Microarray experiments to specifically-expressed genes

GSM ID GSM252679
Assay name Regenerating Stump of Root Tip Cut at 130 mm first and then Recut after 22 hrs Taking 70 mm of Stump (4dpg) rep1
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
92.399.9161.0At5g63660836486PDF2.5Predicted to encode a PR (pathogenesis-related) protein. Belongs to the plant defensin (PDF) family with the following members: At1g75830/PDF1.1, At5g44420/PDF1.2a, At2g26020/PDF1.2b, At5g44430/PDF1.2c, At2g26010/PDF1.3, At1g19610/PDF1.4, At1g55010/PDF1.5, At2g02120/PDF2.1, At2g02100/PDF2.2, At2g02130/PDF2.3, At1g61070/PDF2.4, At5g63660/PDF2.5, At2g02140/PDF2.6, At5g38330/PDF3.1 and At4g30070/PDF3.2.O.I.C.G.H.G.
69.499.945.0At5g57980835909RPB5C (RNA POLYMERASE II FIFTH LARGEST SUBUNIT, C)NRPB5-like protein of unknown function; homologous to budding yeast RPB5O.I.C.G.H.G.
64.499.842.6At3g15240820755--O.I.C.G.H.G.
57.999.8105.4At3g04320819587endopeptidase inhibitorF:endopeptidase inhibitor activity;P:biological_process unknown;C:endomembrane system;PO.I.C.G.H.G.
57.099.8119.0At5g35940833584jacalin lectin family proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POBMO.I.C.G.H.G.
47.099.836.1At4g01730826911zinc ion bindingF:zinc ion binding;P:biological_process unknown;C:unknown;MOFPO.I.C.G.H.G.
45.299.829.7At3g27950822419early nodule-specific protein, putativeF:hydrolase activity, acting on ester bonds, carboxylesterase activity;P:lipid metabolic process;C:endomembrane system;PBOFMO.I.C.G.H.G.
42.999.855.8At3g02120821311hydroxyproline-rich glycoprotein family proteinF:molecular_function unknown;P:response to cyclopentenone;C:cellular_component unknown;PO.I.C.G.H.G.
42.399.866.0At5g48310834884unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POMO.I.C.G.H.G.
41.099.823.2At5g48130834865phototropic-responsive NPH3 family proteinF:protein binding, signal transducer activity;P:response to light stimulus;C:chloroplast;PO.I.C.G.H.G.
38.199.835.0At2g42110818811unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POO.I.C.G.H.G.
37.999.834.2At1g80370844377CYCA2F:cyclin-dependent protein kinase regulator activity;P:regulation of cell cycle;C:nucleus, chloroplast;MPOFVBO.I.C.G.H.G.
36.799.7119.2At1g16000838170unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.C.G.H.G.
34.799.753.7At5g48110834863terpene synthase/cyclase family proteinF:lyase activity, magnesium ion binding;P:metabolic process;C:chloroplast;PMOO.I.C.G.H.G.
34.199.743.1At3g19200821454unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.C.G.H.G.
33.899.7172.0At5g15320831384unknown proteinF:molecular_function unknown;P:biological_process unknown;C:endomembrane system;PO.I.C.G.H.G.
31.799.766.3At3g5517082468360S ribosomal protein L35 (RPL35C)F:structural constituent of ribosome;P:translation, ribosome biogenesis;C:cytosolic large ribosomal subunit, ribosome;MOBAFPO.I.C.G.H.G.
31.499.728.7At5g05680830452nuclear pore complex protein-relatedF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOFPBAO.I.C.G.H.G.
31.199.7136.0At3g52040824367unknown proteinF:molecular_function unknown;P:biological_process unknown;C:unknown;PO.I.C.G.H.G.
31.099.7127.3At1g0707083721860S ribosomal protein L35a (RPL35aA)F:structural constituent of ribosome;P:translation, ribosome biogenesis;C:cytosolic large ribosomal subunit, ribosome;MOFPAO.I.C.G.H.G.
30.099.751.9At1g17560838332HLL (HUELLENLOS)Mutant shows abnormal ovule developmentO.I.C.G.H.G.
29.799.739.4At4g37090829863unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;OMFPBVAO.I.C.G.H.G.
29.499.777.5At5g57090835813EIR1 (ETHYLENE INSENSITIVE ROOT 1)Encodes an auxin efflux carrier that is similar to bacterial membrane transporters. Root-specific role in the transport of auxin. Acts downstream of CTR1 and ethylene biosynthesis, in the same pathway as EIN2 and AUX1, and independent from EIN3 and EIN5/AIN1 pathway. In the root, the protein localizes apically in epidermal and lateral root cap cells and predominantly basally in cortical cells. Functions may be regulated by phosphorylation status. EIR1 expression is induced by brassinolide treatment in the brassinosteroid-insensitive br1 mutant. Gravistimulation resulted in asymmetric PIN2 distribution, with more protein degraded at the upper side of the gravistimulated root. Protein turnover is affected by the proteasome and by endosomal cycling. Plasma membrane-localized PIN proteins mediate a saturable efflux of auxin. PINs mediate auxin efflux from mammalian and yeast cells without needing additional plant-specific factors. The action of PINs in auxin efflux is distinct from PGPs, rate-limiting, specific to auxins and sensitive to auxin transport inhibitors. Membrane sterol composition is essential for the acquisition of PIN2 polarity.O.I.C.G.H.G.
28.999.732.6At1g08220837343-F:molecular_function unknown;P:mitochondrial proton-transporting ATP synthase complex assembly;C:mitochondrial inner membrane;FPOAMO.I.C.G.H.G.
28.499.714.4At3g496308241252-oxoacid-dependent oxidase, putativeF:oxidoreductase activity, iron ion binding;P:aging, cellular response to starvation;C:endomembrane system;POBFMO.I.C.G.H.G.
28.199.710.2At2g16230816120catalytic/ cation binding / hydrolase, hydrolyzing O-glycosyl compoundsF:cation binding, hydrolase activity, hydrolyzing O-glycosyl compounds, catalytic activity;P:carbohydrate metabolic process;C:endomembrane system;PFOO.I.C.G.H.G.
27.999.7122.8At1g05205839266unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.C.G.H.G.
27.299.7116.2At4g3455582960740S ribosomal protein S25, putativeF:structural constituent of ribosome;P:translation;C:cytosolic small ribosomal subunit, ribosome;MFPOAO.I.C.G.H.G.
26.999.7172.0At5g01040831877LAC8 (laccase 8)putative laccase, knockout mutant showed early floweringO.I.C.G.H.G.
26.499.725.7At3g57360824903unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPO.I.C.G.H.G.
26.099.742.2At1g46264841110AT-HSFB4member of Heat Stress Transcription Factor (Hsf) familyO.I.C.G.H.G.
24.999.623.9At5g53090835389binding / catalytic/ oxidoreductaseF:oxidoreductase activity, binding, catalytic activity;P:multicellular organismal development, metabolic process;C:cellular_component unknown;BOMFPAO.I.C.G.H.G.
24.499.6275.4At4g29735829095unknown proteinF:molecular_function unknown;P:biological_process unknown;C:endomembrane system;MPOO.I.C.G.H.G.
24.499.624.1At5g60730836194anion-transporting ATPase family proteinF:ATP binding;P:cellular metal ion homeostasis, anion transport;C:membrane;BOAMFPO.I.C.G.H.G.
24.299.644.0At1g21090838705hydroxyproline-rich glycoprotein family proteinF:unknown;P:unknown;C:anchored to membrane;PMFOBO.I.C.G.H.G.
24.199.6218.3At2g40360818629transducin family protein / WD-40 repeat family proteinF:nucleotide binding;P:rRNA processing;C:nucleus;BMOFPVAO.I.C.G.H.G.
23.999.634.1At3g23470821928cyclopropane-fatty-acyl-phospholipid synthaseF:cyclopropane-fatty-acyl-phospholipid synthase activity;P:lipid biosynthetic process;C:endomembrane system;OBFPAMO.I.C.G.H.G.
23.799.623.4At1g26660839206c-myc binding protein, putative / prefoldin, putativeF:unfolded protein binding;P:protein folding;C:prefoldin complex;MFOPABO.I.C.G.H.G.
23.699.658.8At1g74500843791bHLH family proteinF:transcription factor activity, DNA binding;P:regulation of transcription;C:nucleus;PO.I.C.G.H.G.
23.199.6767.4At4g3920083007540S ribosomal protein S25 (RPS25E)F:structural constituent of ribosome;P:translation;C:cytosolic small ribosomal subunit, cytosolic ribosome, ribosome;MFPOAO.I.C.G.H.G.
23.099.662.8At2g24170816951endomembrane protein 70, putativeF:unknown;P:unknown;C:endomembrane system, integral to membrane;MPOFBO.I.C.G.H.G.
23.099.658.7At2g19670816486PRMT1A (PROTEIN ARGININE METHYLTRANSFERASE 1A)F:protein-arginine N-methyltransferase activity;P:unknown;C:unknown;MBOPFAO.I.C.G.H.G.
22.999.624.1At2g28620817411kinesin motor protein-relatedF:microtubule motor activity, ATP binding;P:microtubule-based movement;C:microtubule associated complex, chloroplast;MOBFPAVO.I.C.G.H.G.
22.899.633.9At2g34570818021MEE21 (maternal effect embryo arrest 21)F:molecular_function unknown;P:embryonic development ending in seed dormancy;C:unknown;MFOPO.I.C.G.H.G.
22.699.6187.3At1g54690841910GAMMA-H2AX (GAMMA HISTONE VARIANT H2AX)Encodes HTA3, a histone H2A protein. H2AX is a meiosis-specific isoform of histone H2A. Upon DSB formation, rapid accumulation of phosphorylated H2AX (γ-H2AX) occurs around the break site. H2AX foci accumulate in early G2. Immunolocalization studies in spread preparations of wild-type meiocytes at G2/early leptotene revealed the accumulation of numerous rather diffuse γ-H2AX foci throughout the chromatin. However, their accumulation is not contemporaneous with that of AtSPO11-1. At 3 h post-S, no γ-H2AX foci are detected. During the 3- to 5-h window when AtSPO11-1 foci rapidly disappear, there is an equally swift accumulation of γ-H2AX to a maximum of >50 diffuse foci. The level of γH2AX then remains constant for a further 13 h before undergoing a gradual decrease to 1020 foci in the 18- to 24-h post-S period. By 30 h the foci have disappeared from the chromatin.O.I.C.G.H.G.
22.699.634.0At3g03170821064unknown proteinF:unknown;P:unknown;C:cellular_component unknown;PO.I.C.G.H.G.
22.599.622.5At4g35620829714CYCB2F:cyclin-dependent protein kinase regulator activity;P:regulation of cell cycle;C:nucleus;MPOFVBO.I.C.G.H.G.
22.599.620.5At2g23050816835NPY4 (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.
22.099.641.3At5g56090835708COX15 (cytochrome c oxidase 15)Encodes a homolog of COX15. Microarray analysis show a 3.2 fold increase in transcription after treatment with rotenone, an electron transport chain inhibitor.O.I.C.G.H.G.
21.899.651.9At1g21700838774ATSWI3C (SWITCH/SUCROSE NONFERMENTING 3C)a member of the Arabidopsis SWI3 gene family. Protein physically interacts with ATSWI3B and ATSWI3A, the other two members of the SWI3 family. Homologous to yeast SWI3 & RSC8, components of the SWI/SNF and RSC chromatin remodeling complexes. Referred to as CHB3 in Zhou et al (2003).O.I.C.G.H.G.
21.599.689.6At1g73620843696thaumatin-like protein, putative / pathogenesis-related protein, putativeF:unknown;P:response to other organism;C:membrane;PMFBOO.I.C.G.H.G.
21.499.6284.3At4g15910827273ATDI21 (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.
21.199.675.4At1g02810838078pectinesterase family proteinF:enzyme inhibitor activity, pectinesterase activity;P:cell wall modification;C:endomembrane system, cell wall, plant-type cell wall;PBFMOO.I.C.G.H.G.
21.199.611.7At4g28170828932unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.C.G.H.G.
21.099.619.2At3g62050825378-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PFMO.I.C.G.H.G.
20.999.617.1At3g06840819868unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.C.G.H.G.
20.499.6162.1At2g28020817346-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.C.G.H.G.
20.399.619.2At5g15510831404-F:molecular_function unknown;P:biological_process unknown;C:unknown;MOPFBVO.I.C.G.H.G.
20.399.614.5At5g39820833978anac094 (Arabidopsis NAC domain containing protein 94)F:transcription factor activity;P:multicellular organismal development, regulation of transcription;C:cellular_component unknown;POMO.I.C.G.H.G.
20.299.6199.0At1g18250838405ATLP-1encodes a thaumatin-like proteinO.I.C.G.H.G.
19.899.620.7At3g62280825401carboxylesterase/ hydrolase, acting on ester bondsF:hydrolase activity, acting on ester bonds, carboxylesterase activity;P:lipid metabolic process;C:endomembrane system;PBFOMO.I.C.G.H.G.
19.799.625.2At4g33100829447-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFPOO.I.C.G.H.G.
19.699.611.0At1g26700839211MLO14 (MILDEW RESISTANCE LOCUS O 14)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. ATMLO14 belongs to the clade I, with AtMLO4 and AtMLO11. The gene is expressed during early seedling growth, in developing primary root, and particularly in root tips of 10-day old seedlings; it was not expressed in leaves or flowers, 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.
19.599.653.9At4g15640827241unknown proteinF:molecular_function unknown;P:biological_process unknown;C:mitochondrion;PO.I.C.G.H.G.
19.599.649.7At1g05210839261-F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;MPFOO.I.C.G.H.G.
19.499.627.3At4g23590828459aminotransferase class I and II family proteinF:1-aminocyclopropane-1-carboxylate synthase activity, pyridoxal phosphate binding, transferase activity, transferring nitrogenous groups, transaminase activity, catalytic activity;P:cellular amino acid and derivative metabolic process, biosynthetic process;C:cellular_component unknown;BOPMAFO.I.C.G.H.G.
19.399.6124.1At3g06320819806ribosomal protein L33 family proteinF:structural constituent of ribosome;P:translation;C:ribosome, intracellular, large ribosomal subunit;BOPMFO.I.C.G.H.G.
19.099.5288.1At5g66680836801DGL1Encodes a protein ortholog of human SOT48 or yeast WBP1, an essential protein subunit of the oligosaccharyltransferase (OST) complex, which is responsible for the transfer in the ER of the N-linked glycan precursor onto Asn residues of candidate proteins.O.I.C.G.H.G.
19.099.595.1At4g31120829240SKB1 (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.
18.699.549.7At1g16610838230SR45SR spliceosome protein, interacts with SR33 and the U1-70K protein of the U1 snRNP.O.I.C.G.H.G.
18.599.536.4At5g15980831455pentatricopeptide (PPR) repeat-containing proteinF:molecular_function unknown;P:biological_process unknown;C:mitochondrion;POMBFO.I.C.G.H.G.
18.399.5207.4At5g0261083185360S ribosomal protein L35 (RPL35D)F:structural constituent of ribosome;P:translation, ribosome biogenesis;C:cytosolic ribosome, cytosolic large ribosomal subunit, ribosome, plasma membrane;MOBAFPO.I.C.G.H.G.
18.099.535.6At3g15720820815glycoside hydrolase family 28 protein / polygalacturonase (pectinase) family proteinF:polygalacturonase activity;P:response to cyclopentenone, carbohydrate metabolic process;C:anchored to plasma membrane, anchored to membrane, plant-type cell wall;FPBOMAVO.I.C.G.H.G.
17.999.579.6At1g50490841471UBC20 (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.
17.999.566.0At3g23410821922alcohol oxidase-relatedEncodes a fatty alcohol oxidase.O.I.C.G.H.G.
17.799.532.7At1g06720837182-F:unknown;P:ribosome biogenesis;C:nucleus;OMFBPVAO.I.C.G.H.G.
17.399.5142.6At5g26260832695meprin and TRAF homology domain-containing protein / MATH domain-containing proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;POFO.I.C.G.H.G.
17.399.530.8At5g10510830915AIL6 (AINTEGUMENTA-LIKE 6)Encodes an AP2-domain transcription factor involved in root stem cell identity and root development.O.I.C.G.H.G.
17.299.512.3At2g20480816568unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.C.G.H.G.
16.999.559.5At5g19520832072MSL9 (MECHANOSENSITIVE CHANNEL OF SMALL CONDUCTANCE-LIKE 9)F:mechanically-gated ion channel activity;P:detection of mechanical stimulus;C:nucleus, plasma membrane, membrane;BOFPAVO.I.C.G.H.G.
16.999.550.7At5g45600834599GAS41The GSA41 human homolog is expressed in nuclei and binds NuMA, a component of the nuclear matrix in interphase nuclei. In addition to Arabidopsis, GSA41 is found in Drosophila, C.elegans, yeast and man.O.I.C.G.H.G.
16.899.545.3At1g54890841928late embryogenesis abundant protein-related / LEA protein-relatedF:molecular_function unknown;P:biological_process unknown;C:endomembrane system;PO.I.C.G.H.G.
16.899.536.8At4g10620826654-F:unknown;P:biological_process unknown;C:chloroplast;BMFOPAO.I.C.G.H.G.
16.699.5356.4At5g64140836535RPS28 (RIBOSOMAL PROTEIN S28)Encodes a putative ribosomal protein S28.O.I.C.G.H.G.
16.599.526.5At2g32590817819-F:unknown;P:mitosis, mitotic cell cycle;C:nucleus, chloroplast;MFOPVO.I.C.G.H.G.
16.399.5102.7At3g19910821529zinc finger (C3HC4-type RING finger) family proteinF:protein binding, zinc ion binding;P:unknown;C:unknown;MOPFBVAO.I.C.G.H.G.
16.399.579.7At1g69040843236ACR4 (ACT REPEAT 4)ACT-domain containing protein involved in feedback regulation of amino acid metabolismO.I.C.G.H.G.
16.299.564.0At5g09770830837ribosomal protein L17 family proteinF:structural constituent of ribosome;P:translation;C:ribosome, intracellular;BOFMPO.I.C.G.H.G.
16.299.536.4At4g02400828039-F:molecular_function unknown;P:rRNA processing;C:small-subunit processome;MOFBPVAO.I.C.G.H.G.
16.299.510.2At2g04480814988unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.C.G.H.G.
16.199.514.7At5g48170834869SLY2 (SLEEPY2)encodes an F-box protein whose protein sequence is similar to SLY1, which belongs to SCF-SLY1 E3 ligase complex. SCF-SLY1 E3 ligase degrades DELLA proteins that are involved in promoting growth. Overexpression of SLY2 can partially compensate sly1-10 mutant phenotype of dwarfism.O.I.C.G.H.G.
16.099.584.3At4g3080082920340S ribosomal protein S11 (RPS11B)F:structural constituent of ribosome;P:translation;C:cytosolic small ribosomal subunit;MOBAFPO.I.C.G.H.G.
15.999.577.9At5g60950836216COBL5 (COBRA-LIKE PROTEIN 5 PRECURSOR)F:unknown;P:biological_process unknown;C:endomembrane system;PO.I.C.G.H.G.
15.799.568.7At4g16170827309unknown proteinF:molecular_function unknown;P:biological_process unknown;C:endoplasmic reticulum;POO.I.C.G.H.G.
15.799.567.5At4g36180829775leucine-rich repeat family proteinF:protein serine/threonine kinase activity, kinase activity, ATP binding;P:transmembrane receptor protein tyrosine kinase signaling pathway, protein amino acid phosphorylation;C:plasma membrane;MPOBFVAO.I.C.G.H.G.
15.799.518.5At1g73340843669electron carrier/ heme binding / iron ion binding / monooxygenase/ oxygen bindingF:electron carrier activity, monooxygenase activity, iron ion binding, oxygen binding, heme binding;P:unknown;C:unknown;MPFBOAVO.I.C.G.H.G.
15.799.512.2At2g31725817729unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPOO.I.C.G.H.G.
15.599.5568.4At4g2939082906040S ribosomal protein S30 (RPS30B)F:structural constituent of ribosome;P:translation;C:cytosolic small ribosomal subunit, ribosome, nucleolus;MOFPAVO.I.C.G.H.G.
15.599.518.7At1g26870837796FEZ (FEZ)F:transcription factor activity;P:multicellular organismal development, response to auxin stimulus, root cap development, somatic stem cell division, positive regulation of asymmetric cell division;C:nucleus;PO.I.C.G.H.G.
15.599.516.5At5g07040830595zinc finger (C3HC4-type RING finger) family proteinF:protein binding, zinc ion binding;P:unknown;C:endomembrane system;PMOFVO.I.C.G.H.G.



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