0 0.002 0.0011 0.0237 0.0005
Golgi 0.0022 0 0.0005 0 0.0028 0.0019 0.008 0 0.0041 0 0.002 0.0008 0.0038 0 0.0004 0.0003 0.0058 0.0001
Lipid Particles 0.0078 0 0.0028 0 0.0084 0.0013 0.0269 0 0.006 0 0.022 0.0022 0.008 0 0.0005 0.0012 0.0105 0.0015
Mitochondria 0.0009 0.0001 0.0029 0 0.0022 0.0003 0.007 0.0001 0.0052 0.0002 0.034 0.0054 0.0158 0 0.0017 0.0038 0.0509 0.0002
None 0.0008 0 0.0015 0 0.0003 0.0001 0.0014 0 0.0002 0 0.0001 0.0001 0.002 0 0.0002 0.0095 0.0108 0.0024
Nuclear Periphery 0.0048 0.0002 0.0015 0.0002 0.0012 0.0003 0.0125 0.0006 0.0005 0.0005 0.0036 0.0005 0.0071 0.0025 0.0006 0.0024 0.012 0.0009
Nucleolus 0.026 0.0212 0.0129 0.0039 0.0926 0.0602 0.0202 0.0097 0.0109 0.0169 0.1092 0.0688 0.0254 0.0081 0.0132 0.0126 0.1419 0.0919
Nucleus 0.9056 0.9781 0.9503 0.9957 0.8282 0.9218 0.8214 0.9893 0.9495 0.9821 0.769 0.9153 0.8946 0.9852 0.9621 0.9402 0.6989 0.8883
Peroxisomes 0.0051 0 0.0054 0 0.0151 0.0002 0.0138 0 0.0057 0 0.0255 0.0007 0.002 0 0.004 0.0006 0.0009 0.0001
Punctate Nuclear 0.0072 0.0001 0.0109 0.0001 0.0038 0.0002 0.0049 0 0.0003 0.0002 0.007 0.0002 0.0066 0.004 0.001 0.0034 0.0185 0.0062
Vacuole 0.0003 0 0.0009 0 0.0006 0.0001 0.0054 0.0001 0.001 0 0.0053 0.0006 0.0014 0 0.0026 0.0011 0.002 0.0001
Vacuole Periphery 0.0002 0 0.0003 0 0.0005 0.0001 0.0026 0.0001 0.0004 0 0.0014 0.0003 0.0025 0 0.002 0.0005 0.002 0.0001

Sequencing Data

R1 R2
G1 Post-START S/G2 Metaphase Anaphase Telophase G1 Post-START S/G2 Metaphase Anaphase Telophase
Gene Expression 20.4818 22.5947 23.704 25.879 19.7754 21.3416 23.3379 26.8506 26.1582 22.7977
Translational Efficiency 1.0566 1.059 0.9025 0.8723 0.8861 0.9899 0.9574 0.7558 0.7687 0.7786

Hit Data

Dataset Hit
Protein Concentration ✔
Protein Localization ✘
Gene Expression ✔
Translational Efficiency ✘
Standard name
Human Ortholog
Description Component of RNA polymerase transcription factor TFIIH holoenzyme; acts as dsDNA-dependent translocase in context of TFIIH, unwinds DNA strands during initiation and promotes transcription start site (TSS) scanning; has DNA-dependent ATPase/helicase activity; interacts functionally with TFIIB, has roles in TSS selection and gene looping to juxtapose initiation and termination regions; involved in DNA repair; relocalizes to cytosol under hypoxia; homolog of human ERCC3
Localization
Cell Percentages nucleus (99%)
Cell Cycle Regulation No
Subcompartmental Group nucleus-4

Ssl2

Ssl2


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 (Ssl2-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