CoP: Co-expressed Biological Processes

Microarray experiments to specifically-expressed genes

GSM ID GSM133951

Assay name Murray_2-7_T12-APH_Rep1_ATH1

GSE experiment GSE5747: Genome-wide cell cycle studies

Click Gene ID to show a list of GSM assays in which the gene are specifically expressed.

Std2 GX %ile Std GX Gene ID Repr. ID Gene name Functional description O.I. C.G. H.G. Other DB
275.7 100.0 85.6 At4g01970 828186 AtSTS (Arabidopsis thaliana stachyose synthase) Encodes a putative stachyose synthetase. O.I. C.G. H.G.
247.1 100.0 99.9 At1g59660 842256 nucleoporin family protein F:transporter activity;P:transport;C:chloroplast, nuclear pore;MBOFPVA O.I. C.G. H.G.
193.5 100.0 56.8 At3g42725 823305 unknown protein F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P O.I. C.G. H.G.
182.6 100.0 104.9 At1g51380 841562 eukaryotic translation initiation factor 4A, putative / eIF-4A, putative F:helicase activity, ATP binding, ATP-dependent helicase activity, nucleic acid binding;P:unknown;C:cellular_component unknown;BOMFPAV O.I. C.G. H.G.
179.0 100.0 120.3 At4g02390 828049 APP (ARABIDOPSIS POLY(ADP-RIBOSE) POLYMERASE) Encodes a DNA dependent nuclear poly (ADP-ribose) polymerase (E.C.2.4.2.30), thought to be involved in post-translational modification . O.I. C.G. H.G.
166.4 100.0 80.7 At1g36180 840522 ACC2 (ACETYL-COA CARBOXYLASE 2) acetyl-CoA carboxylase 2 (ACC2) O.I. C.G. H.G.
164.5 100.0 19.4 At4g25330 828636 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. C.G. H.G.
159.2 99.9 36.9 At1g44510 3767344 transposable element gene F:unknown;P:unknown;C:unknown O.I. C.G. H.G.
156.7 99.9 338.5 At2g01610 814690 invertase/pectin methylesterase inhibitor family protein F:enzyme inhibitor activity, pectinesterase inhibitor activity, pectinesterase activity;P:biological_process unknown;C:endomembrane system;P O.I. C.G. H.G.
153.2 99.9 42.8 At5g64060 836527 anac103 (Arabidopsis NAC domain containing protein 103) F:transcription factor activity;P:multicellular organismal development, regulation of transcription;C:cellular_component unknown;P O.I. C.G. H.G.
142.7 99.9 42.7 At3g61340 825306 F-box family protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO O.I. C.G. H.G.
141.8 99.9 156.7 At1g33940 840291 - F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMO O.I. C.G. H.G.
124.6 99.9 35.2 At4g01930 828198 DC1 domain-containing protein F:protein binding, zinc ion binding;P:intracellular signaling cascade;C:cellular_component unknown;PMO O.I. C.G. H.G.
123.4 99.9 61.1 At5g61740 836296 ATATH14 member of ATH subfamily O.I. C.G. H.G.
121.2 99.9 26.4 At3g61090 825281 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. C.G. H.G.
113.6 99.9 81.4 At4g22960 828395 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFOPB O.I. C.G. H.G.
112.9 99.9 192.6 At3g27400 822361 pectate lyase family protein F:pectate lyase activity;P:biological_process unknown;C:endomembrane system;BPFO O.I. C.G. H.G.
112.0 99.9 289.0 At2g10640 3767859 transposable element gene F:unknown;P:unknown;C:unknown O.I. C.G. H.G.
109.6 99.9 49.6 At5g20850 832208 ATRAD51 Encodes a homolog of yeast RAD51. Its mRNA is most abundant in early flower buds and is expressed at high levels in exponentially growing cells in suspension cultures and is induced in response to gamma radiation. O.I. C.G. H.G.
107.4 99.9 71.2 At2g15790 816074 SQN (SQUINT) SQN encodes the Arabidopsis homolog of cyclophilin 40 (CyP40). It is specifically required for the vegetative but not the reproductive maturation of the shoot. O.I. C.G. H.G.
107.2 99.9 92.7 At5g47950 834846 transferase family protein F:transferase activity, transferring acyl groups other than amino-acyl groups, transferase activity;P:biological_process unknown;C:cellular_component unknown;PFO O.I. C.G. H.G.
106.9 99.9 292.2 At3g30396 3769077 transposable element gene F:unknown;P:unknown;C:unknown O.I. C.G. H.G.
105.8 99.9 260.5 At2g12300 3768253 transposable element gene F:unknown;P:unknown;C:unknown O.I. C.G. H.G.
104.2 99.9 62.3 At4g21070 827854 ATBRCA1 Encodes AtBRCA1, an ortholog of the human breast cancer susceptibility gene 1. Contains one N-terminal RING finger, two C-terminal BRCT and the p300/CBP interacting domain. Strongly induced by gamma rays, consistent with a putative role in DNA repair and in cell cycle control. O.I. C.G. H.G.
98.7 99.9 74.5 At4g37490 829904 CYCB1 Cyclin-dependent protein kinase CYCB1;1. Functions as an effector of growth control at G2/M. Regulated by TCP20. O.I. C.G. H.G.
96.7 99.9 270.2 At2g12240 3768292 transposable element gene F:unknown;P:unknown;C:unknown O.I. C.G. H.G.
94.6 99.9 49.7 At5g43980 834421 PDLP1 (PLASMODESMATA-LOCATED PROTEIN 1) Encodes a plasmodesmal protein that affects the intercellular movement of molecules through the plasmodesmata. The cytoplasmic C-terminal portion of the protein is connected to the apoplastic N-terminal portion of the protein by a single transmembrane domain (TMD). It is transported to the plasmodesmata through the secretory pathway. PDLP1 has two DUF26 domains and a signal peptide, but the proper localization of the protein appears to depend on the TMD. O.I. C.G. H.G.
92.1 99.9 91.8 At5g13840 831230 FZR3 (FIZZY-RELATED 3) F:signal transducer activity;P:signal transduction;C:chloroplast, heterotrimeric G-protein complex;MFBOPA O.I. C.G. H.G.
88.5 99.9 57.4 At1g20350 838623 ATTIM17-1 mitochondrial inner membrane translocase O.I. C.G. H.G.
85.3 99.9 126.7 At2g20800 816609 NDB4 (NAD(P)H dehydrogenase B4) F:NADH dehydrogenase activity;P:unknown;C:extrinsic to mitochondrial inner membrane, mitochondrion, plastid;BOFPAM O.I. C.G. H.G.
84.2 99.9 25.6 At4g01920 828197 DC1 domain-containing protein F:unknown;P:intracellular signaling cascade;C:cellular_component unknown;PMO O.I. C.G. H.G.
83.3 99.9 43.5 At3g19350 821469 MPC (MATERNALLY EXPRESSED PAB C-TERMINAL) Encodes a the C-terminal domain of poly(A) binding proteins. MPC is imprinted such that only the maternal allele is expressed in the endosperm. MPC is silenced by the action of MET1 and its expression is promoted by DEM. O.I. C.G. H.G.
81.2 99.9 14.9 At5g03360 831864 DC1 domain-containing protein F:unknown;P:unknown;C:cellular_component unknown;PBOVMA O.I. C.G. H.G.
81.0 99.9 26.7 At3g48770 824038 ATP binding / DNA binding F:DNA binding, ATP binding;P:biological_process unknown;C:chloroplast;PMBOFA O.I. C.G. H.G.
79.4 99.9 166.8 At2g15690 816062 pentatricopeptide (PPR) repeat-containing protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMOFBVA O.I. C.G. H.G.
78.5 99.9 11.6 At3g17260 3768760 transposable element gene F:unknown;P:unknown;C:unknown O.I. C.G. H.G.
77.4 99.9 153.8 At1g71380 843479 ATCEL3 (ARABIDOPSIS THALIANA CELLULASE 3) F:hydrolase activity, hydrolyzing O-glycosyl compounds, catalytic activity;P:carbohydrate metabolic process;C:cell wall, plasma membrane, plant-type cell wall;PBMOF O.I. C.G. H.G.
77.3 99.9 86.7 At5g48720 834930 XRI1 (X-RAY INDUCED TRANSCRIPT 1) Encodes XRI1 (X-ray induced 1). Required for post-meiotic stages of pollen development and male and female meiosis. Maybe required for meiotic DNA repair. Inducible by X-ray. Homozygous xri1 mutants are sterile due to extensive chromosome fragmentation. O.I. C.G. H.G.
76.1 99.9 235.9 At3g07800 819971 thymidine kinase, putative F:thymidine kinase activity, ATP binding;P:pyrimidine deoxyribonucleoside interconversion, anaerobic respiration;C:cellular_component unknown;BOVMPAF O.I. C.G. H.G.
74.0 99.9 115.0 At1g69770 843313 CMT3 (chromomethylase 3) Encodes a chromomethylase involved in methylating cytosine residues at non-CG sites. Involved in preferentially methylating transposon-related sequences, reducing their mobility. CMT3 interacts with an Arabidopsis homologue of HP1 (heterochromatin protein 1), which in turn interacts with methylated histones. Involved in gene silencing. O.I. C.G. H.G.
74.0 99.9 49.9 At4g00930 827980 CIP4.1 Encodes COP1-interacting protein CIP4.1. O.I. C.G. H.G.
73.6 99.9 20.5 At5g03090 831803 unknown protein F:molecular_function unknown;P:response to jasmonic acid stimulus;C:cellular_component unknown;P O.I. C.G. H.G.
73.4 99.9 82.2 At1g60030 842297 xanthine/uracil permease family protein F:transmembrane transporter activity;P:transport;C:plasma membrane, membrane;BOMPFAV O.I. C.G. H.G.
69.7 99.9 168.4 At5g43330 834351 malate dehydrogenase, cytosolic, putative F:in 6 functions;P:cellular carbohydrate metabolic process, glycolysis, malate metabolic process, carbohydrate metabolic process, metabolic process;C:plasma membrane;BOMPFA O.I. C.G. H.G.
68.7 99.9 38.0 At1g23790 838990 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMFBO O.I. C.G. H.G.
67.6 99.9 66.6 At3g11520 820325 CYCB1 Encodes a B-type mitotic cyclin. O.I. C.G. H.G.
67.1 99.8 70.3 At2g01640 814693 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POF O.I. C.G. H.G.
66.6 99.8 70.9 At1g33450 840238 transposable element gene F:unknown;P:unknown;C:unknown O.I. C.G. H.G.
66.0 99.8 45.6 At5g38300 833812 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPO O.I. C.G. H.G.
65.3 99.8 55.9 At5g53830 835464 VQ motif-containing protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POFBM O.I. C.G. H.G.
64.3 99.8 24.4 At4g34320 829582 unknown protein F:molecular_function unknown;P:N-terminal protein myristoylation;C:cellular_component unknown;PBOM O.I. C.G. H.G.
62.7 99.8 33.5 At5g61690 836291 ATATH15 member of ATH subfamily O.I. C.G. H.G.
62.2 99.8 59.0 At2g47680 819381 zinc finger (CCCH type) helicase family protein F:helicase activity, zinc ion binding, nucleic acid binding, ATP binding;P:nucleobase, nucleoside, nucleotide and nucleic acid metabolic process;C:chloroplast;MBOFPV O.I. C.G. H.G.
61.8 99.8 144.4 At1g19850 838573 MP (MONOPTEROS) Encodes a transcription factor (IAA24) mediating embryo axis formation and vascular development. Similar to AUXIN RESPONSIVE FACTOR 1 (ARF1) shown to bind to auxin responsive elements (AREs), and to the maize transcriptional activator VIVIPAROUS 1( VP1). In situ hybridization shows expression in provascular tissue of embryos, the emerging shoot primordia, then is restricted to provascular tissue, and in the root central vascular cylinder. O.I. C.G. H.G.
61.7 99.8 149.0 At2g02560 814786 CAND1 (CULLIN-ASSOCIATED AND NEDDYLATION DISSOCIATED) Arabidopsis thaliana homolog of human CAND1 (cullin-associated and neddylation-dissociated). Putative similarity to TBP-interacting protein TIP120. Ubiquitously expressed in plant tissues throughout development. T-DNA insertion mutant plants were completely sterile and resistant to sirtinol and auxin, but not to gibberellins or brassinolide. Displayed developmental phenotypes similar to those of axr1, namely, short petioles, downwardly curling leaves, shorter inflorescence. Required for SCF function and appears to modulate SCF complex cycling. Physically interacts with CUL1. O.I. C.G. H.G.
61.2 99.8 29.8 At2g02020 814733 proton-dependent oligopeptide transport (POT) family protein F:transporter activity;P:oligopeptide transport;C:membrane;BPMOF O.I. C.G. H.G.
60.4 99.8 42.3 At4g01860 827918 transducin family protein / WD-40 repeat family protein F:nucleotide binding;P:biological_process unknown;C:CUL4 RING ubiquitin ligase complex;MBFOPA O.I. C.G. H.G.
60.1 99.8 38.9 At1g22090 838814 emb2204 (embryo defective 2204) F:molecular_function unknown;P:embryonic development ending in seed dormancy;C:cellular_component unknown;P O.I. C.G. H.G.
57.8 99.8 115.0 At2g16570 816156 ATASE1 (GLN PHOSPHORIBOSYL PYROPHOSPHATE AMIDOTRANSFERASE 1) Amidophosphoribosyltransferase (ATase: EC 2.4.2.14) is a key enzyme in the pathway of purine nucleotide biosynthesis O.I. C.G. H.G.
57.5 99.8 272.2 At2g44450 819052 BGLU15 (BETA GLUCOSIDASE 15) F:cation binding, hydrolase activity, hydrolyzing O-glycosyl compounds, catalytic activity;P:carbohydrate metabolic process;C:cell wall, plant-type cell wall;BOPMFA O.I. C.G. H.G.
55.8 99.8 92.5 At2g17820 816291 ATHK1 (histidine kinase 1) Encodes a member of the histidine kinase family. O.I. C.G. H.G.
55.6 99.8 142.4 At2g04000 814926 transposable element gene F:unknown;P:unknown;C:unknown O.I. C.G. H.G.
55.6 99.8 98.8 At1g23410 838949 ubiquitin extension protein, putative / 40S ribosomal protein S27A (RPS27aA) F:protein binding, structural constituent of ribosome;P:protein ubiquitination during ubiquitin-dependent protein catabolic process, protein modification process, translation;C:cytosolic small ribosomal subunit, plasma membrane;MPOFVAB O.I. C.G. H.G.
55.5 99.8 23.1 At5g03780 831726 TRFL10 (TRF-LIKE 10) Encodes a protein whose sequence is similar to human telomere proteins. This belongs to TRFL family 2, which do not show DNA binding in vitro. O.I. C.G. H.G.
54.9 99.8 15.5 At1g53020 841735 UBC26 (UBIQUITIN-CONJUGATING ENZYME 26) F:ubiquitin-protein ligase activity;P:regulation of protein metabolic process, post-translational protein modification;C:unknown;MFPOV O.I. C.G. H.G.
53.2 99.8 59.8 At1g44130 841016 nucellin protein, putative F:aspartic-type endopeptidase activity;P:proteolysis;C:plant-type cell wall;POMF O.I. C.G. H.G.
52.6 99.8 165.3 At2g28510 817399 Dof-type zinc finger domain-containing protein F:transcription factor activity, DNA binding;P:regulation of transcription;C:nucleolus;POMFB O.I. C.G. H.G.
52.2 99.8 205.2 At5g46700 834713 TRN2 (TORNADO 2) Encodes a transmembrane protein of the tetraspanin (TET) family, one of 17 members found in Arabidopsis. Double mutant analysis showed that TRN1 and TRN2 act in the same pathway. Required for the maintenance of both the radial pattern of tissue differentiation in the root and for the subsequent circumferential pattern within the epidermis. O.I. C.G. H.G.
51.4 99.8 98.3 At1g33410 840234 SAR1 (suppressor of auxin resistance1) F:unknown;P:response to auxin stimulus, mRNA export from nucleus, developmental process;C:nuclear membrane;MPFO O.I. C.G. H.G.
51.3 99.8 18.8 At3g30360 822737 transposable element gene F:unknown;P:unknown;C:unknown O.I. C.G. H.G.
50.6 99.8 94.3 At1g36240 840530 60S ribosomal protein L30 (RPL30A) F:structural constituent of ribosome;P:translation;C:cytosolic large ribosomal subunit;MOAFPB O.I. C.G. H.G.
50.3 99.8 109.1 At5g42970 834312 COP8 (CONSTITUTIVE PHOTOMORPHOGENIC 8) encodes subunit 4 of COP9 signalosome complex. sequence is similar to a subunit of the 19S regulatory particle of the 26S proteasome. recessive mutation causes derepression of photomorphogenesis. O.I. C.G. H.G.
50.1 99.8 53.9 At1g23550 838965 SRO2 (SIMILAR TO RCD ONE 2) Encodes a protein with similarity to RCD1 but without the WWE domain. The protein does have a PARP signature upstream of the C-terminal protein interaction domain. The PARP signature may bind NAD+ and attach the ADP-ribose-moiety from NAD+ to the target molecule. Its presence suggests a role for the protein in ADP ribosylation. O.I. C.G. H.G.
49.1 99.8 35.2 At1g20370 838625 tRNA pseudouridine synthase family protein F:pseudouridine synthase activity;P:tRNA processing, pseudouridine synthesis;C:cellular_component unknown;BOMFAP O.I. C.G. H.G.
48.9 99.8 42.4 At1g79610 844299 sodium proton exchanger, putative (NHX6) F:solute:hydrogen antiporter activity, sodium:hydrogen antiporter activity;P:cation transport, sodium ion transport, regulation of pH;C:integral to membrane;BMOPFA O.I. C.G. H.G.
48.5 99.8 33.4 At4g29770 829099 - Target of trans acting-siR480/255. O.I. C.G. H.G.
48.2 99.8 18.4 At1g22980 838905 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PM O.I. C.G. H.G.
47.5 99.8 38.2 At3g16980 820954 NRPB9A One of two highly similar, non-catalytic subunits common to nuclear DNA-directed RNA polymerases II, IV and V; homologous to budding yeast RPB9. Appears to be redundant with At4g16265 O.I. C.G. H.G.
47.4 99.8 42.0 At4g01880 828223 methyltransferase F:methyltransferase activity;P:tRNA processing;C:unknown;MOFPAB O.I. C.G. H.G.
47.0 99.8 53.9 At5g51480 835222 SKS2 (SKU5 SIMILAR 2) F:oxidoreductase activity, copper ion binding;P:unknown;C:anchored to plasma membrane, plasma membrane, anchored to membrane;FBPMOA O.I. C.G. H.G.
47.0 99.8 30.3 At2g45460 819154 forkhead-associated domain-containing protein / FHA domain-containing protein F:transcription factor activity;P:regulation of transcription, DNA-dependent;C:chloroplast;MOBFPAV O.I. C.G. H.G.
46.4 99.8 25.9 At5g40840 834084 SYN2 Cohesion family protein SYN2 (SYN2). O.I. C.G. H.G.
46.3 99.8 45.3 At5g24280 832495 - F:unknown;P:unknown;C:unknown;PMOBF O.I. C.G. H.G.
45.7 99.8 88.0 At2g02860 814817 SUT2 (SUCROSE TRANSPORTER 2) encodes a sucrose transporter in sieve elements and a number of sink tissues and cell types. Gene expression is induced by wounding. O.I. C.G. H.G.
45.6 99.8 22.5 At1g34355 840337 forkhead-associated domain-containing protein / FHA domain-containing protein F:unknown;P:biological_process unknown;C:cellular_component unknown;MBOFPAV O.I. C.G. H.G.
45.5 99.8 126.9 At1g50490 841471 UBC20 (ubiquitin-conjugating enzyme 20) Encodes one of two ubiquitin-conjugating enzymes belonging to the E2-C gene family (the other being UBC19). Transcript is always found in diving cells, but also in other non-dividing cells. O.I. C.G. H.G.
44.6 99.8 59.8 At2g42710 818871 ribosomal protein L1 family protein F:structural constituent of ribosome, RNA binding;P:translation, RNA processing;C:ribosome, intracellular, large ribosomal subunit;BOMFPAV O.I. C.G. H.G.
44.2 99.8 31.5 At5g02220 831792 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. C.G. H.G.
44.0 99.8 83.1 At2g16440 816142 DNA replication licensing factor, putative F:nucleoside-triphosphatase activity, DNA-dependent ATPase activity, DNA binding, nucleotide binding, ATP binding;P:DNA replication initiation, DNA replication;C:nucleus, chloroplast;MOFPBAV O.I. C.G. H.G.
43.7 99.8 294.2 At5g13490 831193 AAC2 (ADP/ATP carrier 2) Encodes mitochondrial ADP/ATP carrier O.I. C.G. H.G.
42.1 99.8 54.2 At3g18610 821392 ATRANGAP1 (RAN GTPASE-ACTIVATING PROTEIN 1) F:nucleotide binding, nucleic acid binding;P:unknown;C:unknown;MOFBPVA O.I. C.G. H.G.
41.8 99.8 22.8 At2g01740 814704 pentatricopeptide (PPR) repeat-containing protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POMFBA O.I. C.G. H.G.
41.7 99.8 19.1 At5g58610 835975 PHD finger transcription factor, putative F:protein binding, RNA binding, DNA binding, zinc ion binding, N-acetyltransferase activity;P:N-terminal protein myristoylation, response to chitin, regulation of transcription, DNA-dependent;C:endomembrane system, nucleus;MPFO O.I. C.G. H.G.
41.5 99.8 109.4 At1g03820 839400 unknown protein F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;OPFMB O.I. C.G. H.G.
41.3 99.8 103.5 At3g16810 820934 APUM24 (Arabidopsis Pumilio 24) F:RNA binding, binding;P:unknown;C:nucleolus;MFPOB O.I. C.G. H.G.
41.0 99.8 263.8 At1g51510 841576 Y14 This gene is predicted to encode a protein involved in the exon junction complex. Though there is a predicted RNA binding motif, in the Drosophila ortholog (33% identity), this motif mediates interactions with Mago and is not available for RNA binding. The Arabidopsis Y14 protein appears to be predominantly nucleolar, but there is also some evidence for its presence in the cytoplasm. O.I. C.G. H.G.
40.7 99.8 22.4 At5g15380 831390 DRM1 (domains rearranged methylase 1) Encodes methyltransferase involved in the de novo DNA methylation and maintenance of asymmetric methylation of DNA sequences. O.I. C.G. H.G.
40.4 99.8 73.4 At1g68360 843165 zinc finger protein-related F:transcription factor activity;P:regulation of transcription;C:intracellular;PMO O.I. C.G. H.G.
40.0 99.8 89.5 At2g47260 819339 WRKY23 member of WRKY Transcription Factor; Group I O.I. C.G. H.G.
40.0 99.8 18.7 At4g35370 829690 nucleotide binding F:nucleotide binding;P:biological_process unknown;C:cellular_component unknown;MFOBPA O.I. C.G. H.G.

Std2 GX	%ile	Std GX	Gene ID	Repr. ID	Gene name	Functional description	O.I.	C.G.	H.G.
275.7	100.0	85.6	At4g01970	828186	AtSTS (Arabidopsis thaliana stachyose synthase)	Encodes a putative stachyose synthetase.	O.I.	C.G.	H.G.
247.1	100.0	99.9	At1g59660	842256	nucleoporin family protein	F:transporter activity;P:transport;C:chloroplast, nuclear pore;MBOFPVA	O.I.	C.G.	H.G.
193.5	100.0	56.8	At3g42725	823305	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P	O.I.	C.G.	H.G.
182.6	100.0	104.9	At1g51380	841562	eukaryotic translation initiation factor 4A, putative / eIF-4A, putative	F:helicase activity, ATP binding, ATP-dependent helicase activity, nucleic acid binding;P:unknown;C:cellular_component unknown;BOMFPAV	O.I.	C.G.	H.G.
179.0	100.0	120.3	At4g02390	828049	APP (ARABIDOPSIS POLY(ADP-RIBOSE) POLYMERASE)	Encodes a DNA dependent nuclear poly (ADP-ribose) polymerase (E.C.2.4.2.30), thought to be involved in post-translational modification .	O.I.	C.G.	H.G.
166.4	100.0	80.7	At1g36180	840522	ACC2 (ACETYL-COA CARBOXYLASE 2)	acetyl-CoA carboxylase 2 (ACC2)	O.I.	C.G.	H.G.
164.5	100.0	19.4	At4g25330	828636	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	C.G.	H.G.
159.2	99.9	36.9	At1g44510	3767344	transposable element gene	F:unknown;P:unknown;C:unknown	O.I.	C.G.	H.G.
156.7	99.9	338.5	At2g01610	814690	invertase/pectin methylesterase inhibitor family protein	F:enzyme inhibitor activity, pectinesterase inhibitor activity, pectinesterase activity;P:biological_process unknown;C:endomembrane system;P	O.I.	C.G.	H.G.
153.2	99.9	42.8	At5g64060	836527	anac103 (Arabidopsis NAC domain containing protein 103)	F:transcription factor activity;P:multicellular organismal development, regulation of transcription;C:cellular_component unknown;P	O.I.	C.G.	H.G.
142.7	99.9	42.7	At3g61340	825306	F-box family protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO	O.I.	C.G.	H.G.
141.8	99.9	156.7	At1g33940	840291	-	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMO	O.I.	C.G.	H.G.
124.6	99.9	35.2	At4g01930	828198	DC1 domain-containing protein	F:protein binding, zinc ion binding;P:intracellular signaling cascade;C:cellular_component unknown;PMO	O.I.	C.G.	H.G.
123.4	99.9	61.1	At5g61740	836296	ATATH14	member of ATH subfamily	O.I.	C.G.	H.G.
121.2	99.9	26.4	At3g61090	825281	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	C.G.	H.G.
113.6	99.9	81.4	At4g22960	828395	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFOPB	O.I.	C.G.	H.G.
112.9	99.9	192.6	At3g27400	822361	pectate lyase family protein	F:pectate lyase activity;P:biological_process unknown;C:endomembrane system;BPFO	O.I.	C.G.	H.G.
112.0	99.9	289.0	At2g10640	3767859	transposable element gene	F:unknown;P:unknown;C:unknown	O.I.	C.G.	H.G.
109.6	99.9	49.6	At5g20850	832208	ATRAD51	Encodes a homolog of yeast RAD51. Its mRNA is most abundant in early flower buds and is expressed at high levels in exponentially growing cells in suspension cultures and is induced in response to gamma radiation.	O.I.	C.G.	H.G.
107.4	99.9	71.2	At2g15790	816074	SQN (SQUINT)	SQN encodes the Arabidopsis homolog of cyclophilin 40 (CyP40). It is specifically required for the vegetative but not the reproductive maturation of the shoot.	O.I.	C.G.	H.G.
107.2	99.9	92.7	At5g47950	834846	transferase family protein	F:transferase activity, transferring acyl groups other than amino-acyl groups, transferase activity;P:biological_process unknown;C:cellular_component unknown;PFO	O.I.	C.G.	H.G.
106.9	99.9	292.2	At3g30396	3769077	transposable element gene	F:unknown;P:unknown;C:unknown	O.I.	C.G.	H.G.
105.8	99.9	260.5	At2g12300	3768253	transposable element gene	F:unknown;P:unknown;C:unknown	O.I.	C.G.	H.G.
104.2	99.9	62.3	At4g21070	827854	ATBRCA1	Encodes AtBRCA1, an ortholog of the human breast cancer susceptibility gene 1. Contains one N-terminal RING finger, two C-terminal BRCT and the p300/CBP interacting domain. Strongly induced by gamma rays, consistent with a putative role in DNA repair and in cell cycle control.	O.I.	C.G.	H.G.
98.7	99.9	74.5	At4g37490	829904	CYCB1	Cyclin-dependent protein kinase CYCB1;1. Functions as an effector of growth control at G2/M. Regulated by TCP20.	O.I.	C.G.	H.G.
96.7	99.9	270.2	At2g12240	3768292	transposable element gene	F:unknown;P:unknown;C:unknown	O.I.	C.G.	H.G.
94.6	99.9	49.7	At5g43980	834421	PDLP1 (PLASMODESMATA-LOCATED PROTEIN 1)	Encodes a plasmodesmal protein that affects the intercellular movement of molecules through the plasmodesmata. The cytoplasmic C-terminal portion of the protein is connected to the apoplastic N-terminal portion of the protein by a single transmembrane domain (TMD). It is transported to the plasmodesmata through the secretory pathway. PDLP1 has two DUF26 domains and a signal peptide, but the proper localization of the protein appears to depend on the TMD.	O.I.	C.G.	H.G.
92.1	99.9	91.8	At5g13840	831230	FZR3 (FIZZY-RELATED 3)	F:signal transducer activity;P:signal transduction;C:chloroplast, heterotrimeric G-protein complex;MFBOPA	O.I.	C.G.	H.G.
88.5	99.9	57.4	At1g20350	838623	ATTIM17-1	mitochondrial inner membrane translocase	O.I.	C.G.	H.G.
85.3	99.9	126.7	At2g20800	816609	NDB4 (NAD(P)H dehydrogenase B4)	F:NADH dehydrogenase activity;P:unknown;C:extrinsic to mitochondrial inner membrane, mitochondrion, plastid;BOFPAM	O.I.	C.G.	H.G.
84.2	99.9	25.6	At4g01920	828197	DC1 domain-containing protein	F:unknown;P:intracellular signaling cascade;C:cellular_component unknown;PMO	O.I.	C.G.	H.G.
83.3	99.9	43.5	At3g19350	821469	MPC (MATERNALLY EXPRESSED PAB C-TERMINAL)	Encodes a the C-terminal domain of poly(A) binding proteins. MPC is imprinted such that only the maternal allele is expressed in the endosperm. MPC is silenced by the action of MET1 and its expression is promoted by DEM.	O.I.	C.G.	H.G.
81.2	99.9	14.9	At5g03360	831864	DC1 domain-containing protein	F:unknown;P:unknown;C:cellular_component unknown;PBOVMA	O.I.	C.G.	H.G.
81.0	99.9	26.7	At3g48770	824038	ATP binding / DNA binding	F:DNA binding, ATP binding;P:biological_process unknown;C:chloroplast;PMBOFA	O.I.	C.G.	H.G.
79.4	99.9	166.8	At2g15690	816062	pentatricopeptide (PPR) repeat-containing protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMOFBVA	O.I.	C.G.	H.G.
78.5	99.9	11.6	At3g17260	3768760	transposable element gene	F:unknown;P:unknown;C:unknown	O.I.	C.G.	H.G.
77.4	99.9	153.8	At1g71380	843479	ATCEL3 (ARABIDOPSIS THALIANA CELLULASE 3)	F:hydrolase activity, hydrolyzing O-glycosyl compounds, catalytic activity;P:carbohydrate metabolic process;C:cell wall, plasma membrane, plant-type cell wall;PBMOF	O.I.	C.G.	H.G.
77.3	99.9	86.7	At5g48720	834930	XRI1 (X-RAY INDUCED TRANSCRIPT 1)	Encodes XRI1 (X-ray induced 1). Required for post-meiotic stages of pollen development and male and female meiosis. Maybe required for meiotic DNA repair. Inducible by X-ray. Homozygous xri1 mutants are sterile due to extensive chromosome fragmentation.	O.I.	C.G.	H.G.
76.1	99.9	235.9	At3g07800	819971	thymidine kinase, putative	F:thymidine kinase activity, ATP binding;P:pyrimidine deoxyribonucleoside interconversion, anaerobic respiration;C:cellular_component unknown;BOVMPAF	O.I.	C.G.	H.G.
74.0	99.9	115.0	At1g69770	843313	CMT3 (chromomethylase 3)	Encodes a chromomethylase involved in methylating cytosine residues at non-CG sites. Involved in preferentially methylating transposon-related sequences, reducing their mobility. CMT3 interacts with an Arabidopsis homologue of HP1 (heterochromatin protein 1), which in turn interacts with methylated histones. Involved in gene silencing.	O.I.	C.G.	H.G.
74.0	99.9	49.9	At4g00930	827980	CIP4.1	Encodes COP1-interacting protein CIP4.1.	O.I.	C.G.	H.G.
73.6	99.9	20.5	At5g03090	831803	unknown protein	F:molecular_function unknown;P:response to jasmonic acid stimulus;C:cellular_component unknown;P	O.I.	C.G.	H.G.
73.4	99.9	82.2	At1g60030	842297	xanthine/uracil permease family protein	F:transmembrane transporter activity;P:transport;C:plasma membrane, membrane;BOMPFAV	O.I.	C.G.	H.G.
69.7	99.9	168.4	At5g43330	834351	malate dehydrogenase, cytosolic, putative	F:in 6 functions;P:cellular carbohydrate metabolic process, glycolysis, malate metabolic process, carbohydrate metabolic process, metabolic process;C:plasma membrane;BOMPFA	O.I.	C.G.	H.G.
68.7	99.9	38.0	At1g23790	838990	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMFBO	O.I.	C.G.	H.G.
67.6	99.9	66.6	At3g11520	820325	CYCB1	Encodes a B-type mitotic cyclin.	O.I.	C.G.	H.G.
67.1	99.8	70.3	At2g01640	814693	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POF	O.I.	C.G.	H.G.
66.6	99.8	70.9	At1g33450	840238	transposable element gene	F:unknown;P:unknown;C:unknown	O.I.	C.G.	H.G.
66.0	99.8	45.6	At5g38300	833812	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPO	O.I.	C.G.	H.G.
65.3	99.8	55.9	At5g53830	835464	VQ motif-containing protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POFBM	O.I.	C.G.	H.G.
64.3	99.8	24.4	At4g34320	829582	unknown protein	F:molecular_function unknown;P:N-terminal protein myristoylation;C:cellular_component unknown;PBOM	O.I.	C.G.	H.G.
62.7	99.8	33.5	At5g61690	836291	ATATH15	member of ATH subfamily	O.I.	C.G.	H.G.
62.2	99.8	59.0	At2g47680	819381	zinc finger (CCCH type) helicase family protein	F:helicase activity, zinc ion binding, nucleic acid binding, ATP binding;P:nucleobase, nucleoside, nucleotide and nucleic acid metabolic process;C:chloroplast;MBOFPV	O.I.	C.G.	H.G.
61.8	99.8	144.4	At1g19850	838573	MP (MONOPTEROS)	Encodes a transcription factor (IAA24) mediating embryo axis formation and vascular development. Similar to AUXIN RESPONSIVE FACTOR 1 (ARF1) shown to bind to auxin responsive elements (AREs), and to the maize transcriptional activator VIVIPAROUS 1( VP1). In situ hybridization shows expression in provascular tissue of embryos, the emerging shoot primordia, then is restricted to provascular tissue, and in the root central vascular cylinder.	O.I.	C.G.	H.G.
61.7	99.8	149.0	At2g02560	814786	CAND1 (CULLIN-ASSOCIATED AND NEDDYLATION DISSOCIATED)	Arabidopsis thaliana homolog of human CAND1 (cullin-associated and neddylation-dissociated). Putative similarity to TBP-interacting protein TIP120. Ubiquitously expressed in plant tissues throughout development. T-DNA insertion mutant plants were completely sterile and resistant to sirtinol and auxin, but not to gibberellins or brassinolide. Displayed developmental phenotypes similar to those of axr1, namely, short petioles, downwardly curling leaves, shorter inflorescence. Required for SCF function and appears to modulate SCF complex cycling. Physically interacts with CUL1.	O.I.	C.G.	H.G.
61.2	99.8	29.8	At2g02020	814733	proton-dependent oligopeptide transport (POT) family protein	F:transporter activity;P:oligopeptide transport;C:membrane;BPMOF	O.I.	C.G.	H.G.
60.4	99.8	42.3	At4g01860	827918	transducin family protein / WD-40 repeat family protein	F:nucleotide binding;P:biological_process unknown;C:CUL4 RING ubiquitin ligase complex;MBFOPA	O.I.	C.G.	H.G.
60.1	99.8	38.9	At1g22090	838814	emb2204 (embryo defective 2204)	F:molecular_function unknown;P:embryonic development ending in seed dormancy;C:cellular_component unknown;P	O.I.	C.G.	H.G.
57.8	99.8	115.0	At2g16570	816156	ATASE1 (GLN PHOSPHORIBOSYL PYROPHOSPHATE AMIDOTRANSFERASE 1)	Amidophosphoribosyltransferase (ATase: EC 2.4.2.14) is a key enzyme in the pathway of purine nucleotide biosynthesis	O.I.	C.G.	H.G.
57.5	99.8	272.2	At2g44450	819052	BGLU15 (BETA GLUCOSIDASE 15)	F:cation binding, hydrolase activity, hydrolyzing O-glycosyl compounds, catalytic activity;P:carbohydrate metabolic process;C:cell wall, plant-type cell wall;BOPMFA	O.I.	C.G.	H.G.
55.8	99.8	92.5	At2g17820	816291	ATHK1 (histidine kinase 1)	Encodes a member of the histidine kinase family.	O.I.	C.G.	H.G.
55.6	99.8	142.4	At2g04000	814926	transposable element gene	F:unknown;P:unknown;C:unknown	O.I.	C.G.	H.G.
55.6	99.8	98.8	At1g23410	838949	ubiquitin extension protein, putative / 40S ribosomal protein S27A (RPS27aA)	F:protein binding, structural constituent of ribosome;P:protein ubiquitination during ubiquitin-dependent protein catabolic process, protein modification process, translation;C:cytosolic small ribosomal subunit, plasma membrane;MPOFVAB	O.I.	C.G.	H.G.
55.5	99.8	23.1	At5g03780	831726	TRFL10 (TRF-LIKE 10)	Encodes a protein whose sequence is similar to human telomere proteins. This belongs to TRFL family 2, which do not show DNA binding in vitro.	O.I.	C.G.	H.G.
54.9	99.8	15.5	At1g53020	841735	UBC26 (UBIQUITIN-CONJUGATING ENZYME 26)	F:ubiquitin-protein ligase activity;P:regulation of protein metabolic process, post-translational protein modification;C:unknown;MFPOV	O.I.	C.G.	H.G.
53.2	99.8	59.8	At1g44130	841016	nucellin protein, putative	F:aspartic-type endopeptidase activity;P:proteolysis;C:plant-type cell wall;POMF	O.I.	C.G.	H.G.
52.6	99.8	165.3	At2g28510	817399	Dof-type zinc finger domain-containing protein	F:transcription factor activity, DNA binding;P:regulation of transcription;C:nucleolus;POMFB	O.I.	C.G.	H.G.
52.2	99.8	205.2	At5g46700	834713	TRN2 (TORNADO 2)	Encodes a transmembrane protein of the tetraspanin (TET) family, one of 17 members found in Arabidopsis. Double mutant analysis showed that TRN1 and TRN2 act in the same pathway. Required for the maintenance of both the radial pattern of tissue differentiation in the root and for the subsequent circumferential pattern within the epidermis.	O.I.	C.G.	H.G.
51.4	99.8	98.3	At1g33410	840234	SAR1 (suppressor of auxin resistance1)	F:unknown;P:response to auxin stimulus, mRNA export from nucleus, developmental process;C:nuclear membrane;MPFO	O.I.	C.G.	H.G.
51.3	99.8	18.8	At3g30360	822737	transposable element gene	F:unknown;P:unknown;C:unknown	O.I.	C.G.	H.G.
50.6	99.8	94.3	At1g36240	840530	60S ribosomal protein L30 (RPL30A)	F:structural constituent of ribosome;P:translation;C:cytosolic large ribosomal subunit;MOAFPB	O.I.	C.G.	H.G.
50.3	99.8	109.1	At5g42970	834312	COP8 (CONSTITUTIVE PHOTOMORPHOGENIC 8)	encodes subunit 4 of COP9 signalosome complex. sequence is similar to a subunit of the 19S regulatory particle of the 26S proteasome. recessive mutation causes derepression of photomorphogenesis.	O.I.	C.G.	H.G.
50.1	99.8	53.9	At1g23550	838965	SRO2 (SIMILAR TO RCD ONE 2)	Encodes a protein with similarity to RCD1 but without the WWE domain. The protein does have a PARP signature upstream of the C-terminal protein interaction domain. The PARP signature may bind NAD+ and attach the ADP-ribose-moiety from NAD+ to the target molecule. Its presence suggests a role for the protein in ADP ribosylation.	O.I.	C.G.	H.G.
49.1	99.8	35.2	At1g20370	838625	tRNA pseudouridine synthase family protein	F:pseudouridine synthase activity;P:tRNA processing, pseudouridine synthesis;C:cellular_component unknown;BOMFAP	O.I.	C.G.	H.G.
48.9	99.8	42.4	At1g79610	844299	sodium proton exchanger, putative (NHX6)	F:solute:hydrogen antiporter activity, sodium:hydrogen antiporter activity;P:cation transport, sodium ion transport, regulation of pH;C:integral to membrane;BMOPFA	O.I.	C.G.	H.G.
48.5	99.8	33.4	At4g29770	829099	-	Target of trans acting-siR480/255.	O.I.	C.G.	H.G.
48.2	99.8	18.4	At1g22980	838905	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PM	O.I.	C.G.	H.G.
47.5	99.8	38.2	At3g16980	820954	NRPB9A	One of two highly similar, non-catalytic subunits common to nuclear DNA-directed RNA polymerases II, IV and V; homologous to budding yeast RPB9. Appears to be redundant with At4g16265	O.I.	C.G.	H.G.
47.4	99.8	42.0	At4g01880	828223	methyltransferase	F:methyltransferase activity;P:tRNA processing;C:unknown;MOFPAB	O.I.	C.G.	H.G.
47.0	99.8	53.9	At5g51480	835222	SKS2 (SKU5 SIMILAR 2)	F:oxidoreductase activity, copper ion binding;P:unknown;C:anchored to plasma membrane, plasma membrane, anchored to membrane;FBPMOA	O.I.	C.G.	H.G.
47.0	99.8	30.3	At2g45460	819154	forkhead-associated domain-containing protein / FHA domain-containing protein	F:transcription factor activity;P:regulation of transcription, DNA-dependent;C:chloroplast;MOBFPAV	O.I.	C.G.	H.G.
46.4	99.8	25.9	At5g40840	834084	SYN2	Cohesion family protein SYN2 (SYN2).	O.I.	C.G.	H.G.
46.3	99.8	45.3	At5g24280	832495	-	F:unknown;P:unknown;C:unknown;PMOBF	O.I.	C.G.	H.G.
45.7	99.8	88.0	At2g02860	814817	SUT2 (SUCROSE TRANSPORTER 2)	encodes a sucrose transporter in sieve elements and a number of sink tissues and cell types. Gene expression is induced by wounding.	O.I.	C.G.	H.G.
45.6	99.8	22.5	At1g34355	840337	forkhead-associated domain-containing protein / FHA domain-containing protein	F:unknown;P:biological_process unknown;C:cellular_component unknown;MBOFPAV	O.I.	C.G.	H.G.
45.5	99.8	126.9	At1g50490	841471	UBC20 (ubiquitin-conjugating enzyme 20)	Encodes one of two ubiquitin-conjugating enzymes belonging to the E2-C gene family (the other being UBC19). Transcript is always found in diving cells, but also in other non-dividing cells.	O.I.	C.G.	H.G.
44.6	99.8	59.8	At2g42710	818871	ribosomal protein L1 family protein	F:structural constituent of ribosome, RNA binding;P:translation, RNA processing;C:ribosome, intracellular, large ribosomal subunit;BOMFPAV	O.I.	C.G.	H.G.
44.2	99.8	31.5	At5g02220	831792	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	C.G.	H.G.
44.0	99.8	83.1	At2g16440	816142	DNA replication licensing factor, putative	F:nucleoside-triphosphatase activity, DNA-dependent ATPase activity, DNA binding, nucleotide binding, ATP binding;P:DNA replication initiation, DNA replication;C:nucleus, chloroplast;MOFPBAV	O.I.	C.G.	H.G.
43.7	99.8	294.2	At5g13490	831193	AAC2 (ADP/ATP carrier 2)	Encodes mitochondrial ADP/ATP carrier	O.I.	C.G.	H.G.
42.1	99.8	54.2	At3g18610	821392	ATRANGAP1 (RAN GTPASE-ACTIVATING PROTEIN 1)	F:nucleotide binding, nucleic acid binding;P:unknown;C:unknown;MOFBPVA	O.I.	C.G.	H.G.
41.8	99.8	22.8	At2g01740	814704	pentatricopeptide (PPR) repeat-containing protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POMFBA	O.I.	C.G.	H.G.
41.7	99.8	19.1	At5g58610	835975	PHD finger transcription factor, putative	F:protein binding, RNA binding, DNA binding, zinc ion binding, N-acetyltransferase activity;P:N-terminal protein myristoylation, response to chitin, regulation of transcription, DNA-dependent;C:endomembrane system, nucleus;MPFO	O.I.	C.G.	H.G.
41.5	99.8	109.4	At1g03820	839400	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;OPFMB	O.I.	C.G.	H.G.
41.3	99.8	103.5	At3g16810	820934	APUM24 (Arabidopsis Pumilio 24)	F:RNA binding, binding;P:unknown;C:nucleolus;MFPOB	O.I.	C.G.	H.G.
41.0	99.8	263.8	At1g51510	841576	Y14	This gene is predicted to encode a protein involved in the exon junction complex. Though there is a predicted RNA binding motif, in the Drosophila ortholog (33% identity), this motif mediates interactions with Mago and is not available for RNA binding. The Arabidopsis Y14 protein appears to be predominantly nucleolar, but there is also some evidence for its presence in the cytoplasm.	O.I.	C.G.	H.G.
40.7	99.8	22.4	At5g15380	831390	DRM1 (domains rearranged methylase 1)	Encodes methyltransferase involved in the de novo DNA methylation and maintenance of asymmetric methylation of DNA sequences.	O.I.	C.G.	H.G.
40.4	99.8	73.4	At1g68360	843165	zinc finger protein-related	F:transcription factor activity;P:regulation of transcription;C:intracellular;PMO	O.I.	C.G.	H.G.
40.0	99.8	89.5	At2g47260	819339	WRKY23	member of WRKY Transcription Factor; Group I	O.I.	C.G.	H.G.
40.0	99.8	18.7	At4g35370	829690	nucleotide binding	F:nucleotide binding;P:biological_process unknown;C:cellular_component unknown;MFOBPA	O.I.	C.G.	H.G.

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GSM ID	GSM133951
Assay name	Murray_2-7_T12-APH_Rep1_ATH1
GSE experiment	GSE5747: Genome-wide cell cycle studies

Microarray experiments to specifically-expressed genes

GSM ID GSM133951 Assay name Murray_2-7_T12-APH_Rep1_ATH1 GSE experiment GSE5747: Genome-wide cell cycle studies

GSM ID GSM133951

Assay name Murray_2-7_T12-APH_Rep1_ATH1

GSE experiment GSE5747: Genome-wide cell cycle studies