CoP: Co-expressed Biological Processes

Microarray experiments to specifically-expressed genes

GSM ID GSM290758

Assay name root - 01% oxygen - 48h - A

GSE experiment GSE11558: transcript profiling of the adaptive response to decreases in oxygen concentration in the roots of Arabidopsis plants

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
415.8 100.0 72.4 At1g60750 3767587 oxidoreductase F:oxidoreductase activity;P:oxidation reduction;C:unknown O.I. C.G. H.G.
335.2 100.0 66.8 At3g60490 825220 AP2 domain-containing transcription factor TINY, putative encodes a member of the DREB subfamily A-4 of ERF/AP2 transcription factor family. The protein contains one AP2 domain. There are 17 members in this subfamily including TINY. O.I. C.G. H.G.
266.7 100.0 70.2 At4g11880 826795 AGL14 (agamous-like 14) AGL12, AGL14, and AGL17 are all preferentially expressed in root tissues and therefore represent the only characterized MADS box genes expressed in roots. O.I. C.G. H.G.
161.7 99.9 135.6 At3g46130 823756 MYB111 (MYB DOMAIN PROTEIN 111) Encodes a putative transcription factor (MYB48) that functions to regulate flavonol biosynthesis primarily in cotyledons. O.I. C.G. H.G.
152.8 99.9 27.1 At1g53990 841837 GLIP3 Contains lipase signature motif and GDSL domain. O.I. C.G. H.G.
141.0 99.9 207.5 At3g29970 822700 germination protein-related F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P O.I. C.G. H.G.
132.2 99.9 268.6 At3g23430 821924 PHO1 (phosphate 1) mutant is deficient in the transfer of phosphate from root epidermal and cortical cells to the xylem. encodes protein with the mainly hydrophilic N-terminal and the C-terminal containing 6 potential membrane-spanning domains. O.I. C.G. H.G.
123.8 99.9 46.5 At2g29480 817497 ATGSTU2 (ARABIDOPSIS THALIANA GLUTATHIONE S-TRANSFERASE TAU 2) Encodes glutathione transferase belonging to the tau class of GSTs. Naming convention according to Wagner et al. (2002). O.I. C.G. H.G.
104.3 99.9 143.4 At1g33050 840200 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;OBMFP O.I. C.G. H.G.
100.7 99.9 160.6 At2g17850 816295 - F:molecular_function unknown;P:aging;C:endomembrane system;BOPAMF O.I. C.G. H.G.
85.6 99.9 112.8 At5g10040 830868 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. C.G. H.G.
84.8 99.9 78.4 At4g37010 829855 caltractin, putative / centrin, putative F:calcium ion binding;P:biological_process unknown;C:unknown;MFPOB O.I. C.G. H.G.
80.1 99.9 80.3 At1g60730 842367 aldo/keto reductase family protein F:oxidoreductase activity, aldo-keto reductase activity;P:oxidation reduction;C:unknown;BOFMPA O.I. C.G. H.G.
69.7 99.9 210.7 At1g12010 837753 1-aminocyclopropane-1-carboxylate oxidase, putative / ACC oxidase, putative encodes a protein whose sequence is similar to 1-amino-cyclopropane-1-carboxylic acid oxidase O.I. C.G. H.G.
66.9 99.8 350.0 At4g39675 830122 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. C.G. H.G.
65.9 99.8 88.5 At2g29870 817537 major intrinsic family protein / MIP family protein F:water channel activity;P:transport;C:membrane;BPMOFA O.I. C.G. H.G.
63.6 99.8 206.5 At5g66985 836833 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. C.G. H.G.
61.3 99.8 247.4 At5g59780 836099 MYB59 (MYB DOMAIN PROTEIN 59) Encodes a putative transcription factor (MYB59). O.I. C.G. H.G.
60.5 99.8 143.4 At2g44010 819006 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. C.G. H.G.
57.0 99.8 92.2 At1g47960 841214 C/VIF1 (CELL WALL / VACUOLAR INHIBITOR OF FRUCTOSIDASE 1) Plant cell wall (CWI) and vacuolar invertases (VI) play important roles in carbohydrate metabolism, stress responses and sugar signaling. O.I. C.G. H.G.
56.6 99.8 84.7 At3g21260 821680 glycolipid transfer protein-related F:glycolipid transporter activity, glycolipid binding;P:glycolipid transport;C:cytoplasm;MFPO O.I. C.G. H.G.
56.1 99.8 41.5 At5g59530 836072 2-oxoglutarate-dependent dioxygenase, putative F:transferase activity, transferring glycosyl groups;P:unknown;C:unknown;POBFM O.I. C.G. H.G.
55.4 99.8 421.4 At5g63600 836480 FLS5 (FLAVONOL SYNTHASE 5) encodes a protein whose sequence is similar to flavonol synthase O.I. C.G. H.G.
53.6 99.8 67.3 At4g05200 825868 protein kinase family protein F:kinase activity;P:protein amino acid phosphorylation;C:endomembrane system;MPOBFVA O.I. C.G. H.G.
52.0 99.8 127.7 At2g19110 816428 HMA4 Encodes a protein with similarity to Zn ATPase. Can rescue Zn deficiency in yeast and Cd resistance, suggesting a role in Zn and Cd transport. O.I. C.G. H.G.
51.6 99.8 70.6 At1g07870 837302 protein kinase family protein F:protein serine/threonine kinase activity, protein kinase activity, kinase activity, ATP binding;P:response to salt stress, N-terminal protein myristoylation;C:plasma membrane;MPOBFVA O.I. C.G. H.G.
50.9 99.8 57.7 At2g45920 819200 U-box domain-containing protein F:ubiquitin-protein ligase activity;P:protein ubiquitination;C:ubiquitin ligase complex;POMFBAV O.I. C.G. H.G.
50.1 99.8 324.1 At3g03270 821303 universal stress protein (USP) family protein / early nodulin ENOD18 family protein F:unknown;P:response to stress;C:plasma membrane, membrane;PFMBO O.I. C.G. H.G.
49.3 99.8 145.3 At2g18050 816317 HIS1-3 (HISTONE H1-3) encodes a structurally divergent linker histone whose gene expression is induced by dehydration and ABA. O.I. C.G. H.G.
48.1 99.8 206.6 At1g33055 840201 unknown protein F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P O.I. C.G. H.G.
46.0 99.8 53.8 At4g13860 827020 glycine-rich RNA-binding protein, putative F:RNA binding, nucleotide binding, nucleic acid binding;P:biological_process unknown;C:cellular_component unknown;MPFOBA O.I. C.G. H.G.
45.4 99.8 39.5 At1g09090 837430 ATRBOHB (respiratory burst oxidase homolog B) F:in 7 functions;P:response to heat, defense response;C:integral to membrane, membrane;MPFOBA O.I. C.G. H.G.
45.3 99.8 292.6 At5g03240 831899 UBQ3 (POLYUBIQUITIN 3) encodes ubiquitin that is attached to proteins destined for degradation. UBQ3 is most homologous with UBQ4, and is expressed in higher levels in vegetative tissue but lower levels in flowers than UBQ4. UBQ3 encodes different number of ubiquitins in different ecotypes. UBQ3 transcript level is modulated by UV-B and light/dark treatments. O.I. C.G. H.G.
45.0 99.8 155.2 At5g20960 832221 AAO1 (ARABIDOPSIS ALDEHYDE OXIDASE 1) Encodes aldehyde oxidase AA01. O.I. C.G. H.G.
44.9 99.8 51.8 At2g25590 817098 agenet domain-containing protein F:RNA binding;P:biological_process unknown;C:unknown;P O.I. C.G. H.G.
42.8 99.8 47.9 At2g34900 818055 IMB1 (IMBIBITION-INDUCIBLE 1) Encodes a member of the BET subgroup of bromodomain proteins, a novel class of putative transcription factors. Its expression is induced during seed imbibition and downregulated during germination. Seeds of a loss-of-function mutant allele, imb1, show impaired cotyledon greening during germination in abscisic acid (ABA) and express higher levels of ABI5 protein than the wild type. Moreover, imb1 seeds are deficient in the phytochrome A (phyA)-mediated very-low-fluence response of germination. O.I. C.G. H.G.
42.7 99.8 24.2 At3g57380 824905 transferase, transferring glycosyl groups F:transferase activity, transferring glycosyl groups;P:biological_process unknown;C:cellular_component unknown;PMOBF O.I. C.G. H.G.
42.1 99.8 315.0 At2g38800 818462 calmodulin-binding protein-related F:calmodulin binding;P:unknown;C:cellular_component unknown;BOMFPVA O.I. C.G. H.G.
41.3 99.8 28.1 At2g42250 818826 CYP712A1 member of CYP712A O.I. C.G. H.G.
40.2 99.8 73.6 At2g17440 816250 leucine-rich repeat family protein F:protein binding;P:unknown;C:plasma membrane;MPBOFVA O.I. C.G. H.G.
39.2 99.8 102.9 At1g55810 842031 uracil phosphoribosyltransferase, putative / UMP pyrophosphorylase, putative / UPRTase, putative F:uracil phosphoribosyltransferase activity, phosphotransferase activity, alcohol group as acceptor, kinase activity, ATP binding;P:biosynthetic process, metabolic process;C:cellular_component unknown;BOMPFAV O.I. C.G. H.G.
38.9 99.8 157.4 At3g09220 820078 LAC7 (laccase 7) putative laccase, a member of laccase family of genes (17 members in Arabidopsis). O.I. C.G. H.G.
38.9 99.8 31.7 At1g67110 843031 CYP735A2 member of CYP709A O.I. C.G. H.G.
37.6 99.7 22.7 At5g36140 833611 CYP716A2 member of CYP716A O.I. C.G. H.G.
37.5 99.7 50.1 At5g10210 830885 - F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. C.G. H.G.
37.3 99.7 200.6 At3g43190 823393 SUS4 Encodes a protein with sucrose synthase activity (SUS4). O.I. C.G. H.G.
37.3 99.7 64.8 At2g14210 815907 AGL44 (AGAMOUS-LIKE 44) MADS box gene, transcription factor O.I. C.G. H.G.
36.8 99.7 92.9 At3g29035 822547 ATNAC3 (ARABIDOPSIS NAC DOMAIN CONTAINING PROTEIN 3) Encodes a protein with transcription factor activity. Note: this protein (AT3G29035) on occasion has also been referred to as AtNAC3, not to be confused with the AtNAC3 found at locus AT3G15500. O.I. C.G. H.G.
35.4 99.7 37.8 At1g35260 840415 MLP165 (MLP-LIKE PROTEIN 165) F:molecular_function unknown;P:response to biotic stimulus, defense response;C:cellular_component unknown;P O.I. C.G. H.G.
35.2 99.7 44.4 At3g10030 820164 aspartate/glutamate/uridylate kinase family protein F:DNA binding;P:amino acid biosynthetic process;C:cytoplasm;BOPAMF O.I. C.G. H.G.
34.8 99.7 49.9 At1g31050 839991 transcription factor F:transcription factor activity;P:regulation of transcription;C:nucleus;P O.I. C.G. H.G.
34.6 99.7 186.6 At4g38540 830011 monooxygenase, putative (MO2) F:monooxygenase activity;P:metabolic process;C:unknown;BFOPAM O.I. C.G. H.G.
33.9 99.7 387.8 At4g19880 827734 - F:molecular_function unknown;P:response to cadmium ion;C:chloroplast;BOFPMA O.I. C.G. H.G.
32.7 99.7 56.9 At2g26650 817206 AKT1 (ARABIDOPSIS K TRANSPORTER 1) Shaker-like inward rectifying potassium channel predominantly expressed in predominantly in root hairs and root endodermis. O.I. C.G. H.G.
32.6 99.7 321.7 At3g27770 822398 unknown protein F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;PMO O.I. C.G. H.G.
32.5 99.7 274.8 At4g33070 829444 pyruvate decarboxylase, putative F:in 6 functions;P:unknown;C:membrane;BOFPAMV O.I. C.G. H.G.
32.4 99.7 122.2 At4g40060 830169 ATHB16 (ARABIDOPSIS THALIANA HOMEOBOX PROTEIN 16) Encodes a homeodomain leucine zipper class I (HD-Zip I) protein. O.I. C.G. H.G.
32.3 99.7 58.6 At3g01260 821171 aldose 1-epimerase/ carbohydrate binding / catalytic/ isomerase F:carbohydrate binding, isomerase activity, aldose 1-epimerase activity, catalytic activity;P:galactose metabolic process, hexose metabolic process, carbohydrate metabolic process;C:endomembrane system;OBMFPVA O.I. C.G. H.G.
31.9 99.7 22.5 At3g55910 824757 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. C.G. H.G.
31.8 99.7 460.9 At4g27450 828854 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cytosol, nucleus, plasma membrane;PBOMF O.I. C.G. H.G.
31.0 99.7 299.2 At2g39310 818516 JAL22 (JACALIN-RELATED LECTIN 22) F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO O.I. C.G. H.G.
30.5 99.7 71.1 At2g39510 818536 nodulin MtN21 family protein F:molecular_function unknown;P:biological_process unknown;C:endomembrane system, membrane;BOPAM O.I. C.G. H.G.
30.4 99.7 171.4 At5g59520 836071 ZIP2 encodes a metal ion transporter whose expression is regulated by copper. O.I. C.G. H.G.
30.4 99.7 40.7 At5g65970 836727 MLO10 (MILDEW RESISTANCE LOCUS O 10) A member of a large family of seven-transmembrane domain proteins specific to plants, homologs of the barley mildew resistance locus o (MLO) protein. The Arabidopsis genome contains 15 genes encoding MLO proteins, with localization in plasma membrane. Phylogenetic analysis revealed four clades of closely-related AtMLO genes. ATMLO10 belongs to the clade III, with AtMLO5, AtMLO7, AtMLO8, and AtMLO9. The gene is expressed in root and cotyledon vascular system, in root-shoot junction and lateral root primordia and in developing siliques, as shown by GUS activity patterns. The expression of several phylogenetically closely-related AtMLO genes showed similar or overlapping tissue specificity and analogous responsiveness to external stimuli, suggesting functional redundancy, co-function, or antagonistic function(s O.I. C.G. H.G.
30.0 99.7 273.4 At1g21680 838770 - F:molecular_function unknown;P:biological_process unknown;C:plasma membrane, vacuole, plant-type cell wall;BOPAMF O.I. C.G. H.G.
29.8 99.7 14.8 At1g31060 839992 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PM O.I. C.G. H.G.
29.6 99.7 231.4 At4g11310 826733 cysteine proteinase, putative cysteine proteinase precursor-like protein O.I. C.G. H.G.
29.5 99.7 82.9 At1g21100 838706 O-methyltransferase, putative F:methyltransferase activity, O-methyltransferase activity, protein dimerization activity;P:unknown;C:cytosol;PBFOM O.I. C.G. H.G.
29.5 99.7 62.3 At4g37060 829860 PLP5 (PATATIN-LIKE PROTEIN 5) F:nutrient reservoir activity;P:metabolic process, lipid metabolic process;C:cellular_component unknown;PBOMF O.I. C.G. H.G.
29.5 99.7 8.9 At1g61750 842472 - F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;MPOBFVA O.I. C.G. H.G.
29.4 99.7 159.5 At1g30400 839920 MRP1 (ARABIDOPSIS THALIANA MULTIDRUG RESISTANCE-ASSOCIATED PROTEIN 1) glutathione S-conjugate transporting ATPase (AtMRP1) mRNA. The expression of this gene is upregulated by herbicide safeners such as benoxacor and fenclorim. O.I. C.G. H.G.
29.1 99.7 54.1 At1g05890 837099 zinc finger protein-related F:protein binding, zinc ion binding, nucleic acid binding;P:unknown;C:unknown;MOFPV O.I. C.G. H.G.
29.0 99.7 179.3 At3g53480 824516 PDR9 (PLEIOTROPIC DRUG RESISTANCE 9) F:ATPase activity, coupled to transmembrane movement of substances;P:multidrug transport;C:plasma membrane;BOMAFPV O.I. C.G. H.G.
28.9 99.7 191.5 At3g09270 820083 ATGSTU8 (GLUTATHIONE S-TRANSFERASE TAU 8) Encodes glutathione transferase belonging to the tau class of GSTs. Naming convention according to Wagner et al. (2002). O.I. C.G. H.G.
28.7 99.7 257.0 At1g19530 838540 unknown protein F:molecular_function unknown;P:N-terminal protein myristoylation;C:cellular_component unknown;P O.I. C.G. H.G.
28.4 99.7 135.9 At2g43680 818970 IQD14 F:calmodulin binding;P:unknown;C:plasma membrane;MBFOPVA O.I. C.G. H.G.
28.4 99.7 31.4 At2g17570 816264 undecaprenyl pyrophosphate synthetase family protein / UPP synthetase family protein F:transferase activity, transferring alkyl or aryl (other than methyl) groups;P:unknown;C:unknown;OBMAFP O.I. C.G. H.G.
28.2 99.7 212.3 At1g15380 838107 lactoylglutathione lyase family protein / glyoxalase I family protein F:lactoylglutathione lyase activity;P:carbohydrate metabolic process;C:cellular_component unknown;BPOMFA O.I. C.G. H.G.
28.2 99.7 145.9 At3g14660 820694 CYP72A13 putative cytochrome P450 O.I. C.G. H.G.
28.1 99.7 216.7 At2g36950 818269 heavy-metal-associated domain-containing protein F:metal ion binding;P:metal ion transport;C:cellular_component unknown;POMBFV O.I. C.G. H.G.
28.1 99.7 43.1 At2g21560 816695 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;OMFPBV O.I. C.G. H.G.
27.6 99.7 286.6 At5g20830 832206 SUS1 (SUCROSE SYNTHASE 1) Encodes a protein with sucrose synthase activity (SUS1). O.I. C.G. H.G.
27.4 99.7 345.6 At2g16060 816103 AHB1 (ARABIDOPSIS HEMOGLOBIN 1) Encodes a class 1 nonsymbiotic hemoglobin induced by low oxygen levels with very high oxygen affinity. It is not likely to be a hemoglobin transporter because of its extremely high affinity for oxygen. O.I. C.G. H.G.
26.8 99.7 22.9 At3g46700 823823 UDP-glycosyltransferase/ transferase, transferring glycosyl groups F:UDP-glycosyltransferase activity, transferase activity, transferring glycosyl groups;P:metabolic process;C:unknown;PMBVOF O.I. C.G. H.G.
26.6 99.7 24.4 At5g41270 834128 - F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;BPM O.I. C.G. H.G.
26.6 99.7 13.2 At2g17430 816249 MLO7 (MILDEW RESISTANCE LOCUS O 7) A member of a large family of seven-transmembrane domain proteins specific to plants, homologs of the barley mildew resistance locus o (MLO) protein. The Arabidopsis genome contains 15 genes encoding MLO proteins, with localization in plasma membrane. Phylogenetic analysis revealed four clades of closely-related AtMLO genes. ATMLO7 belongs to the clade III, with AtMLO5, AtMLO8, AtMLO9, and AtMLO10. The gene is expressed in vegetative organs (RT-PCR experiments)and in pollen grains, as shown by GUS activity patterns. The expression of several phylogenetically closely-related AtMLO genes showed similar or overlapping tissue specificity and analogous responsiveness to external stimuli, suggesting functional redundancy, co-function, or antagonistic function(s). O.I. C.G. H.G.
26.5 99.7 150.8 At3g10500 820214 anac053 (Arabidopsis NAC domain containing protein 53) F:transcription factor activity;P:multicellular organismal development, regulation of transcription;C:cellular_component unknown;PBOF O.I. C.G. H.G.
26.4 99.7 41.2 At4g13030 826917 unknown protein F:unknown;P:biological_process unknown;C:cellular_component unknown;BPMFO O.I. C.G. H.G.
26.2 99.7 64.8 At5g24090 832474 acidic endochitinase (CHIB1) F:cation binding, hydrolase activity, hydrolyzing O-glycosyl compounds, catalytic activity;P:carbohydrate metabolic process;C:endomembrane system;PFBMO O.I. C.G. H.G.
26.2 99.7 36.6 At2g34730 818038 myosin heavy chain-related F:unknown;P:unknown;C:mitochondrion;MOBFPAV O.I. C.G. H.G.
26.0 99.7 47.5 At1g63440 842650 HMA5 (HEAVY METAL ATPASE 5) The Arabidopsis P-type ATPase HMA5 is involved in Cu detoxification. hma5 mutant plants exhibit Cu hypersensitivity, which is especially dramatic in roots where HMA5 is mostly expressed. O.I. C.G. H.G.
25.9 99.7 80.8 At1g20160 838606 ATSBT5.2 F:identical protein binding, serine-type endopeptidase activity;P:proteolysis, negative regulation of catalytic activity;C:apoplast;BPOFMA O.I. C.G. H.G.
25.2 99.6 149.9 At1g18880 838469 proton-dependent oligopeptide transport (POT) family protein F:transporter activity;P:oligopeptide transport;C:membrane;PMBFO O.I. C.G. H.G.
25.0 99.6 200.3 At1g78340 844169 ATGSTU22 (GLUTATHIONE S-TRANSFERASE TAU 22) Encodes glutathione transferase belonging to the tau class of GSTs. Naming convention according to Wagner et al. (2002). O.I. C.G. H.G.
25.0 99.6 163.1 At2g18280 816344 AtTLP2 (TUBBY LIKE PROTEIN 2) Member of TLP family O.I. C.G. H.G.
25.0 99.6 25.2 At4g23450 828444 zinc finger (C3HC4-type RING finger) family protein F:protein binding, zinc ion binding;P:N-terminal protein myristoylation;C:chloroplast;PMOFV O.I. C.G. H.G.
24.7 99.6 21.8 At4g37940 829950 AGL21 encodes a MADS box protein, highly expressed in the root. O.I. C.G. H.G.
24.5 99.6 14.8 At4g04990 825841 unknown protein F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;MPOFBV O.I. C.G. H.G.
24.4 99.6 58.9 At5g46760 834719 basic helix-loop-helix (bHLH) family protein F:transcription factor activity, DNA binding;P:regulation of transcription;C:nucleus;POMFBV O.I. C.G. H.G.
24.3 99.6 121.5 At5g65210 836646 TGA1 F:transcription factor activity, calmodulin binding, DNA binding;P:defense response to bacterium;C:nucleus;POM 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.
415.8	100.0	72.4	At1g60750	3767587	oxidoreductase	F:oxidoreductase activity;P:oxidation reduction;C:unknown	O.I.	C.G.	H.G.
335.2	100.0	66.8	At3g60490	825220	AP2 domain-containing transcription factor TINY, putative	encodes a member of the DREB subfamily A-4 of ERF/AP2 transcription factor family. The protein contains one AP2 domain. There are 17 members in this subfamily including TINY.	O.I.	C.G.	H.G.
266.7	100.0	70.2	At4g11880	826795	AGL14 (agamous-like 14)	AGL12, AGL14, and AGL17 are all preferentially expressed in root tissues and therefore represent the only characterized MADS box genes expressed in roots.	O.I.	C.G.	H.G.
161.7	99.9	135.6	At3g46130	823756	MYB111 (MYB DOMAIN PROTEIN 111)	Encodes a putative transcription factor (MYB48) that functions to regulate flavonol biosynthesis primarily in cotyledons.	O.I.	C.G.	H.G.
152.8	99.9	27.1	At1g53990	841837	GLIP3	Contains lipase signature motif and GDSL domain.	O.I.	C.G.	H.G.
141.0	99.9	207.5	At3g29970	822700	germination protein-related	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P	O.I.	C.G.	H.G.
132.2	99.9	268.6	At3g23430	821924	PHO1 (phosphate 1)	mutant is deficient in the transfer of phosphate from root epidermal and cortical cells to the xylem. encodes protein with the mainly hydrophilic N-terminal and the C-terminal containing 6 potential membrane-spanning domains.	O.I.	C.G.	H.G.
123.8	99.9	46.5	At2g29480	817497	ATGSTU2 (ARABIDOPSIS THALIANA GLUTATHIONE S-TRANSFERASE TAU 2)	Encodes glutathione transferase belonging to the tau class of GSTs. Naming convention according to Wagner et al. (2002).	O.I.	C.G.	H.G.
104.3	99.9	143.4	At1g33050	840200	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;OBMFP	O.I.	C.G.	H.G.
100.7	99.9	160.6	At2g17850	816295	-	F:molecular_function unknown;P:aging;C:endomembrane system;BOPAMF	O.I.	C.G.	H.G.
85.6	99.9	112.8	At5g10040	830868	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	C.G.	H.G.
84.8	99.9	78.4	At4g37010	829855	caltractin, putative / centrin, putative	F:calcium ion binding;P:biological_process unknown;C:unknown;MFPOB	O.I.	C.G.	H.G.
80.1	99.9	80.3	At1g60730	842367	aldo/keto reductase family protein	F:oxidoreductase activity, aldo-keto reductase activity;P:oxidation reduction;C:unknown;BOFMPA	O.I.	C.G.	H.G.
69.7	99.9	210.7	At1g12010	837753	1-aminocyclopropane-1-carboxylate oxidase, putative / ACC oxidase, putative	encodes a protein whose sequence is similar to 1-amino-cyclopropane-1-carboxylic acid oxidase	O.I.	C.G.	H.G.
66.9	99.8	350.0	At4g39675	830122	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	C.G.	H.G.
65.9	99.8	88.5	At2g29870	817537	major intrinsic family protein / MIP family protein	F:water channel activity;P:transport;C:membrane;BPMOFA	O.I.	C.G.	H.G.
63.6	99.8	206.5	At5g66985	836833	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	C.G.	H.G.
61.3	99.8	247.4	At5g59780	836099	MYB59 (MYB DOMAIN PROTEIN 59)	Encodes a putative transcription factor (MYB59).	O.I.	C.G.	H.G.
60.5	99.8	143.4	At2g44010	819006	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	C.G.	H.G.
57.0	99.8	92.2	At1g47960	841214	C/VIF1 (CELL WALL / VACUOLAR INHIBITOR OF FRUCTOSIDASE 1)	Plant cell wall (CWI) and vacuolar invertases (VI) play important roles in carbohydrate metabolism, stress responses and sugar signaling.	O.I.	C.G.	H.G.
56.6	99.8	84.7	At3g21260	821680	glycolipid transfer protein-related	F:glycolipid transporter activity, glycolipid binding;P:glycolipid transport;C:cytoplasm;MFPO	O.I.	C.G.	H.G.
56.1	99.8	41.5	At5g59530	836072	2-oxoglutarate-dependent dioxygenase, putative	F:transferase activity, transferring glycosyl groups;P:unknown;C:unknown;POBFM	O.I.	C.G.	H.G.
55.4	99.8	421.4	At5g63600	836480	FLS5 (FLAVONOL SYNTHASE 5)	encodes a protein whose sequence is similar to flavonol synthase	O.I.	C.G.	H.G.
53.6	99.8	67.3	At4g05200	825868	protein kinase family protein	F:kinase activity;P:protein amino acid phosphorylation;C:endomembrane system;MPOBFVA	O.I.	C.G.	H.G.
52.0	99.8	127.7	At2g19110	816428	HMA4	Encodes a protein with similarity to Zn ATPase. Can rescue Zn deficiency in yeast and Cd resistance, suggesting a role in Zn and Cd transport.	O.I.	C.G.	H.G.
51.6	99.8	70.6	At1g07870	837302	protein kinase family protein	F:protein serine/threonine kinase activity, protein kinase activity, kinase activity, ATP binding;P:response to salt stress, N-terminal protein myristoylation;C:plasma membrane;MPOBFVA	O.I.	C.G.	H.G.
50.9	99.8	57.7	At2g45920	819200	U-box domain-containing protein	F:ubiquitin-protein ligase activity;P:protein ubiquitination;C:ubiquitin ligase complex;POMFBAV	O.I.	C.G.	H.G.
50.1	99.8	324.1	At3g03270	821303	universal stress protein (USP) family protein / early nodulin ENOD18 family protein	F:unknown;P:response to stress;C:plasma membrane, membrane;PFMBO	O.I.	C.G.	H.G.
49.3	99.8	145.3	At2g18050	816317	HIS1-3 (HISTONE H1-3)	encodes a structurally divergent linker histone whose gene expression is induced by dehydration and ABA.	O.I.	C.G.	H.G.
48.1	99.8	206.6	At1g33055	840201	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P	O.I.	C.G.	H.G.
46.0	99.8	53.8	At4g13860	827020	glycine-rich RNA-binding protein, putative	F:RNA binding, nucleotide binding, nucleic acid binding;P:biological_process unknown;C:cellular_component unknown;MPFOBA	O.I.	C.G.	H.G.
45.4	99.8	39.5	At1g09090	837430	ATRBOHB (respiratory burst oxidase homolog B)	F:in 7 functions;P:response to heat, defense response;C:integral to membrane, membrane;MPFOBA	O.I.	C.G.	H.G.
45.3	99.8	292.6	At5g03240	831899	UBQ3 (POLYUBIQUITIN 3)	encodes ubiquitin that is attached to proteins destined for degradation. UBQ3 is most homologous with UBQ4, and is expressed in higher levels in vegetative tissue but lower levels in flowers than UBQ4. UBQ3 encodes different number of ubiquitins in different ecotypes. UBQ3 transcript level is modulated by UV-B and light/dark treatments.	O.I.	C.G.	H.G.
45.0	99.8	155.2	At5g20960	832221	AAO1 (ARABIDOPSIS ALDEHYDE OXIDASE 1)	Encodes aldehyde oxidase AA01.	O.I.	C.G.	H.G.
44.9	99.8	51.8	At2g25590	817098	agenet domain-containing protein	F:RNA binding;P:biological_process unknown;C:unknown;P	O.I.	C.G.	H.G.
42.8	99.8	47.9	At2g34900	818055	IMB1 (IMBIBITION-INDUCIBLE 1)	Encodes a member of the BET subgroup of bromodomain proteins, a novel class of putative transcription factors. Its expression is induced during seed imbibition and downregulated during germination. Seeds of a loss-of-function mutant allele, imb1, show impaired cotyledon greening during germination in abscisic acid (ABA) and express higher levels of ABI5 protein than the wild type. Moreover, imb1 seeds are deficient in the phytochrome A (phyA)-mediated very-low-fluence response of germination.	O.I.	C.G.	H.G.
42.7	99.8	24.2	At3g57380	824905	transferase, transferring glycosyl groups	F:transferase activity, transferring glycosyl groups;P:biological_process unknown;C:cellular_component unknown;PMOBF	O.I.	C.G.	H.G.
42.1	99.8	315.0	At2g38800	818462	calmodulin-binding protein-related	F:calmodulin binding;P:unknown;C:cellular_component unknown;BOMFPVA	O.I.	C.G.	H.G.
41.3	99.8	28.1	At2g42250	818826	CYP712A1	member of CYP712A	O.I.	C.G.	H.G.
40.2	99.8	73.6	At2g17440	816250	leucine-rich repeat family protein	F:protein binding;P:unknown;C:plasma membrane;MPBOFVA	O.I.	C.G.	H.G.
39.2	99.8	102.9	At1g55810	842031	uracil phosphoribosyltransferase, putative / UMP pyrophosphorylase, putative / UPRTase, putative	F:uracil phosphoribosyltransferase activity, phosphotransferase activity, alcohol group as acceptor, kinase activity, ATP binding;P:biosynthetic process, metabolic process;C:cellular_component unknown;BOMPFAV	O.I.	C.G.	H.G.
38.9	99.8	157.4	At3g09220	820078	LAC7 (laccase 7)	putative laccase, a member of laccase family of genes (17 members in Arabidopsis).	O.I.	C.G.	H.G.
38.9	99.8	31.7	At1g67110	843031	CYP735A2	member of CYP709A	O.I.	C.G.	H.G.
37.6	99.7	22.7	At5g36140	833611	CYP716A2	member of CYP716A	O.I.	C.G.	H.G.
37.5	99.7	50.1	At5g10210	830885	-	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	C.G.	H.G.
37.3	99.7	200.6	At3g43190	823393	SUS4	Encodes a protein with sucrose synthase activity (SUS4).	O.I.	C.G.	H.G.
37.3	99.7	64.8	At2g14210	815907	AGL44 (AGAMOUS-LIKE 44)	MADS box gene, transcription factor	O.I.	C.G.	H.G.
36.8	99.7	92.9	At3g29035	822547	ATNAC3 (ARABIDOPSIS NAC DOMAIN CONTAINING PROTEIN 3)	Encodes a protein with transcription factor activity. Note: this protein (AT3G29035) on occasion has also been referred to as AtNAC3, not to be confused with the AtNAC3 found at locus AT3G15500.	O.I.	C.G.	H.G.
35.4	99.7	37.8	At1g35260	840415	MLP165 (MLP-LIKE PROTEIN 165)	F:molecular_function unknown;P:response to biotic stimulus, defense response;C:cellular_component unknown;P	O.I.	C.G.	H.G.
35.2	99.7	44.4	At3g10030	820164	aspartate/glutamate/uridylate kinase family protein	F:DNA binding;P:amino acid biosynthetic process;C:cytoplasm;BOPAMF	O.I.	C.G.	H.G.
34.8	99.7	49.9	At1g31050	839991	transcription factor	F:transcription factor activity;P:regulation of transcription;C:nucleus;P	O.I.	C.G.	H.G.
34.6	99.7	186.6	At4g38540	830011	monooxygenase, putative (MO2)	F:monooxygenase activity;P:metabolic process;C:unknown;BFOPAM	O.I.	C.G.	H.G.
33.9	99.7	387.8	At4g19880	827734	-	F:molecular_function unknown;P:response to cadmium ion;C:chloroplast;BOFPMA	O.I.	C.G.	H.G.
32.7	99.7	56.9	At2g26650	817206	AKT1 (ARABIDOPSIS K TRANSPORTER 1)	Shaker-like inward rectifying potassium channel predominantly expressed in predominantly in root hairs and root endodermis.	O.I.	C.G.	H.G.
32.6	99.7	321.7	At3g27770	822398	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;PMO	O.I.	C.G.	H.G.
32.5	99.7	274.8	At4g33070	829444	pyruvate decarboxylase, putative	F:in 6 functions;P:unknown;C:membrane;BOFPAMV	O.I.	C.G.	H.G.
32.4	99.7	122.2	At4g40060	830169	ATHB16 (ARABIDOPSIS THALIANA HOMEOBOX PROTEIN 16)	Encodes a homeodomain leucine zipper class I (HD-Zip I) protein.	O.I.	C.G.	H.G.
32.3	99.7	58.6	At3g01260	821171	aldose 1-epimerase/ carbohydrate binding / catalytic/ isomerase	F:carbohydrate binding, isomerase activity, aldose 1-epimerase activity, catalytic activity;P:galactose metabolic process, hexose metabolic process, carbohydrate metabolic process;C:endomembrane system;OBMFPVA	O.I.	C.G.	H.G.
31.9	99.7	22.5	At3g55910	824757	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	C.G.	H.G.
31.8	99.7	460.9	At4g27450	828854	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cytosol, nucleus, plasma membrane;PBOMF	O.I.	C.G.	H.G.
31.0	99.7	299.2	At2g39310	818516	JAL22 (JACALIN-RELATED LECTIN 22)	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO	O.I.	C.G.	H.G.
30.5	99.7	71.1	At2g39510	818536	nodulin MtN21 family protein	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system, membrane;BOPAM	O.I.	C.G.	H.G.
30.4	99.7	171.4	At5g59520	836071	ZIP2	encodes a metal ion transporter whose expression is regulated by copper.	O.I.	C.G.	H.G.
30.4	99.7	40.7	At5g65970	836727	MLO10 (MILDEW RESISTANCE LOCUS O 10)	A member of a large family of seven-transmembrane domain proteins specific to plants, homologs of the barley mildew resistance locus o (MLO) protein. The Arabidopsis genome contains 15 genes encoding MLO proteins, with localization in plasma membrane. Phylogenetic analysis revealed four clades of closely-related AtMLO genes. ATMLO10 belongs to the clade III, with AtMLO5, AtMLO7, AtMLO8, and AtMLO9. The gene is expressed in root and cotyledon vascular system, in root-shoot junction and lateral root primordia and in developing siliques, as shown by GUS activity patterns. The expression of several phylogenetically closely-related AtMLO genes showed similar or overlapping tissue specificity and analogous responsiveness to external stimuli, suggesting functional redundancy, co-function, or antagonistic function(s	O.I.	C.G.	H.G.
30.0	99.7	273.4	At1g21680	838770	-	F:molecular_function unknown;P:biological_process unknown;C:plasma membrane, vacuole, plant-type cell wall;BOPAMF	O.I.	C.G.	H.G.
29.8	99.7	14.8	At1g31060	839992	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PM	O.I.	C.G.	H.G.
29.6	99.7	231.4	At4g11310	826733	cysteine proteinase, putative	cysteine proteinase precursor-like protein	O.I.	C.G.	H.G.
29.5	99.7	82.9	At1g21100	838706	O-methyltransferase, putative	F:methyltransferase activity, O-methyltransferase activity, protein dimerization activity;P:unknown;C:cytosol;PBFOM	O.I.	C.G.	H.G.
29.5	99.7	62.3	At4g37060	829860	PLP5 (PATATIN-LIKE PROTEIN 5)	F:nutrient reservoir activity;P:metabolic process, lipid metabolic process;C:cellular_component unknown;PBOMF	O.I.	C.G.	H.G.
29.5	99.7	8.9	At1g61750	842472	-	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;MPOBFVA	O.I.	C.G.	H.G.
29.4	99.7	159.5	At1g30400	839920	MRP1 (ARABIDOPSIS THALIANA MULTIDRUG RESISTANCE-ASSOCIATED PROTEIN 1)	glutathione S-conjugate transporting ATPase (AtMRP1) mRNA. The expression of this gene is upregulated by herbicide safeners such as benoxacor and fenclorim.	O.I.	C.G.	H.G.
29.1	99.7	54.1	At1g05890	837099	zinc finger protein-related	F:protein binding, zinc ion binding, nucleic acid binding;P:unknown;C:unknown;MOFPV	O.I.	C.G.	H.G.
29.0	99.7	179.3	At3g53480	824516	PDR9 (PLEIOTROPIC DRUG RESISTANCE 9)	F:ATPase activity, coupled to transmembrane movement of substances;P:multidrug transport;C:plasma membrane;BOMAFPV	O.I.	C.G.	H.G.
28.9	99.7	191.5	At3g09270	820083	ATGSTU8 (GLUTATHIONE S-TRANSFERASE TAU 8)	Encodes glutathione transferase belonging to the tau class of GSTs. Naming convention according to Wagner et al. (2002).	O.I.	C.G.	H.G.
28.7	99.7	257.0	At1g19530	838540	unknown protein	F:molecular_function unknown;P:N-terminal protein myristoylation;C:cellular_component unknown;P	O.I.	C.G.	H.G.
28.4	99.7	135.9	At2g43680	818970	IQD14	F:calmodulin binding;P:unknown;C:plasma membrane;MBFOPVA	O.I.	C.G.	H.G.
28.4	99.7	31.4	At2g17570	816264	undecaprenyl pyrophosphate synthetase family protein / UPP synthetase family protein	F:transferase activity, transferring alkyl or aryl (other than methyl) groups;P:unknown;C:unknown;OBMAFP	O.I.	C.G.	H.G.
28.2	99.7	212.3	At1g15380	838107	lactoylglutathione lyase family protein / glyoxalase I family protein	F:lactoylglutathione lyase activity;P:carbohydrate metabolic process;C:cellular_component unknown;BPOMFA	O.I.	C.G.	H.G.
28.2	99.7	145.9	At3g14660	820694	CYP72A13	putative cytochrome P450	O.I.	C.G.	H.G.
28.1	99.7	216.7	At2g36950	818269	heavy-metal-associated domain-containing protein	F:metal ion binding;P:metal ion transport;C:cellular_component unknown;POMBFV	O.I.	C.G.	H.G.
28.1	99.7	43.1	At2g21560	816695	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;OMFPBV	O.I.	C.G.	H.G.
27.6	99.7	286.6	At5g20830	832206	SUS1 (SUCROSE SYNTHASE 1)	Encodes a protein with sucrose synthase activity (SUS1).	O.I.	C.G.	H.G.
27.4	99.7	345.6	At2g16060	816103	AHB1 (ARABIDOPSIS HEMOGLOBIN 1)	Encodes a class 1 nonsymbiotic hemoglobin induced by low oxygen levels with very high oxygen affinity. It is not likely to be a hemoglobin transporter because of its extremely high affinity for oxygen.	O.I.	C.G.	H.G.
26.8	99.7	22.9	At3g46700	823823	UDP-glycosyltransferase/ transferase, transferring glycosyl groups	F:UDP-glycosyltransferase activity, transferase activity, transferring glycosyl groups;P:metabolic process;C:unknown;PMBVOF	O.I.	C.G.	H.G.
26.6	99.7	24.4	At5g41270	834128	-	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;BPM	O.I.	C.G.	H.G.
26.6	99.7	13.2	At2g17430	816249	MLO7 (MILDEW RESISTANCE LOCUS O 7)	A member of a large family of seven-transmembrane domain proteins specific to plants, homologs of the barley mildew resistance locus o (MLO) protein. The Arabidopsis genome contains 15 genes encoding MLO proteins, with localization in plasma membrane. Phylogenetic analysis revealed four clades of closely-related AtMLO genes. ATMLO7 belongs to the clade III, with AtMLO5, AtMLO8, AtMLO9, and AtMLO10. The gene is expressed in vegetative organs (RT-PCR experiments)and in pollen grains, as shown by GUS activity patterns. The expression of several phylogenetically closely-related AtMLO genes showed similar or overlapping tissue specificity and analogous responsiveness to external stimuli, suggesting functional redundancy, co-function, or antagonistic function(s).	O.I.	C.G.	H.G.
26.5	99.7	150.8	At3g10500	820214	anac053 (Arabidopsis NAC domain containing protein 53)	F:transcription factor activity;P:multicellular organismal development, regulation of transcription;C:cellular_component unknown;PBOF	O.I.	C.G.	H.G.
26.4	99.7	41.2	At4g13030	826917	unknown protein	F:unknown;P:biological_process unknown;C:cellular_component unknown;BPMFO	O.I.	C.G.	H.G.
26.2	99.7	64.8	At5g24090	832474	acidic endochitinase (CHIB1)	F:cation binding, hydrolase activity, hydrolyzing O-glycosyl compounds, catalytic activity;P:carbohydrate metabolic process;C:endomembrane system;PFBMO	O.I.	C.G.	H.G.
26.2	99.7	36.6	At2g34730	818038	myosin heavy chain-related	F:unknown;P:unknown;C:mitochondrion;MOBFPAV	O.I.	C.G.	H.G.
26.0	99.7	47.5	At1g63440	842650	HMA5 (HEAVY METAL ATPASE 5)	The Arabidopsis P-type ATPase HMA5 is involved in Cu detoxification. hma5 mutant plants exhibit Cu hypersensitivity, which is especially dramatic in roots where HMA5 is mostly expressed.	O.I.	C.G.	H.G.
25.9	99.7	80.8	At1g20160	838606	ATSBT5.2	F:identical protein binding, serine-type endopeptidase activity;P:proteolysis, negative regulation of catalytic activity;C:apoplast;BPOFMA	O.I.	C.G.	H.G.
25.2	99.6	149.9	At1g18880	838469	proton-dependent oligopeptide transport (POT) family protein	F:transporter activity;P:oligopeptide transport;C:membrane;PMBFO	O.I.	C.G.	H.G.
25.0	99.6	200.3	At1g78340	844169	ATGSTU22 (GLUTATHIONE S-TRANSFERASE TAU 22)	Encodes glutathione transferase belonging to the tau class of GSTs. Naming convention according to Wagner et al. (2002).	O.I.	C.G.	H.G.
25.0	99.6	163.1	At2g18280	816344	AtTLP2 (TUBBY LIKE PROTEIN 2)	Member of TLP family	O.I.	C.G.	H.G.
25.0	99.6	25.2	At4g23450	828444	zinc finger (C3HC4-type RING finger) family protein	F:protein binding, zinc ion binding;P:N-terminal protein myristoylation;C:chloroplast;PMOFV	O.I.	C.G.	H.G.
24.7	99.6	21.8	At4g37940	829950	AGL21	encodes a MADS box protein, highly expressed in the root.	O.I.	C.G.	H.G.
24.5	99.6	14.8	At4g04990	825841	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;MPOFBV	O.I.	C.G.	H.G.
24.4	99.6	58.9	At5g46760	834719	basic helix-loop-helix (bHLH) family protein	F:transcription factor activity, DNA binding;P:regulation of transcription;C:nucleus;POMFBV	O.I.	C.G.	H.G.
24.3	99.6	121.5	At5g65210	836646	TGA1	F:transcription factor activity, calmodulin binding, DNA binding;P:defense response to bacterium;C:nucleus;POM	O.I.	C.G.	H.G.

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GSM ID	GSM290758
Assay name	root - 01% oxygen - 48h - A
GSE experiment	GSE11558: transcript profiling of the adaptive response to decreases in oxygen concentration in the roots of Arabidopsis plants

Microarray experiments to specifically-expressed genes

GSM ID GSM290758 Assay name root - 01% oxygen - 48h - A GSE experiment GSE11558: transcript profiling of the adaptive response to decreases in oxygen concentration in the roots of Arabidopsis plants

GSM ID GSM290758

Assay name root - 01% oxygen - 48h - A

GSE experiment GSE11558: transcript profiling of the adaptive response to decreases in oxygen concentration in the roots of Arabidopsis plants