Standard name
Human Ortholog
Description Subunit of the membrane-associated retromer complex; essential for endosome-to-Golgi retrograde protein transport; peripheral membrane protein that assembles onto the membrane with Vps5p to promote vesicle formation; required for recruiting the retromer complex to the endosome membranes

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 0.05 0.08 0.06 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 0.06 0.05 0.05 0 0 0 0.05 0 0 0.05 0.05 0.05 0 0.12 0.07 0.1 0 0 0 0 0 0
Endoplasmic Reticulum 0 0.05 0 0 0 0 0 0 0 0 0 0 0 0 0 0.05 0 0 0 0 0 0 0
Endosome 0.56 0.37 0.84 0.72 0.79 0.74 0.66 0.6 0.34 0.3 0.43 0.66 0.67 0.63 0.64 0.67 0.58 0.79 0.82 0.84 0.87 0.85 0.86
Golgi 0 0.07 0 0 0 0 0 0 0 0 0 0 0 0.06 0 0 0.09 0 0 0 0 0.07 0.06
Mitochondria 0.17 0.14 0.1 0.26 0.16 0.24 0.26 0.33 0.57 0.61 0.5 0 0 0 0.09 0.12 0.08 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 0.24 0.11 0.14 0.12 0.13 0.1 0.09 0.08 0.09 0.05 0.06 0.06 0.06 0.08 0 0 0.1 0 0 0 0 0 0
Peroxisomes 0 0 0 0.05 0 0.11 0 0.05 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
SpindlePole 0.08 0 0.1 0.08 0.09 0.1 0.07 0.09 0 0.05 0.06 0.14 0.14 0.1 0.12 0.09 0.05 0.06 0 0 0 0 0
Vac/Vac Membrane 0.36 0.51 0.12 0.09 0.16 0.1 0.07 0.08 0.07 0.05 0 0.39 0.39 0.53 0.4 0.45 0.47 0.05 0.08 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 3 2 1 0 1 2 10 6 11 17 13 11 4 3 3 5 0 1 5 1 4 7
Bud 0 1 4 3 0 10 11 36 29 37 38 1 1 1 2 1 0 0 0 3 1 0 2
Bud Neck 0 0 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 0 0
Bud Site 0 0 0 0 0 0 0 0 1 0 1 0 0 0 0 0 0
Cell Periphery 0 0 1 0 0 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0
Cytoplasm 2 12 20 15 9 14 18 41 19 18 28 21 21 17 33 28 18 0 1 1 0 2 3
Endoplasmic Reticulum 0 10 4 1 6 8 13 14 12 10 17 7 8 5 12 19 4 0 2 3 1 2 6
Endosome 40 75 345 235 306 346 359 525 189 134 262 305 312 343 171 254 102 77 185 367 416 688 772
Golgi 2 15 5 7 11 4 13 9 12 5 14 11 14 32 3 12 15 4 8 17 14 59 53
Mitochondria 12 29 43 85 60 114 143 293 321 274 304 2 2 0 25 45 14 2 2 5 7 10 9
Nucleus 1 1 1 1 1 0 0 0 0 1 0 0 0 3 1 4 2 0 0 0 0 0 0
Nuclear Periphery 0 2 4 4 3 7 4 3 6 1 7 9 6 4 0 7 0 0 0 1 0 2 2
Nucleolus 17 23 58 40 51 46 50 74 52 24 36 28 28 43 11 14 17 0 1 0 1 1 3
Peroxisomes 0 0 13 15 5 52 22 43 16 19 12 3 2 0 0 0 0 0 0 8 3 7 5
SpindlePole 6 6 41 27 33 47 40 81 25 23 38 64 65 53 33 33 8 6 2 14 7 15 13
Vac/Vac Membrane 26 104 50 31 61 45 37 67 38 22 27 182 183 288 108 172 82 4 17 1 16 10 20
Unique Cell Count 72 202 413 328 386 470 546 878 559 452 609 462 466 548 268 380 176 99 226 435 479 811 903
Labelled Cell Count 107 281 591 465 546 694 712 1196 726 579 802 646 653 794 402 592 267 99 226 435 479 811 903


Endosome

(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) 7.2 9.2 7.8 7.8 7.9 7.1 7.1 7.0 6.5 6.7 6.8 9.2 9.2 10.4 7.6 8.9 10.4 9.6 10.0 10.5
Std Deviation (1e-4) 1.2 1.5 1.6 1.5 1.4 1.2 1.2 1.3 1.3 1.4 1.4 1.1 1.1 1.4 1.4 1.9 2.3 1.3 1.5 1.8
Intensity Change (Log2) 0.01 0.02 -0.14 -0.14 -0.14 -0.25 -0.22 -0.2 0.24 0.24 0.42 -0.03 0.2 0.42 0.3 0.37 0.43


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 2.4 2.7 2.7 2.3 0 0 0 0
Bud 0 0 1.4 1.3 3.0 3.6 5.0 4.2 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 -0.2 -1.9 -1.4 -1.2 -0.1 -1.1 -0.6 -0.2 -0.2 -0.2 -1.4 3.6 1.5 2.4
Endoplasmic Reticulum 0 0 0.9 1.6 0.9 1.4 1.4 2.0 0.7 1.0 0 3.0 3.4 0
Endosome -3.9 -1.5 -3.6 -6.2 -8.5 -15.4 -15.9 -12.9 -5.9 -5.6 -7.1 -5.9 -5.5 -6.6
Golgi 1.0 1.7 0 1.3 0 1.1 0 1.3 1.3 1.8 3.7 0 1.9 4.5
Mitochondria 5.5 2.2 5.4 6.1 8.8 15.0 15.3 13.1 -6.7 -6.7 -7.7 -0.5 0.6 -0.9
Nucleus 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Nuclear Periphery 0 0 0.7 0 0 0 0 0 1.2 0 0 0 1.1 0
Nucleolus -0.7 -0.3 -2.0 -2.4 -3.1 -2.3 -4.4 -4.4 -4.0 -4.0 -3.1 -4.2 -5.1 -1.5
Peroxisomes 1.0 -1.8 4.5 0.7 1.4 -0.3 0.8 -1.2 -2.8 -3.1 -4.2 -2.9 -3.5 0
SpindlePole -0.8 -0.7 0 -1.4 -0.4 -3.3 -2.7 -2.2 1.8 1.8 -0.1 1.0 -0.6 -2.2
Vacuole -1.2 1.5 -1.2 -2.8 -2.6 -2.9 -3.8 -4.6 9.1 9.1 13.0 8.5 10.4 9.2

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 5.6933 6.9236 6.7606 6.0472 7.3385 6.0801 4.4976 4.3391 4.762 3.9591 4.6273 4.914 3.5401 4.9648 4.9043 9.7283 3.9447 4.6425
Actin 0.0004 0.0026 0.0006 0.0001 0 0.0001 0.0141 0.0001 0.0073 0.0392 0 0.0024 0.0001 0.0001 0.0137 0 0 0.0131
Bud 0.0001 0.0081 0.0076 0.0001 0 0.0002 0.0002 0.0003 0.0029 0.0003 0.0009 0.0001 0 0.0001 0.0007 0 0 0.0001
Bud Neck 0.0003 0.0005 0.0005 0.0001 0.0003 0.0003 0.0003 0.0004 0.0009 0.0004 0.0003 0.0005 0.0002 0.0003 0.0005 0.0001 0.0001 0.0005
Bud Periphery 0.0001 0.0025 0.0016 0 0 0.0001 0.0002 0.0001 0.0032 0.0004 0.0004 0 0 0 0.0005 0 0 0.0001
Bud Site 0.0004 0.0141 0.0039 0.0001 0.0001 0.0001 0.001 0.0033 0.0184 0.0013 0.0051 0.0003 0.0001 0.0005 0.0016 0 0.0001 0.0006
Cell Periphery 0 0.0002 0.0004 0 0 0 0.0001 0.0001 0.0002 0.0002 0.0001 0 0 0.0001 0.0002 0 0 0.0001
Cytoplasm 0.004 0.0153 0.0111 0.0014 0.0014 0.0032 0.0351 0.0923 0.0562 0.0111 0.0331 0.0041 0.0015 0.0162 0.0072 0.0035 0.0013 0.009
Cytoplasmic Foci 0.1446 0.182 0.1876 0.1144 0.1446 0.1772 0.1241 0.1215 0.1723 0.129 0.1297 0.1492 0.2093 0.1864 0.1638 0.1172 0.1476 0.1568
Eisosomes 0 0 0 0 0 0 0.0001 0 0.0001 0.0007 0 0 0 0 0.0001 0 0 0
Endoplasmic Reticulum 0.0005 0.0006 0.0014 0.0002 0.0002 0.0004 0.0234 0.0019 0.0016 0.0042 0.0024 0.0005 0.0003 0.0034 0.001 0.0002 0.0002 0.0011
Endosome 0.6907 0.6281 0.6292 0.7563 0.7348 0.6188 0.4828 0.5986 0.4915 0.6602 0.677 0.5907 0.5963 0.6165 0.6021 0.6915 0.7122 0.5767
Golgi 0.0693 0.0791 0.0889 0.1051 0.0831 0.0925 0.0517 0.0348 0.1175 0.0976 0.0706 0.155 0.1042 0.064 0.13 0.0587 0.0975 0.1517
Lipid Particles 0.0367 0.0236 0.0252 0.0091 0.0176 0.0645 0.0599 0.023 0.0491 0.0078 0.0141 0.0655 0.0673 0.0432 0.0225 0.0041 0.0211 0.0488
Mitochondria 0.0038 0.0011 0.0011 0.0007 0.0009 0.0014 0.0024 0.0008 0.0035 0.0076 0.0024 0.0028 0.0016 0.0015 0.0069 0.0014 0.0005 0.0022
None 0.0002 0.0003 0.0008 0 0 0.0004 0.0796 0.0121 0.0143 0.0033 0.0005 0.0001 0.0001 0.0003 0.0001 0 0 0.0014
Nuclear Periphery 0.0012 0.0005 0.0035 0.0001 0.0001 0.0002 0.0624 0.0021 0.0019 0.0029 0.0009 0.0004 0.0002 0.0021 0.0005 0.0002 0.0002 0.0014
Nucleolus 0.0002 0.0005 0.0004 0 0.0002 0.0003 0.0003 0.0005 0.0009 0.0002 0.0004 0.0003 0.0001 0.0003 0.0076 0.1009 0.0001 0.0003
Nucleus 0.0005 0.0013 0.0008 0 0.0001 0.0002 0.0032 0.0029 0.0091 0.0006 0.001 0.0001 0 0.0005 0.0019 0.0089 0.0001 0.0007
Peroxisomes 0.023 0.0177 0.0221 0.0044 0.0057 0.0274 0.0082 0.0067 0.0123 0.0028 0.0123 0.0069 0.01 0.0062 0.0162 0.004 0.0042 0.0101
Punctate Nuclear 0.0014 0.0041 0.0008 0.0001 0.0002 0.001 0.0067 0.0007 0.0021 0.0008 0.0003 0.0008 0.002 0.0005 0.0086 0.0001 0.0002 0.0025
Vacuole 0.0187 0.015 0.01 0.0047 0.0086 0.0085 0.0371 0.0875 0.0294 0.0248 0.042 0.0156 0.0044 0.0508 0.0114 0.0057 0.0116 0.0183
Vacuole Periphery 0.0039 0.003 0.0025 0.003 0.0021 0.0033 0.007 0.0104 0.0051 0.0047 0.0067 0.0047 0.0025 0.007 0.0029 0.0032 0.0028 0.0045

Sequencing Data

R1 R2
G1 Post-START S/G2 Metaphase Anaphase Telophase G1 Post-START S/G2 Metaphase Anaphase Telophase
Gene Expression 32.3159 15.4866 17.6796 33.373 25.4849 42.62 26.4989 26.2178 32.3571 33.901
Translational Efficiency 1.3255 1.3991 1.3318 0.975 1.1526 1.2717 1.1196 0.9915 1.1749 1.0916

Hit Data

Dataset Hit
Protein Concentration
Protein Localization
Gene Expression
Translational Efficiency

Micrographs

Cell Count

R1 R2 R1 & R2
WT UBP2 UBP14 UBP2UBP14 WT UBP2 UBP14 UBP2UBP14 WT UBP2 UBP14 UBP2UBP14
95 108 1314 902 246 90 3084 7 341 198 4398 909

Protein Abundance

R1 R2 R1 & R2
WT UBP2 UBP14 UBP2UBP14 WT UBP2 UBP14 UBP2UBP14 WT UBP2 UBP14 UBP2UBP14
Mean 1229.60 1061.39 873.89 1127.51 849.30 1021.65 1060.08 468.34 955.25 1043.33 1004.45 1122.43
Standard Deviation 203.20 147.90 212.46 195.28 122.83 114.08 155.28 253.05 226.83 135.05 194.05 204.09
Intensity Change Log 2 -0.212234 -0.492665 -0.125049 0.266555 0.319827 -0.858718 0.002870 -0.104255 -0.381495

Localization Score (DeepLoc)

R1 R2 R1 & R2
WT UBP2 UBP14 UBP2UBP14 WT UBP2 UBP14 UBP2UBP14 WT UBP2 UBP14 UBP2UBP14
Actin 0.008420 0.000183 0.000313 0.002510 0.000076 0.000083 0.000082 0.000055 0.002400 0.000138 0.000151 0.002491
Bud Neck 0.005692 0.000908 0.003349 0.001325 0.001948 0.004386 0.000500 0.000045 0.002991 0.002489 0.001351 0.001315
Bud Site 0.015655 0.003493 0.013930 0.012499 0.003636 0.007845 0.004203 0.000270 0.006984 0.005471 0.007109 0.012405
Cell Periphery 0.006127 0.000053 0.000098 0.000103 0.000098 0.000303 0.000077 0.000075 0.001778 0.000167 0.000083 0.000103
Cytoplasm 0.027897 0.001283 0.012929 0.005722 0.002999 0.002319 0.002389 0.001393 0.009935 0.001754 0.005538 0.005689
Cytoplasmic Foci 0.144043 0.109788 0.145959 0.149586 0.080828 0.090962 0.058957 0.019195 0.098439 0.101231 0.084951 0.148582
Eisosomes 0.000246 0.000016 0.000020 0.000023 0.000015 0.000020 0.000005 0.000255 0.000079 0.000018 0.000009 0.000025
Endoplasmic Reticulum 0.016169 0.000135 0.000527 0.000340 0.000120 0.000106 0.000054 0.000001 0.004591 0.000122 0.000195 0.000338
Endosome 0.435509* 0.696934* 0.539654* 0.406375* 0.759376* 0.704202* 0.680706* 0.109377 0.669149* 0.700238* 0.638564* 0.404088*
Golgi 0.047771 0.105856 0.101875 0.284025* 0.086603 0.073548 0.125808* 0.006246 0.075784 0.091171 0.118657* 0.281886*
Lipid Particles 0.011863 0.003009 0.008899 0.006989 0.005223 0.025331 0.001035 0.000019 0.007073 0.013155 0.003384 0.006935
Mitochondria 0.002398 0.006309 0.003174 0.003828 0.002924 0.001590 0.007235 0.000058 0.002777 0.004164 0.006022 0.003799
Mitotic Spindle 0.017225 0.000988 0.012006 0.006283 0.000415 0.001314 0.004947 0.000867 0.005098 0.001136 0.007056 0.006241
None 0.000239 0.000008 0.001037 0.000022 0.000011 0.000015 0.000020 0.856568* 0.000075 0.000011 0.000324 0.006618
Nuclear Periphery 0.000385 0.000082 0.000382 0.000205 0.000089 0.000363 0.000155 0.000005 0.000172 0.000210 0.000223 0.000204
Nuclear Periphery Foci 0.002114 0.000980 0.015264 0.001831 0.005287 0.002565 0.001097 0.000005 0.004403 0.001701 0.005330 0.001817
Nucleolus 0.000643 0.000021 0.003819 0.000102 0.000549 0.000640 0.000055 0.000004 0.000575 0.000302 0.001179 0.000102
Nucleus 0.019176 0.000024 0.003981 0.000135 0.000099 0.000154 0.000032 0.000003 0.005413 0.000083 0.001212 0.000134
Peroxisomes 0.023343 0.005139 0.012958 0.008832 0.011725 0.018563 0.003185 0.001994 0.014962 0.011241 0.006105 0.008779
Vacuole 0.201146* 0.053940 0.098240 0.086751 0.027721 0.037675 0.080168 0.002923 0.076036 0.046547 0.085567 0.086105
Vacuole Periphery 0.013938 0.010851 0.021588 0.022514 0.010261 0.028015 0.029291 0.000642 0.011285 0.018652 0.026990 0.022345

Localization Changes (T-score)

R1 R2 R1 & R2
UBP2_WT UBP14_WT UBP2UBP14_WT UBP2UBP14_UBP2 UBP2UBP14_UBP14 UBP2_WT UBP14_WT UBP2UBP14_WT UBP2UBP14_UBP2 UBP2UBP14_UBP14 UBP2_WT UBP14_WT UBP2UBP14_WT UBP2UBP14_UBP2 UBP2UBP14_UBP14
Actin 1.15 1.13 0.82 -3.78 -3.58 NaN NaN NaN NaN NaN 1.13 1.12 -0.06 -3.88 -3.87
Bud Neck 4.42 2.07 4.09 -1.18 4.38 NaN NaN NaN NaN NaN 0.51 3.74 3.53 1.22 0.10
Bud Site 3.65 0.47 0.85 -4.41 0.65 NaN NaN NaN NaN NaN 0.57 -0.24 -3.00 -2.48 -3.23
Cell Periphery 1.30 1.29 1.29 -2.47 -0.29 NaN NaN NaN NaN NaN 1.23 1.30 1.28 0.67 -0.67
Cytoplasm 2.57 1.35 1.97 -3.54 2.63 NaN NaN NaN NaN NaN 2.57 1.31 0.76 -3.10 -0.87
Cytoplasmic Foci 1.69 0.03 -0.17 -2.69 -0.52 NaN NaN NaN NaN NaN -0.21 2.00 -5.72 -4.42 -11.62
Eisosomes 2.64 2.60 2.57 -0.83 -1.00 NaN NaN NaN NaN NaN 2.42 2.80 2.18 -1.18 -5.79
Endoplasmic Reticulum 1.60 1.56 1.58 -1.98 1.82 NaN NaN NaN NaN NaN 1.59 1.56 1.51 -2.36 -1.62
Endosome -7.03 -3.31 0.87 12.63 12.36 NaN NaN NaN NaN NaN -1.40 1.96 15.39 16.27 26.59*
Golgi -3.74 -4.85 -17.55 -12.44 -20.28* NaN NaN NaN NaN NaN -1.50 -6.14 -19.43 -16.49 -19.06
Lipid Particles 1.63 0.53 0.88 -2.51 1.06 NaN NaN NaN NaN NaN -0.98 1.49 0.04 1.06 -2.67
Mitochondria -0.78 -0.64 -1.00 0.50 -0.69 NaN NaN NaN NaN NaN -0.50 -3.77 -0.96 0.13 2.43
Mitotic Spindle 2.08 0.61 1.31 -3.53 2.44 NaN NaN NaN NaN NaN 1.77 -0.94 -0.64 -3.52 0.27
None 1.18 -1.36 1.10 -2.88 1.82 NaN NaN NaN NaN NaN 1.16 -1.43 -2.44 -2.46 -2.34
Nuclear Periphery 2.32 -0.02 1.37 -2.43 3.21 NaN NaN NaN NaN NaN -0.27 -1.08 -0.54 0.04 0.54
Nuclear Periphery Foci 1.51 -6.37 0.46 -1.48 6.76 NaN NaN NaN NaN NaN 0.91 -0.35 0.89 -0.15 4.92
Nucleolus 2.10 -3.48 1.81 -1.99 4.26 NaN NaN NaN NaN NaN 0.69 -1.41 1.30 1.12 4.07
Nucleus 1.95 1.56 1.91 -1.39 3.42 NaN NaN NaN NaN NaN 1.93 1.53 1.81 -1.18 1.93
Peroxisomes 3.07 1.79 2.49 -1.96 2.62 NaN NaN NaN NaN NaN 1.14 3.69 2.39 0.98 -2.20
Vacuole 5.08 3.75 4.15 -2.85 1.93 NaN NaN NaN NaN NaN 2.57 -1.12 -1.13 -4.91 -0.22
Vacuole Periphery 0.88 -2.50 -2.65 -4.64 -0.45 NaN NaN NaN NaN NaN -1.65 -8.82 -4.87 -0.80 2.55
Standard name
Human Ortholog
Description Subunit of the membrane-associated retromer complex; essential for endosome-to-Golgi retrograde protein transport; peripheral membrane protein that assembles onto the membrane with Vps5p to promote vesicle formation; required for recruiting the retromer complex to the endosome membranes
Localization
Cell Percentages endosome (55%)
Cell Cycle Regulation No
Subcompartmental Group N/A

Vps17

Vps17


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 (Vps17-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