CoP: Co-expressed Biological Processes

Microarray experiments to specifically-expressed genes

GSM ID GSM252686

Assay name Arabidopsis Root from tip to 130 mm proximal to tip (cut 8dpg) rep3

GSE experiment GSE9996: Organ regeneration in plants is independent of stem cell niche activity

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
276.8 100.0 67.3 At3g62760 825451 ATGSTF13 Encodes glutathione transferase belonging to the phi class of GSTs. Naming convention according to Wagner et al. (2002). O.I. C.G. H.G.
129.6 99.9 156.8 At4g37160 829870 sks15 (SKU5 Similar 15) F:oxidoreductase activity, copper ion binding;P:unknown;C:endomembrane system;FBPMOA O.I. C.G. H.G.
123.4 99.9 279.3 At1g22880 838893 CEL5 (CELLULASE 5) 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.
110.0 99.9 95.6 At5g48110 834863 terpene synthase/cyclase family protein F:lyase activity, magnesium ion binding;P:metabolic process;C:chloroplast;PMO O.I. C.G. H.G.
109.6 99.9 165.1 At5g35940 833584 jacalin lectin family protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POBM O.I. C.G. H.G.
95.5 99.9 42.2 At2g23050 816835 NPY4 (NAKED PINS IN YUC MUTANTS 4) A member of the NPY gene family (NPY1/AT4G31820, NPY2/AT2G14820, NPY3/AT5G67440, NPY4/AT2G23050, NPY5/AT4G37590). Involved in auxin-mediated organogenesis. O.I. C.G. H.G.
93.7 99.9 222.7 At5g10130 830877 pollen Ole e 1 allergen and extensin family protein F:molecular_function unknown;P:biological_process unknown;C:extracellular space, endomembrane system;P O.I. C.G. H.G.
85.6 99.9 265.5 At5g62340 836355 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.
84.3 99.9 49.6 At5g57980 835909 RPB5C (RNA POLYMERASE II FIFTH LARGEST SUBUNIT, C) NRPB5-like protein of unknown function; homologous to budding yeast RPB5 O.I. C.G. H.G.
82.7 99.9 103.7 At2g43600 818962 glycoside hydrolase family 19 protein F:chitin binding, chitinase activity;P:cell wall macromolecule catabolic process;C:endomembrane system;PBOMFV O.I. C.G. H.G.
78.9 99.9 57.1 At5g14750 831327 ATMYB66 (MYB DOMAIN PROTEIN 66) Encodes a MyB-related protein containing R2 and R3 repeats, involved in root and hypocotyl epidermal cell fate determination. Loss of function mutations make extra root hairs. Nuclear localized protein is a positive regulator for expression of CAPRICE (CPC). O.I. C.G. H.G.
75.2 99.9 34.8 At2g43480 818949 peroxidase, putative F:electron carrier activity, peroxidase activity, heme binding;P:response to oxidative stress;C:endomembrane system;PFOM O.I. C.G. H.G.
73.2 99.9 20.5 At5g15725 831428 unknown protein F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P O.I. C.G. H.G.
71.0 99.9 164.7 At4g17460 827457 HAT1 Encodes homeobox protein HAT1. O.I. C.G. H.G.
60.8 99.8 211.1 At1g50060 841430 pathogenesis-related protein, putative F:molecular_function unknown;P:biological_process unknown;C:endomembrane system, extracellular region;MPFOB O.I. C.G. H.G.
59.7 99.8 51.4 At1g36060 840510 AP2 domain-containing transcription factor, putative encodes a member of the DREB subfamily A-6 of ERF/AP2 transcription factor family. The protein contains one AP2 domain. There are 8 members in this subfamily including RAP2.4. O.I. C.G. H.G.
59.4 99.8 28.4 At4g10640 826656 IQD16 (IQ-domain 16) F:calmodulin binding;P:biological_process unknown;C:cellular_component unknown;PMOF O.I. C.G. H.G.
55.3 99.8 40.4 At1g56680 842124 glycoside hydrolase family 19 protein F:chitinase activity;P:cell wall macromolecule catabolic process;C:endomembrane system;PBOMFV O.I. C.G. H.G.
53.3 99.8 112.0 At5g60520 836173 late embryogenesis abundant protein-related / LEA protein-related F:molecular_function unknown;P:unknown;C:endomembrane system;P O.I. C.G. H.G.
52.8 99.8 304.1 At1g52070 841636 jacalin lectin family protein F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;PMOB O.I. C.G. H.G.
52.5 99.8 202.4 At3g19430 821477 late embryogenesis abundant protein-related / LEA protein-related F:structural constituent of cell wall;P:unknown;C:unknown;MBOFPVA O.I. C.G. H.G.
51.1 99.8 17.1 At5g52170 835293 HDG7 (HOMEODOMAIN GLABROUS 7) Encodes a homeobox-leucine zipper family protein belonging to the HD-ZIP IV family. O.I. C.G. H.G.
50.9 99.8 392.8 At5g54370 835525 late embryogenesis abundant protein-related / LEA protein-related F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P O.I. C.G. H.G.
49.5 99.8 97.4 At3g04320 819587 endopeptidase inhibitor F:endopeptidase inhibitor activity;P:biological_process unknown;C:endomembrane system;P O.I. C.G. H.G.
46.7 99.8 64.7 At1g17560 838332 HLL (HUELLENLOS) Mutant shows abnormal ovule development O.I. C.G. H.G.
46.0 99.8 22.1 At3g30350 822736 unknown protein F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P O.I. C.G. H.G.
45.7 99.8 15.4 At3g27473 822369 DC1 domain-containing protein F:protein binding, zinc ion binding;P:intracellular signaling cascade;C:unknown;PMO O.I. C.G. H.G.
43.9 99.8 144.6 At4g31120 829240 SKB1 (SHK1 BINDING PROTEIN 1) Involved in vernalization. Required for epigenetic silencing of FLC, and for vernalization-mediated histone modification. O.I. C.G. H.G.
42.2 99.8 94.5 At2g45730 819181 eukaryotic initiation factor 3 gamma subunit family protein F:translation initiation factor activity;P:translational initiation, regulation of translational initiation;C:cellular_component unknown;MFOP O.I. C.G. H.G.
42.2 99.8 42.2 At5g48940 834952 leucine-rich repeat transmembrane protein kinase, putative F:protein binding, protein serine/threonine kinase activity, protein tyrosine kinase activity, protein kinase activity, ATP binding;P:transmembrane receptor protein tyrosine kinase signaling pathway, protein amino acid phosphorylation;C:unknown;MPOBFVA O.I. C.G. H.G.
41.6 99.8 78.3 At2g20515 816573 unknown protein F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P O.I. C.G. H.G.
40.9 99.8 73.6 At4g29690 829090 type I phosphodiesterase/nucleotide pyrophosphatase family protein F:hydrolase activity, catalytic activity;P:metabolic process, nucleotide metabolic process;C:endomembrane system;MBOFPAV O.I. C.G. H.G.
40.9 99.8 23.6 At5g53290 835410 CRF3 (CYTOKININ RESPONSE FACTOR 3) encodes a member of the ERF (ethylene response factor) subfamily B-5 of ERF/AP2 transcription factor family. The protein contains one AP2 domain. There are 7 members in this subfamily. O.I. C.G. H.G.
40.6 99.8 18.2 At1g03840 839396 MGP (Magpie) MGP is a nuclear-localized putative transcription factor with three zinc finger domains. MGP can interact with three proteins implicated in root patterning: SCR, SHR, and JKD in Y2H assays, and these interactions depend on the first zinc finger in MGP. MGP appears to be a direct transcriptional target of SHR and SCR, based on promoter binding assays, though it is not expressed in the QC, based on in situ hybridizations. O.I. C.G. H.G.
40.2 99.8 232.2 At1g52050 841634 jacalin lectin family protein F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;PMO O.I. C.G. H.G.
40.1 99.8 365.9 At3g57150 824882 NAP57 (Arabidopsis thaliana homologue of NAP57) Encodes a putative pseudouridine synthase (NAP57). O.I. C.G. H.G.
38.9 99.8 11.6 At5g40320 834030 DC1 domain-containing protein F:protein binding, zinc ion binding;P:intracellular signaling cascade;C:cellular_component unknown;POM O.I. C.G. H.G.
38.5 99.8 75.9 At5g57120 835816 - F:molecular_function unknown;P:biological_process unknown;C:nucleolus;MOBFPVA O.I. C.G. H.G.
38.4 99.8 163.9 At2g42740 818874 RPL16A encodes a cytosolic ribosomal protein L16, which is a constituent of 60S large ribosomal complex. Gene is expressed in root stele and anthers and expression is induced by auxin treatment. O.I. C.G. H.G.
38.4 99.8 88.3 At1g79150 844256 binding F:binding;P:biological_process unknown;C:cellular_component unknown;OMFBPVA O.I. C.G. H.G.
38.4 99.8 75.8 At2g19670 816486 PRMT1A (PROTEIN ARGININE METHYLTRANSFERASE 1A) F:protein-arginine N-methyltransferase activity;P:unknown;C:unknown;MBOPFA O.I. C.G. H.G.
36.9 99.7 31.1 At1g33280 840223 ANAC015 (Arabidopsis NAC domain containing protein 15) F:transcription factor activity;P:multicellular organismal development, regulation of transcription;C:cellular_component unknown;P O.I. C.G. H.G.
36.6 99.7 38.1 At1g11000 837643 MLO4 (MILDEW RESISTANCE LOCUS O 4) 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. ATMLO4 belongs to the clade I, with AtMLO11 and AtMLO14. The gene is expressed during early seedling growth, in roots and lateral root primordia, in flower and fruit abscission zone, in vascular system of root, cotyledons and young leaves, it was not expressed in mature rosette leaves, 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.
35.3 99.7 161.0 At2g25980 817139 jacalin lectin family protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PBO O.I. C.G. H.G.
35.0 99.7 52.7 At5g38720 833863 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;OMFBPVA O.I. C.G. H.G.
33.6 99.7 69.0 At2g23630 816895 sks16 (SKU5 Similar 16) F:pectinesterase activity, copper ion binding;P:unknown;C:endomembrane system;FBPMOA O.I. C.G. H.G.
32.6 99.7 44.3 At5g09300 830789 2-oxoisovalerate dehydrogenase, putative / 3-methyl-2-oxobutanoate dehydrogenase, putative / branched-chain alpha-keto acid dehydrogenase E1 alpha subunit, putative F:oxidoreductase activity, acting on the aldehyde or oxo group of donors, disulfide as acceptor, 3-methyl-2-oxobutanoate dehydrogenase (2-methylpropanoyl-transferring) activity;P:metabolic process;C:mitochondrion;BOMFPA O.I. C.G. H.G.
32.3 99.7 202.5 At1g16740 838245 ribosomal protein L20 family protein F:structural constituent of ribosome, RNA binding;P:translation, ribosome biogenesis;C:ribosome, intracellular;BOPM O.I. C.G. H.G.
32.0 99.7 56.6 At5g48240 834877 unknown protein F:molecular_function unknown;P:biological_process unknown;C:nucleolus;MOFPB O.I. C.G. H.G.
31.6 99.7 30.2 At1g23160 838924 auxin-responsive GH3 family protein F:unknown;P:response to auxin stimulus;C:unknown;OPBMF O.I. C.G. H.G.
31.5 99.7 28.7 At5g14020 831250 - F:unknown;P:N-terminal protein myristoylation;C:vacuole;P O.I. C.G. H.G.
31.3 99.7 29.7 At3g15240 820755 - - O.I. C.G. H.G.
31.1 99.7 80.7 At5g19520 832072 MSL9 (MECHANOSENSITIVE CHANNEL OF SMALL CONDUCTANCE-LIKE 9) F:mechanically-gated ion channel activity;P:detection of mechanical stimulus;C:nucleus, plasma membrane, membrane;BOFPAV O.I. C.G. H.G.
30.7 99.7 31.3 At1g44318 841025 hemb2 F:porphobilinogen synthase activity, catalytic activity, metal ion binding;P:porphyrin biosynthetic process;C:unknown;OBMFAP O.I. C.G. H.G.
30.6 99.7 46.4 At5g57500 835854 transferase, transferring glycosyl groups F:transferase activity, transferring glycosyl groups;P:protein amino acid glycosylation;C:endomembrane system, membrane;PMOF O.I. C.G. H.G.
30.4 99.7 171.6 At1g52930 841726 brix domain-containing protein F:unknown;P:unknown;C:cellular_component unknown;MFOP O.I. C.G. H.G.
30.1 99.7 41.4 At5g04970 830379 pectinesterase, putative F:enzyme inhibitor activity, pectinesterase activity;P:cell wall modification;C:cell wall;MOPBFVA O.I. C.G. H.G.
30.0 99.7 36.1 At1g33750 840266 terpene synthase/cyclase family protein F:lyase activity, magnesium ion binding;P:metabolic process;C:unknown;PO O.I. C.G. H.G.
29.1 99.7 43.9 At3g12860 820468 nucleolar protein Nop56, putative F:unknown;P:biological_process unknown;C:unknown;MOFPBAV O.I. C.G. H.G.
28.9 99.7 209.0 At1g52060 841635 - F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;PMOB O.I. C.G. H.G.
28.2 99.7 102.7 At1g73620 843696 thaumatin-like protein, putative / pathogenesis-related protein, putative F:unknown;P:response to other organism;C:membrane;PMFBO O.I. C.G. H.G.
27.4 99.7 322.2 At4g15910 827273 ATDI21 (ARABIDOPSIS THALIANA DROUGHT-INDUCED 21) encodes a gene whose transcript level in root and leaves increases to progressive drought stress. The transcript level is also affected by changes of endogenous or exogenous abscisic acid level. It appears to be a member of plant-specific gene family that includes late embryo-abundant and zinc- IAA-induced proteins in other plants. O.I. C.G. H.G.
27.3 99.7 25.4 At1g63250 842631 DEAD box RNA helicase, putative F:helicase activity, ATP-dependent helicase activity, ATP binding, nucleic acid binding;P:biological_process unknown;C:cellular_component unknown;BOMFPAV O.I. C.G. H.G.
26.7 99.7 72.6 At4g27400 828848 late embryogenesis abundant protein-related / LEA protein-related F:unknown;P:response to salt stress;C:endomembrane system;P O.I. C.G. H.G.
26.4 99.7 22.7 At4g01240 827909 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. C.G. H.G.
26.3 99.7 70.3 At1g65570 842868 polygalacturonase, putative / pectinase, putative F:polygalacturonase activity;P:carbohydrate metabolic process;C:endomembrane system;FPBOMA O.I. C.G. H.G.
26.2 99.7 46.1 At1g74490 843790 protein kinase, putative F:protein serine/threonine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:cellular_component unknown;MPOBFVA O.I. C.G. H.G.
26.1 99.7 28.9 At2g42110 818811 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO O.I. C.G. H.G.
26.0 99.7 27.8 At1g07290 837240 nucleotide-sugar transmembrane transporter F:nucleotide-sugar transmembrane transporter activity;P:biological_process unknown;C:cellular_component unknown;MFPO O.I. C.G. H.G.
25.8 99.7 65.6 At2g04025 814929 unknown protein F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P O.I. C.G. H.G.
25.7 99.7 131.3 At2g41800 818779 - F:molecular_function unknown;P:biological_process unknown;C:cell wall, plant-type cell wall;P O.I. C.G. H.G.
25.6 99.7 57.4 At1g69526 843287 UbiE/COQ5 methyltransferase family protein F:methyltransferase activity;P:unknown;C:chloroplast;PBO O.I. C.G. H.G.
24.4 99.6 26.0 At3g05390 819703 unknown protein F:molecular_function unknown;P:biological_process unknown;C:mitochondrion;PABO O.I. C.G. H.G.
24.1 99.6 97.4 At1g80270 844367 DNA-binding protein, putative F:DNA binding;P:biological_process unknown;C:chloroplast envelope;POMF O.I. C.G. H.G.
24.0 99.6 48.9 At2g19385 816457 zinc ion binding F:zinc ion binding;P:biological_process unknown;C:intracellular;MOFPB O.I. C.G. H.G.
23.9 99.6 113.4 At2g35605 818127 SWIB complex BAF60b domain-containing protein F:molecular_function unknown;P:biological_process unknown;C:unknown;OPBFMV O.I. C.G. H.G.
23.9 99.6 14.8 At4g05210 825869 bacterial transferase hexapeptide repeat-containing protein F:transferase activity;P:biological_process unknown;C:cellular_component unknown;BOAPFMV O.I. C.G. H.G.
23.7 99.6 35.3 At2g18220 816337 - F:unknown;P:biological_process unknown;C:cellular_component unknown;MOFPBVA O.I. C.G. H.G.
23.2 99.6 94.5 At1g14620 838024 DECOY (DECOY) F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;FMPOB O.I. C.G. H.G.
23.2 99.6 94.2 At3g01740 821088 - F:molecular_function unknown;P:biological_process unknown;C:unknown;MPFO O.I. C.G. H.G.
22.8 99.6 23.9 At5g51470 835221 auxin-responsive GH3 family protein F:molecular_function unknown;P:response to auxin stimulus;C:cellular_component unknown;POBMF O.I. C.G. H.G.
22.6 99.6 211.4 At2g40360 818629 transducin family protein / WD-40 repeat family protein F:nucleotide binding;P:rRNA processing;C:nucleus;BMOFPVA O.I. C.G. H.G.
22.4 99.6 57.3 At1g74500 843791 bHLH family protein F:transcription factor activity, DNA binding;P:regulation of transcription;C:nucleus;P O.I. C.G. H.G.
22.3 99.6 34.0 At1g14080 837968 FUT6 (FUCOSYLTRANSFERASE 6) member of Xyloglucan fucosyltransferase family O.I. C.G. H.G.
21.9 99.6 94.6 At3g15590 820799 DNA-binding protein, putative F:DNA binding;P:unknown;C:mitochondrion;PMOFB O.I. C.G. H.G.
21.8 99.6 87.8 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.
21.8 99.6 70.8 At5g20400 832162 oxidoreductase, 2OG-Fe(II) oxygenase family protein encodes a protein whose sequence is similar to flavanone 3 hydroxylase from Malus. O.I. C.G. H.G.
21.7 99.6 112.4 At3g05060 819668 SAR DNA-binding protein, putative SAR DNA-binding protein, putative, strong similarity to SAR DNA-binding protein-1 (Pisum sativum) GI:3132696; contains Pfam profile PF01798: Putative snoRNA binding domain; encodes NOP58-like protein O.I. C.G. H.G.
21.5 99.6 73.4 At5g27120 832770 SAR DNA-binding protein, putative SAR DNA-binding protein, putative, strong similarity to SAR DNA-binding protein-1 (Pisum sativum) GI:3132696; contains Pfam profile PF01798: Putative snoRNA binding domain; has similarity to MAR binding NOP58 protein O.I. C.G. H.G.
21.4 99.6 36.0 At1g06720 837182 - F:unknown;P:ribosome biogenesis;C:nucleus;OMFBPVA O.I. C.G. H.G.
21.4 99.6 17.3 At3g06840 819868 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. C.G. H.G.
21.1 99.6 104.4 At1g04870 839393 PRMT10 Encodes a type I protein arginine methyltransferase based on the At1g04870.2 gene model. PRMT10 can catalyze the asymmetric dimethylation of arginine 3 on histone 4 and can also methylate myelin basic protein in vitro. Mutants lacking PRMT10 flower late due to defects in the autonomous pathway and they have elevated levels of FLC transcripts. O.I. C.G. H.G.
21.0 99.6 7.3 At1g47620 841171 CYP96A8 member of CYP96A O.I. C.G. H.G.
20.9 99.6 42.6 At2g14460 815934 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. C.G. H.G.
20.8 99.6 29.7 At3g18510 821381 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. C.G. H.G.
20.4 99.6 103.2 At1g07070 837218 60S ribosomal protein L35a (RPL35aA) F:structural constituent of ribosome;P:translation, ribosome biogenesis;C:cytosolic large ribosomal subunit, ribosome;MOFPA O.I. C.G. H.G.
20.4 99.6 32.1 At5g14690 831321 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PVM O.I. C.G. H.G.
20.1 99.6 13.9 At2g31725 817729 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPO O.I. C.G. H.G.
19.7 99.6 122.2 At5g56940 835796 ribosomal protein S16 family protein F:structural constituent of ribosome;P:translation, ribosome biogenesis;C:ribosome, intracellular;BOPMF O.I. C.G. H.G.
19.6 99.6 36.6 At1g03360 839521 ATRRP4 (ARABIDOPSIS THALIANA RIBOSOMAL RNA PROCESSING 4) F:RNA binding, exonuclease activity;P:unknown;C:mitochondrion;OMAFP 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.
276.8	100.0	67.3	At3g62760	825451	ATGSTF13	Encodes glutathione transferase belonging to the phi class of GSTs. Naming convention according to Wagner et al. (2002).	O.I.	C.G.	H.G.
129.6	99.9	156.8	At4g37160	829870	sks15 (SKU5 Similar 15)	F:oxidoreductase activity, copper ion binding;P:unknown;C:endomembrane system;FBPMOA	O.I.	C.G.	H.G.
123.4	99.9	279.3	At1g22880	838893	CEL5 (CELLULASE 5)	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.
110.0	99.9	95.6	At5g48110	834863	terpene synthase/cyclase family protein	F:lyase activity, magnesium ion binding;P:metabolic process;C:chloroplast;PMO	O.I.	C.G.	H.G.
109.6	99.9	165.1	At5g35940	833584	jacalin lectin family protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POBM	O.I.	C.G.	H.G.
95.5	99.9	42.2	At2g23050	816835	NPY4 (NAKED PINS IN YUC MUTANTS 4)	A member of the NPY gene family (NPY1/AT4G31820, NPY2/AT2G14820, NPY3/AT5G67440, NPY4/AT2G23050, NPY5/AT4G37590). Involved in auxin-mediated organogenesis.	O.I.	C.G.	H.G.
93.7	99.9	222.7	At5g10130	830877	pollen Ole e 1 allergen and extensin family protein	F:molecular_function unknown;P:biological_process unknown;C:extracellular space, endomembrane system;P	O.I.	C.G.	H.G.
85.6	99.9	265.5	At5g62340	836355	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.
84.3	99.9	49.6	At5g57980	835909	RPB5C (RNA POLYMERASE II FIFTH LARGEST SUBUNIT, C)	NRPB5-like protein of unknown function; homologous to budding yeast RPB5	O.I.	C.G.	H.G.
82.7	99.9	103.7	At2g43600	818962	glycoside hydrolase family 19 protein	F:chitin binding, chitinase activity;P:cell wall macromolecule catabolic process;C:endomembrane system;PBOMFV	O.I.	C.G.	H.G.
78.9	99.9	57.1	At5g14750	831327	ATMYB66 (MYB DOMAIN PROTEIN 66)	Encodes a MyB-related protein containing R2 and R3 repeats, involved in root and hypocotyl epidermal cell fate determination. Loss of function mutations make extra root hairs. Nuclear localized protein is a positive regulator for expression of CAPRICE (CPC).	O.I.	C.G.	H.G.
75.2	99.9	34.8	At2g43480	818949	peroxidase, putative	F:electron carrier activity, peroxidase activity, heme binding;P:response to oxidative stress;C:endomembrane system;PFOM	O.I.	C.G.	H.G.
73.2	99.9	20.5	At5g15725	831428	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P	O.I.	C.G.	H.G.
71.0	99.9	164.7	At4g17460	827457	HAT1	Encodes homeobox protein HAT1.	O.I.	C.G.	H.G.
60.8	99.8	211.1	At1g50060	841430	pathogenesis-related protein, putative	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system, extracellular region;MPFOB	O.I.	C.G.	H.G.
59.7	99.8	51.4	At1g36060	840510	AP2 domain-containing transcription factor, putative	encodes a member of the DREB subfamily A-6 of ERF/AP2 transcription factor family. The protein contains one AP2 domain. There are 8 members in this subfamily including RAP2.4.	O.I.	C.G.	H.G.
59.4	99.8	28.4	At4g10640	826656	IQD16 (IQ-domain 16)	F:calmodulin binding;P:biological_process unknown;C:cellular_component unknown;PMOF	O.I.	C.G.	H.G.
55.3	99.8	40.4	At1g56680	842124	glycoside hydrolase family 19 protein	F:chitinase activity;P:cell wall macromolecule catabolic process;C:endomembrane system;PBOMFV	O.I.	C.G.	H.G.
53.3	99.8	112.0	At5g60520	836173	late embryogenesis abundant protein-related / LEA protein-related	F:molecular_function unknown;P:unknown;C:endomembrane system;P	O.I.	C.G.	H.G.
52.8	99.8	304.1	At1g52070	841636	jacalin lectin family protein	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;PMOB	O.I.	C.G.	H.G.
52.5	99.8	202.4	At3g19430	821477	late embryogenesis abundant protein-related / LEA protein-related	F:structural constituent of cell wall;P:unknown;C:unknown;MBOFPVA	O.I.	C.G.	H.G.
51.1	99.8	17.1	At5g52170	835293	HDG7 (HOMEODOMAIN GLABROUS 7)	Encodes a homeobox-leucine zipper family protein belonging to the HD-ZIP IV family.	O.I.	C.G.	H.G.
50.9	99.8	392.8	At5g54370	835525	late embryogenesis abundant protein-related / LEA protein-related	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P	O.I.	C.G.	H.G.
49.5	99.8	97.4	At3g04320	819587	endopeptidase inhibitor	F:endopeptidase inhibitor activity;P:biological_process unknown;C:endomembrane system;P	O.I.	C.G.	H.G.
46.7	99.8	64.7	At1g17560	838332	HLL (HUELLENLOS)	Mutant shows abnormal ovule development	O.I.	C.G.	H.G.
46.0	99.8	22.1	At3g30350	822736	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P	O.I.	C.G.	H.G.
45.7	99.8	15.4	At3g27473	822369	DC1 domain-containing protein	F:protein binding, zinc ion binding;P:intracellular signaling cascade;C:unknown;PMO	O.I.	C.G.	H.G.
43.9	99.8	144.6	At4g31120	829240	SKB1 (SHK1 BINDING PROTEIN 1)	Involved in vernalization. Required for epigenetic silencing of FLC, and for vernalization-mediated histone modification.	O.I.	C.G.	H.G.
42.2	99.8	94.5	At2g45730	819181	eukaryotic initiation factor 3 gamma subunit family protein	F:translation initiation factor activity;P:translational initiation, regulation of translational initiation;C:cellular_component unknown;MFOP	O.I.	C.G.	H.G.
42.2	99.8	42.2	At5g48940	834952	leucine-rich repeat transmembrane protein kinase, putative	F:protein binding, protein serine/threonine kinase activity, protein tyrosine kinase activity, protein kinase activity, ATP binding;P:transmembrane receptor protein tyrosine kinase signaling pathway, protein amino acid phosphorylation;C:unknown;MPOBFVA	O.I.	C.G.	H.G.
41.6	99.8	78.3	At2g20515	816573	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P	O.I.	C.G.	H.G.
40.9	99.8	73.6	At4g29690	829090	type I phosphodiesterase/nucleotide pyrophosphatase family protein	F:hydrolase activity, catalytic activity;P:metabolic process, nucleotide metabolic process;C:endomembrane system;MBOFPAV	O.I.	C.G.	H.G.
40.9	99.8	23.6	At5g53290	835410	CRF3 (CYTOKININ RESPONSE FACTOR 3)	encodes a member of the ERF (ethylene response factor) subfamily B-5 of ERF/AP2 transcription factor family. The protein contains one AP2 domain. There are 7 members in this subfamily.	O.I.	C.G.	H.G.
40.6	99.8	18.2	At1g03840	839396	MGP (Magpie)	MGP is a nuclear-localized putative transcription factor with three zinc finger domains. MGP can interact with three proteins implicated in root patterning: SCR, SHR, and JKD in Y2H assays, and these interactions depend on the first zinc finger in MGP. MGP appears to be a direct transcriptional target of SHR and SCR, based on promoter binding assays, though it is not expressed in the QC, based on in situ hybridizations.	O.I.	C.G.	H.G.
40.2	99.8	232.2	At1g52050	841634	jacalin lectin family protein	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;PMO	O.I.	C.G.	H.G.
40.1	99.8	365.9	At3g57150	824882	NAP57 (Arabidopsis thaliana homologue of NAP57)	Encodes a putative pseudouridine synthase (NAP57).	O.I.	C.G.	H.G.
38.9	99.8	11.6	At5g40320	834030	DC1 domain-containing protein	F:protein binding, zinc ion binding;P:intracellular signaling cascade;C:cellular_component unknown;POM	O.I.	C.G.	H.G.
38.5	99.8	75.9	At5g57120	835816	-	F:molecular_function unknown;P:biological_process unknown;C:nucleolus;MOBFPVA	O.I.	C.G.	H.G.
38.4	99.8	163.9	At2g42740	818874	RPL16A	encodes a cytosolic ribosomal protein L16, which is a constituent of 60S large ribosomal complex. Gene is expressed in root stele and anthers and expression is induced by auxin treatment.	O.I.	C.G.	H.G.
38.4	99.8	88.3	At1g79150	844256	binding	F:binding;P:biological_process unknown;C:cellular_component unknown;OMFBPVA	O.I.	C.G.	H.G.
38.4	99.8	75.8	At2g19670	816486	PRMT1A (PROTEIN ARGININE METHYLTRANSFERASE 1A)	F:protein-arginine N-methyltransferase activity;P:unknown;C:unknown;MBOPFA	O.I.	C.G.	H.G.
36.9	99.7	31.1	At1g33280	840223	ANAC015 (Arabidopsis NAC domain containing protein 15)	F:transcription factor activity;P:multicellular organismal development, regulation of transcription;C:cellular_component unknown;P	O.I.	C.G.	H.G.
36.6	99.7	38.1	At1g11000	837643	MLO4 (MILDEW RESISTANCE LOCUS O 4)	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. ATMLO4 belongs to the clade I, with AtMLO11 and AtMLO14. The gene is expressed during early seedling growth, in roots and lateral root primordia, in flower and fruit abscission zone, in vascular system of root, cotyledons and young leaves, it was not expressed in mature rosette leaves, 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.
35.3	99.7	161.0	At2g25980	817139	jacalin lectin family protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PBO	O.I.	C.G.	H.G.
35.0	99.7	52.7	At5g38720	833863	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;OMFBPVA	O.I.	C.G.	H.G.
33.6	99.7	69.0	At2g23630	816895	sks16 (SKU5 Similar 16)	F:pectinesterase activity, copper ion binding;P:unknown;C:endomembrane system;FBPMOA	O.I.	C.G.	H.G.
32.6	99.7	44.3	At5g09300	830789	2-oxoisovalerate dehydrogenase, putative / 3-methyl-2-oxobutanoate dehydrogenase, putative / branched-chain alpha-keto acid dehydrogenase E1 alpha subunit, putative	F:oxidoreductase activity, acting on the aldehyde or oxo group of donors, disulfide as acceptor, 3-methyl-2-oxobutanoate dehydrogenase (2-methylpropanoyl-transferring) activity;P:metabolic process;C:mitochondrion;BOMFPA	O.I.	C.G.	H.G.
32.3	99.7	202.5	At1g16740	838245	ribosomal protein L20 family protein	F:structural constituent of ribosome, RNA binding;P:translation, ribosome biogenesis;C:ribosome, intracellular;BOPM	O.I.	C.G.	H.G.
32.0	99.7	56.6	At5g48240	834877	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:nucleolus;MOFPB	O.I.	C.G.	H.G.
31.6	99.7	30.2	At1g23160	838924	auxin-responsive GH3 family protein	F:unknown;P:response to auxin stimulus;C:unknown;OPBMF	O.I.	C.G.	H.G.
31.5	99.7	28.7	At5g14020	831250	-	F:unknown;P:N-terminal protein myristoylation;C:vacuole;P	O.I.	C.G.	H.G.
31.3	99.7	29.7	At3g15240	820755	-	-	O.I.	C.G.	H.G.
31.1	99.7	80.7	At5g19520	832072	MSL9 (MECHANOSENSITIVE CHANNEL OF SMALL CONDUCTANCE-LIKE 9)	F:mechanically-gated ion channel activity;P:detection of mechanical stimulus;C:nucleus, plasma membrane, membrane;BOFPAV	O.I.	C.G.	H.G.
30.7	99.7	31.3	At1g44318	841025	hemb2	F:porphobilinogen synthase activity, catalytic activity, metal ion binding;P:porphyrin biosynthetic process;C:unknown;OBMFAP	O.I.	C.G.	H.G.
30.6	99.7	46.4	At5g57500	835854	transferase, transferring glycosyl groups	F:transferase activity, transferring glycosyl groups;P:protein amino acid glycosylation;C:endomembrane system, membrane;PMOF	O.I.	C.G.	H.G.
30.4	99.7	171.6	At1g52930	841726	brix domain-containing protein	F:unknown;P:unknown;C:cellular_component unknown;MFOP	O.I.	C.G.	H.G.
30.1	99.7	41.4	At5g04970	830379	pectinesterase, putative	F:enzyme inhibitor activity, pectinesterase activity;P:cell wall modification;C:cell wall;MOPBFVA	O.I.	C.G.	H.G.
30.0	99.7	36.1	At1g33750	840266	terpene synthase/cyclase family protein	F:lyase activity, magnesium ion binding;P:metabolic process;C:unknown;PO	O.I.	C.G.	H.G.
29.1	99.7	43.9	At3g12860	820468	nucleolar protein Nop56, putative	F:unknown;P:biological_process unknown;C:unknown;MOFPBAV	O.I.	C.G.	H.G.
28.9	99.7	209.0	At1g52060	841635	-	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;PMOB	O.I.	C.G.	H.G.
28.2	99.7	102.7	At1g73620	843696	thaumatin-like protein, putative / pathogenesis-related protein, putative	F:unknown;P:response to other organism;C:membrane;PMFBO	O.I.	C.G.	H.G.
27.4	99.7	322.2	At4g15910	827273	ATDI21 (ARABIDOPSIS THALIANA DROUGHT-INDUCED 21)	encodes a gene whose transcript level in root and leaves increases to progressive drought stress. The transcript level is also affected by changes of endogenous or exogenous abscisic acid level. It appears to be a member of plant-specific gene family that includes late embryo-abundant and zinc- IAA-induced proteins in other plants.	O.I.	C.G.	H.G.
27.3	99.7	25.4	At1g63250	842631	DEAD box RNA helicase, putative	F:helicase activity, ATP-dependent helicase activity, ATP binding, nucleic acid binding;P:biological_process unknown;C:cellular_component unknown;BOMFPAV	O.I.	C.G.	H.G.
26.7	99.7	72.6	At4g27400	828848	late embryogenesis abundant protein-related / LEA protein-related	F:unknown;P:response to salt stress;C:endomembrane system;P	O.I.	C.G.	H.G.
26.4	99.7	22.7	At4g01240	827909	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	C.G.	H.G.
26.3	99.7	70.3	At1g65570	842868	polygalacturonase, putative / pectinase, putative	F:polygalacturonase activity;P:carbohydrate metabolic process;C:endomembrane system;FPBOMA	O.I.	C.G.	H.G.
26.2	99.7	46.1	At1g74490	843790	protein kinase, putative	F:protein serine/threonine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:cellular_component unknown;MPOBFVA	O.I.	C.G.	H.G.
26.1	99.7	28.9	At2g42110	818811	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO	O.I.	C.G.	H.G.
26.0	99.7	27.8	At1g07290	837240	nucleotide-sugar transmembrane transporter	F:nucleotide-sugar transmembrane transporter activity;P:biological_process unknown;C:cellular_component unknown;MFPO	O.I.	C.G.	H.G.
25.8	99.7	65.6	At2g04025	814929	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P	O.I.	C.G.	H.G.
25.7	99.7	131.3	At2g41800	818779	-	F:molecular_function unknown;P:biological_process unknown;C:cell wall, plant-type cell wall;P	O.I.	C.G.	H.G.
25.6	99.7	57.4	At1g69526	843287	UbiE/COQ5 methyltransferase family protein	F:methyltransferase activity;P:unknown;C:chloroplast;PBO	O.I.	C.G.	H.G.
24.4	99.6	26.0	At3g05390	819703	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:mitochondrion;PABO	O.I.	C.G.	H.G.
24.1	99.6	97.4	At1g80270	844367	DNA-binding protein, putative	F:DNA binding;P:biological_process unknown;C:chloroplast envelope;POMF	O.I.	C.G.	H.G.
24.0	99.6	48.9	At2g19385	816457	zinc ion binding	F:zinc ion binding;P:biological_process unknown;C:intracellular;MOFPB	O.I.	C.G.	H.G.
23.9	99.6	113.4	At2g35605	818127	SWIB complex BAF60b domain-containing protein	F:molecular_function unknown;P:biological_process unknown;C:unknown;OPBFMV	O.I.	C.G.	H.G.
23.9	99.6	14.8	At4g05210	825869	bacterial transferase hexapeptide repeat-containing protein	F:transferase activity;P:biological_process unknown;C:cellular_component unknown;BOAPFMV	O.I.	C.G.	H.G.
23.7	99.6	35.3	At2g18220	816337	-	F:unknown;P:biological_process unknown;C:cellular_component unknown;MOFPBVA	O.I.	C.G.	H.G.
23.2	99.6	94.5	At1g14620	838024	DECOY (DECOY)	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;FMPOB	O.I.	C.G.	H.G.
23.2	99.6	94.2	At3g01740	821088	-	F:molecular_function unknown;P:biological_process unknown;C:unknown;MPFO	O.I.	C.G.	H.G.
22.8	99.6	23.9	At5g51470	835221	auxin-responsive GH3 family protein	F:molecular_function unknown;P:response to auxin stimulus;C:cellular_component unknown;POBMF	O.I.	C.G.	H.G.
22.6	99.6	211.4	At2g40360	818629	transducin family protein / WD-40 repeat family protein	F:nucleotide binding;P:rRNA processing;C:nucleus;BMOFPVA	O.I.	C.G.	H.G.
22.4	99.6	57.3	At1g74500	843791	bHLH family protein	F:transcription factor activity, DNA binding;P:regulation of transcription;C:nucleus;P	O.I.	C.G.	H.G.
22.3	99.6	34.0	At1g14080	837968	FUT6 (FUCOSYLTRANSFERASE 6)	member of Xyloglucan fucosyltransferase family	O.I.	C.G.	H.G.
21.9	99.6	94.6	At3g15590	820799	DNA-binding protein, putative	F:DNA binding;P:unknown;C:mitochondrion;PMOFB	O.I.	C.G.	H.G.
21.8	99.6	87.8	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.
21.8	99.6	70.8	At5g20400	832162	oxidoreductase, 2OG-Fe(II) oxygenase family protein	encodes a protein whose sequence is similar to flavanone 3 hydroxylase from Malus.	O.I.	C.G.	H.G.
21.7	99.6	112.4	At3g05060	819668	SAR DNA-binding protein, putative	SAR DNA-binding protein, putative, strong similarity to SAR DNA-binding protein-1 (Pisum sativum) GI:3132696; contains Pfam profile PF01798: Putative snoRNA binding domain; encodes NOP58-like protein	O.I.	C.G.	H.G.
21.5	99.6	73.4	At5g27120	832770	SAR DNA-binding protein, putative	SAR DNA-binding protein, putative, strong similarity to SAR DNA-binding protein-1 (Pisum sativum) GI:3132696; contains Pfam profile PF01798: Putative snoRNA binding domain; has similarity to MAR binding NOP58 protein	O.I.	C.G.	H.G.
21.4	99.6	36.0	At1g06720	837182	-	F:unknown;P:ribosome biogenesis;C:nucleus;OMFBPVA	O.I.	C.G.	H.G.
21.4	99.6	17.3	At3g06840	819868	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	C.G.	H.G.
21.1	99.6	104.4	At1g04870	839393	PRMT10	Encodes a type I protein arginine methyltransferase based on the At1g04870.2 gene model. PRMT10 can catalyze the asymmetric dimethylation of arginine 3 on histone 4 and can also methylate myelin basic protein in vitro. Mutants lacking PRMT10 flower late due to defects in the autonomous pathway and they have elevated levels of FLC transcripts.	O.I.	C.G.	H.G.
21.0	99.6	7.3	At1g47620	841171	CYP96A8	member of CYP96A	O.I.	C.G.	H.G.
20.9	99.6	42.6	At2g14460	815934	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	C.G.	H.G.
20.8	99.6	29.7	At3g18510	821381	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	C.G.	H.G.
20.4	99.6	103.2	At1g07070	837218	60S ribosomal protein L35a (RPL35aA)	F:structural constituent of ribosome;P:translation, ribosome biogenesis;C:cytosolic large ribosomal subunit, ribosome;MOFPA	O.I.	C.G.	H.G.
20.4	99.6	32.1	At5g14690	831321	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PVM	O.I.	C.G.	H.G.
20.1	99.6	13.9	At2g31725	817729	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPO	O.I.	C.G.	H.G.
19.7	99.6	122.2	At5g56940	835796	ribosomal protein S16 family protein	F:structural constituent of ribosome;P:translation, ribosome biogenesis;C:ribosome, intracellular;BOPMF	O.I.	C.G.	H.G.
19.6	99.6	36.6	At1g03360	839521	ATRRP4 (ARABIDOPSIS THALIANA RIBOSOMAL RNA PROCESSING 4)	F:RNA binding, exonuclease activity;P:unknown;C:mitochondrion;OMAFP	O.I.	C.G.	H.G.

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GSM ID	GSM252686
Assay name	Arabidopsis Root from tip to 130 mm proximal to tip (cut 8dpg) rep3
GSE experiment	GSE9996: Organ regeneration in plants is independent of stem cell niche activity

Microarray experiments to specifically-expressed genes

GSM ID GSM252686 Assay name Arabidopsis Root from tip to 130 mm proximal to tip (cut 8dpg) rep3 GSE experiment GSE9996: Organ regeneration in plants is independent of stem cell niche activity

GSM ID GSM252686

Assay name Arabidopsis Root from tip to 130 mm proximal to tip (cut 8dpg) rep3

GSE experiment GSE9996: Organ regeneration in plants is independent of stem cell niche activity