CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At3g18030

Gene name ATHAL3A

Module size 99 genes

NF 0.26

%ile 28.9

Co-expression network

: Transcription factor, : Binding protein, : Enzyme protein, : Other protein
: VF over 0.50, : over 0.25, : below 0.25

Co-expressed genes

Click gene/probe ID to show a list of genes that are co-expressed with the gene.

VF %ile CC Gene ID Repr. ID Gene name Func. O.I. H.G. S.X. Other DB
1.00 100.0 1.00 At3g18030 821327 ATHAL3A flavin mononucleotide flavoprotein involved in salt and osmotic tolerance HAL3A encodes for phosphopantothenoylcysteine decarboxylase being involved in Coenzyme A biosynthesis. HAL3A is predominant over another gene with the presumably same function (HAL3B). O.I. H.G. S.X.
0.41 52.4 0.88 At1g06010 837110 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. H.G. S.X.
0.40 50.8 0.89 At2g36130 818186 peptidyl-prolyl cis-trans isomerase, putative / cyclophilin, putative / rotamase, putative F:peptidyl-prolyl cis-trans isomerase activity;P:protein folding;C:cellular_component unknown;OBMFPA O.I. H.G. S.X.
0.39 48.4 0.90 At3g12130 820388 KH domain-containing protein / zinc finger (CCCH type) family protein F:transcription factor activity, nucleic acid binding;P:regulation of transcription;C:unknown;MPOFB O.I. H.G. S.X.
0.39 48.4 0.89 At2g19080 816425 metaxin-related F:molecular_function unknown;P:protein targeting to mitochondrion;C:mitochondrial outer membrane, mitochondrion, mitochondrial inner membrane, plastid;MBPFO O.I. H.G. S.X.
0.38 46.7 0.88 At1g14510 838013 AL7 (ALFIN-LIKE 7) AL7 encodes a member of the Alfin-Like family of nuclear-localized PhD domain containing homeodomain proteins. Binds to H3K4 di or trimethylated DNA. O.I. H.G. S.X.
0.38 46.7 0.89 At3g17590 821025 BSH (BUSHY GROWTH) Encodes the Arabidopsis homologue of yeast SNF5 and represents a conserved subunit of plant SWI/SNF complexes. O.I. H.G. S.X.
0.38 46.7 0.90 At3g55460 824712 SCL30 encodes an SC35-like splicing factor that is localized to nuclear specks. O.I. H.G. S.X.
0.37 45.0 0.89 At1g73820 843718 Ssu72-like family protein F:phosphoprotein phosphatase activity;P:mRNA processing;C:chloroplast;MFPO O.I. H.G. S.X.
0.36 43.6 0.90 At1g19120 838495 small nuclear ribonucleoprotein, putative / snRNP, putative / Sm protein, putative F:molecular_function unknown;P:biological_process unknown;C:small nucleolar ribonucleoprotein complex, nucleus;MFPOA O.I. H.G. S.X.
0.36 43.6 0.89 At4g10090 826600 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPOF O.I. H.G. S.X.
0.35 41.6 0.88 At2g30920 817642 ATCOQ3 (ARABDIOPSIS THALIANA COENZYME Q 3) The enzyme encoded by this gene has been shown to complement the Saccharomyces cerevisiae coq3 mutation and, therefore, to have hexaprenyldihydroxybenzoate methyltransferase activity. It is however likely that, in Arabidopsis, the enzyme catalyzes the methylation of nonaprenyldihydroxybenzoate as it is the prevalent polyprenoid in this plant species. The enzyme is a mitochondrial-localized methyltransferase involved in ubiquinone biosynthesis. O.I. H.G. S.X.
0.35 41.6 0.90 At5g49510 835011 PDF3 (PREFOLDIN 3) F:unfolded protein binding;P:protein folding;C:prefoldin complex;MFOP O.I. H.G. S.X.
0.35 41.6 0.89 At4g14110 827049 COP9 (CONSTITUTIVE PHOTOMORPHOGENIC 9) Represses photomorphogenesis and induces skotomorphogenesis in the dark. A component of the COP9 signalosome complex. O.I. H.G. S.X.
0.35 41.6 0.89 At3g12180 820395 cornichon family protein F:molecular_function unknown;P:intracellular signaling cascade;C:endomembrane system, membrane;MFPO O.I. H.G. S.X.
0.34 39.8 0.89 At5g57950 835906 26S proteasome regulatory subunit, putative F:protein binding;P:intracellular signaling cascade;C:proteasome regulatory particle;MOFBP O.I. H.G. S.X.
0.34 39.8 0.89 At4g14000 827036 unknown protein F:molecular_function unknown;P:biological_process unknown;C:unknown;MFOPB O.I. H.G. S.X.
0.34 39.8 0.90 At4g29870 829109 - F:molecular_function unknown;P:biological_process unknown;C:plasma membrane;MPO O.I. H.G. S.X.
0.34 39.8 0.89 At5g55160 835609 SUMO2 (SMALL UBIQUITIN-LIKE MODIFIER 2) Encodes a small ubiquitin-like modifier (SUMO) polypeptide that becomes covalently attached to various intracellular protein targets, much like ubiquitination, leading to post-translational modification of those targets. SUMO2 can form SUMO chains through lysine residue 10 during in vitro assays. O.I. H.G. S.X.
0.33 38.1 0.90 At2g43770 818980 transducin family protein / WD-40 repeat family protein F:nucleotide binding;P:biological_process unknown;C:CUL4 RING ubiquitin ligase complex, heterotrimeric G-protein complex;MFOBPAV O.I. H.G. S.X.
0.32 35.7 0.89 At4g15520 827225 tRNA/rRNA methyltransferase (SpoU) family protein F:RNA binding, RNA methyltransferase activity;P:RNA processing;C:cellular_component unknown;BOMPA O.I. H.G. S.X.
0.31 33.8 0.89 At1g09150 837434 pseudouridine synthase and archaeosine transglycosylase (PUA) domain-containing protein F:RNA binding;P:biological_process unknown;C:cellular_component unknown;MOFAP O.I. H.G. S.X.
0.31 33.8 0.89 At1g09760 837505 U2A' (U2 small nuclear ribonucleoprotein A) F:protein binding;P:nuclear mRNA splicing, via spliceosome, response to cold;C:in 6 components;MBOFPV O.I. H.G. S.X.
0.31 33.8 0.89 At2g45640 819172 SAP18 (SIN3 ASSOCIATED POLYPEPTIDE P18) Involved in the regulation of salt stress. Expression of AtSAP18 is induced by NaCl, cold, drought, ABA, and ethylene treatment. AtSAP18 and HDA19 associate with ERF3 and ERF4 both in vitro and in vivo. O.I. H.G. S.X.
0.31 33.8 0.90 At3g58470 825016 methyltransferase/ nucleic acid binding F:methyltransferase activity, nucleic acid binding;P:methylation;C:cellular_component unknown;MFPO O.I. H.G. S.X.
0.30 32.1 0.89 At5g26210 832690 AL4 (ALFIN-LIKE 4) AL4 encodes a member of the Alfin-Like family of nuclear-localized PhD domain containing homeodomain proteins. Binds to H3K4 di or trimethylated DNA. O.I. H.G. S.X.
0.30 32.1 0.90 At1g21710 838775 OGG1 (8-OXOGUANINE-DNA GLYCOSYLASE 1) Encodes 8-oxoguanine-DNA glycosylase. DNA repair enzyme. O.I. H.G. S.X.
0.30 32.1 0.88 At2g32070 817767 CCR4-NOT transcription complex protein, putative F:ribonuclease activity, nucleic acid binding;P:RNA modification;C:nucleus;MPOF O.I. H.G. S.X.
0.30 32.1 0.89 At5g01230 830268 FtsJ-like methyltransferase family protein F:methyltransferase activity;P:rRNA methylation;C:cellular_component unknown;OBMFAVP O.I. H.G. S.X.
0.30 32.1 0.89 At1g52740 841707 HTA9 (HISTONE H2A PROTEIN 9) Encodes HTA9, a histone H2A protein. O.I. H.G. S.X.
0.30 32.1 0.89 At2g45200 819128 GOS12 (GOLGI SNARE 12) Encodes a member of the GOS1 (Golgi SNARE) gene family. O.I. H.G. S.X.
0.29 30.3 0.89 At1g43190 840918 polypyrimidine tract-binding protein, putative / heterogeneous nuclear ribonucleoprotein, putative F:RNA binding, nucleotide binding, nucleic acid binding;P:mRNA processing;C:nucleus;MPOF O.I. H.G. S.X.
0.29 30.3 0.89 At5g59460 836065 scarecrow-like transcription factor 11 (SCL11) F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MP O.I. H.G. S.X.
0.29 30.3 0.88 At1g16900 838261 sugar binding / transferase, transferring glycosyl groups curculin-like (mannose-binding) lectin family protein, very low similarity to Ser Thr protein kinase GI:2598067 from (Zea mays); contains Pfam lectin (probable mannose binding) domain PF01453 but not the protein kinase domain of the Z. mays protein O.I. H.G. S.X.
0.29 30.3 0.89 At2g44020 819007 mitochondrial transcription termination factor-related / mTERF-related F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMO O.I. H.G. S.X.
0.28 30.3 0.88 At3g33520 823150 ATARP6 Encodes ACTIN-RELATED PROTEIN6 (ARP6), a putative component of a chromatin-remodeling complex. Required for both histone acetylation and methylation of the FLC chromatin in Arabidopsis. Along with PIE1 forms a complex to deposit modified histone H2A.Z at several loci within the genome. This modification alters the expression of the target genes (i.e. FLC, MAF4, MAF6. Located at specific regions of the nuclear periphery. Expression throughout plants shown by in-situ and immunolocalization methods. Mutants show defects in fertility, leaf, flower and inflorescence development and shorter flowering times. O.I. H.G. S.X.
0.28 30.3 0.90 At4g33250 829461 EIF3K (EUKARYOTIC TRANSLATION INITIATION FACTOR 3K) Encodes initiation factor 3k (EIF3k). O.I. H.G. S.X.
0.28 30.3 0.89 At1g10840 837627 TIF3H1 Encodes eukaryotic initiation factor 3H1 subunit (TIF3H1). O.I. H.G. S.X.
0.28 30.3 0.89 At5g20920 832216 EIF2 BETA protein synthesis initiation factor eIF2 beta O.I. H.G. S.X.
0.28 30.3 0.89 At5g50320 835098 ELO3 (ELONGATA 3) A subunit of Elongator, a histone acetyl transferase complex, consisting of six subunits (ELP1�ELP6), that copurifies with the elongating RNAPII in yeast and humans. Three Arabidopsis thaliana genes, encoding homologs of the yeast Elongator subunits ELP1, ELP3 (histone acetyl transferase), and ELP4 are responsible for the narrow leaf phenotype in elongata mutants and for reduced root growth that results from a decreased cell division rate. Two lines with RNAi constructs directed against HAG3 grow normally and can produce root calli, but have defects in agrobacterium-mediated transformation. O.I. H.G. S.X.
0.28 30.3 0.90 At4g35910 829746 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFPOA O.I. H.G. S.X.
0.27 26.2 0.89 At1g66740 842992 SGA2 Located on the SSL2 region of Arabidopsis thaliana, which is homeologous to the Brassica S locus for self incompatibility. Expressed in both vegetative and reproductive organs suggesting AtSP7 might not be involved in self incompatibility. O.I. H.G. S.X.
0.27 26.2 0.89 At3g23710 821952 chloroplast inner membrane import protein Tic22, putative F:unknown;P:unknown;C:chloroplast, chloroplast inner membrane;BPO O.I. H.G. S.X.
0.27 26.2 0.88 At1g30230 839903 elongation factor 1-beta / EF-1-beta F:translation elongation factor activity;P:translational elongation, response to cadmium ion;C:plasma membrane, eukaryotic translation elongation factor 1 complex;MOFP O.I. H.G. S.X.
0.27 26.2 0.88 At3g13570 820559 SCL30a encodes an SC35-like splicing factor of 30 kD that is localized to the nuclear specks. O.I. H.G. S.X.
0.27 26.2 0.89 At5g23550 832421 - F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOFP O.I. H.G. S.X.
0.27 26.2 0.89 At3g03220 821224 ATEXPA13 (ARABIDOPSIS THALIANA EXPANSIN A13) member of Alpha-Expansin Gene Family. Naming convention from the Expansin Working Group (Kende et al, 2004. Plant Mol Bio) O.I. H.G. S.X.
0.26 24.4 0.89 At5g23290 832393 PDF5 (PREFOLDIN 5) F:unfolded protein binding;P:protein folding;C:prefoldin complex;MFOAPB O.I. H.G. S.X.
0.26 24.4 0.89 At2g46470 819256 OXA1L (INNER MEMBRANE PROTEIN OXA1-LIKE) F:molecular_function unknown;P:protein import into mitochondrial inner membrane;C:mitochondrion, membrane;BOMFP O.I. H.G. S.X.
0.26 24.4 0.88 At5g51510 835225 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO O.I. H.G. S.X.
0.26 24.4 0.88 At3g20970 821647 NFU4 Encodes a protein containing the NFU domain that may be involved in iron-sulfur cluster assembly. Part of a five member gene family, more closely related to NFU5 than to NFU1,2, and 3. Targeted to the mitochondrion. O.I. H.G. S.X.
0.25 22.6 0.89 At1g72480 843580 - F:molecular_function unknown;P:biological_process unknown;C:Golgi apparatus;MFPO O.I. H.G. S.X.
0.25 22.6 0.89 At3g22990 821873 LFR (LEAF AND FLOWER RELATED) Armadillo-repeat containing protein. Involved in leaf and flower development. Located in nucleus. Broadly expressed throughout vegetative and floral tissues. O.I. H.G. S.X.
0.25 22.6 0.89 At5g64200 836541 ATSC35 encodes an SC35-like splicing factor of 35 kD localized to the nuclear specks. O.I. H.G. S.X.
0.25 22.6 0.89 At1g08970 837417 NF-YC9 (NUCLEAR FACTOR Y, SUBUNIT C9) heme activated protein (HAP5c) O.I. H.G. S.X.
0.25 22.6 0.88 At1g30825 839965 DIS2 (DISTORTED TRICHOMES 2) Involved in trichome maturation. mutant displays enlarged trichomes O.I. H.G. S.X.
0.24 20.7 0.89 At1g55150 841958 DEAD box RNA helicase, putative (RH20) F:helicase activity, ATP-dependent helicase activity, ATP binding, nucleic acid binding;P:unknown;C:cellular_component unknown;BOMFPAV O.I. H.G. S.X.
0.24 20.7 0.89 At1g08750 837397 GPI-anchor transamidase, putative F:GPI-anchor transamidase activity, cysteine-type endopeptidase activity;P:proteolysis;C:endomembrane system;MPOFAB O.I. H.G. S.X.
0.24 20.7 0.88 At3g50880 824252 HhH-GPD base excision DNA repair family protein F:catalytic activity;P:DNA repair, base-excision repair;C:chloroplast;OBFPA O.I. H.G. S.X.
0.24 20.7 0.89 At5g45620 834602 26S proteasome regulatory subunit, putative (RPN9) F:molecular_function unknown;P:ubiquitin-dependent protein catabolic process;C:proteasome regulatory particle, lid subcomplex;MFOP O.I. H.G. S.X.
0.24 20.7 0.88 At3g06960 819881 PDE320 (PIGMENT DEFECTIVE 320) F:molecular_function unknown;P:acylglycerol transport;C:endoplasmic reticulum, chloroplast;P O.I. H.G. S.X.
0.24 20.7 0.88 At5g55940 835692 emb2731 (embryo defective 2731) F:molecular_function unknown;P:embryonic development ending in seed dormancy;C:endoplasmic reticulum;MOPF O.I. H.G. S.X.
0.24 20.7 0.88 At5g64610 836582 HAM1 (HISTONE ACETYLTRANSFERASE OF THE MYST FAMILY 1) Encodes an enzyme with histone acetyltransferase activity. HAM1 primarily acetylate histone H4, but also display some ability to acetylate H3. Prior acetylation of lysine 5 on histone H4 reduces radioactive acetylation by either HAM1. HAM1 acetylates histone H4 lysine 5. O.I. H.G. S.X.
0.24 20.7 0.90 At2g04540 814996 3-oxoacyl-(acyl-carrier-protein) synthase II, putative F:transferase activity, transferring acyl groups other than amino-acyl groups, fatty-acid synthase activity, catalytic activity;P:biosynthetic process, fatty acid biosynthetic process, metabolic process;C:mitochondrion;BOFMPA O.I. H.G. S.X.
0.23 19.3 0.89 At1g18450 838425 ATARP4 Encodes a gene similar to actin-related proteins in other organisms. Member of nuclear ARP family of genes. Component of chromatin remodeling complexes, involved in chromatin-mediated gene regulation. Phenotype of the arp4-1 mutant allele revealed partial sterility due to defects in anther development. Targeting the distinct, 3' UTR of AtARP4 transcripts with RNA interference caused a drastic reduction in the level of AtARP4 protein expression, and resulted in strong pleiotropic phenotypes such as altered organization of plant organs, early flowering, delayed flower senescence and high levels of sterility. Western blot analysis and immunolabelling demonstrated a clear correlation between reductions in the level of AtARP4 expression and severity of the phenotypes. O.I. H.G. S.X.
0.23 19.3 0.88 At4g24880 828590 unknown protein F:unknown;P:unknown;C:unknown;MPOF O.I. H.G. S.X.
0.23 19.3 0.88 At1g47720 841183 OSB1 (Organellar Single-stranded) Encodes an organellar single-strand DNA binding protein, located in mitochondria, controls the stoichiometry of alternative mitochondrial DNA forms generated by homologous recombination. O.I. H.G. S.X.
0.23 19.3 0.89 At3g63270 825502 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPFO O.I. H.G. S.X.
0.23 19.3 0.89 At1g73720 843707 transducin family protein / WD-40 repeat family protein F:nucleotide binding;P:biological_process unknown;C:CUL4 RING ubiquitin ligase complex;MFOBPAV O.I. H.G. S.X.
0.23 19.3 0.89 At3g07200 819908 zinc finger (C3HC4-type RING finger) family protein F:protein binding, zinc ion binding;P:unknown;C:unknown;MOFPV O.I. H.G. S.X.
0.23 19.3 0.89 At5g58030 835915 transport protein particle (TRAPP) component Bet3 family protein F:molecular_function unknown;P:ER to Golgi vesicle-mediated transport;C:cellular_component unknown;MFOP O.I. H.G. S.X.
0.23 19.3 0.89 At1g04260 839565 MPI7 (CAMV MOVEMENT PROTEIN INTERACTING PROTEIN 7) Encodes protein that interacts with CaMV movement protein. Colocalizes in the cytoplasm with the movement protein. Has similarity to mammalian proteins (such as the rat PRA1) which have been described as rab acceptors. O.I. H.G. S.X.
0.23 19.3 0.88 At1g06630 837172 - F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO O.I. H.G. S.X.
0.23 19.3 0.88 At3g56110 824777 PRA1.B1 (PRENYLATED RAB ACCEPTOR 1.B1) F:molecular_function unknown;P:vesicle-mediated transport;C:endoplasmic reticulum;PMFO O.I. H.G. S.X.
0.22 17.5 0.88 At1g09520 837478 protein binding / zinc ion binding F:protein binding, zinc ion binding;P:unknown;C:chloroplast;POF O.I. H.G. S.X.
0.22 17.5 0.90 At5g55190 835612 RAN3 (RAN GTPASE 3) A member of RAN GTPase gene family. Encodes a small soluble GTP-binding protein. Likely to be involved in nuclear translocation of proteins. May also be involved in cell cycle progression. O.I. H.G. S.X.
0.22 17.5 0.88 At3g48750 824036 CDC2 (CELL DIVISION CONTROL 2) A-type cyclin-dependent kinase. Together with its specific inhibitor, the Kip-related protein, KRP2 they regulate the mitosis-to-endocycle transition during leaf development. Dominant negative mutations abolish cell division. Loss of function phenotype has reduced fertility with failure to transmit via pollen. Pollen development is arrested at the second mitotic division. Expression is regulated by environmental and chemical signals. Part of the promoter is responsible for expression in trichomes. Functions as a positive regulator of cell proliferation during development of the male gametophyte, embryo and endosperm. Phosphorylation of threonine 161 is required for activation of its associated kinase. O.I. H.G. S.X.
0.21 15.8 0.88 At5g02740 831811 nucleotide binding F:nucleotide binding;P:biological_process unknown;C:cellular_component unknown;PM O.I. H.G. S.X.
0.21 15.8 0.90 At5g54750 835565 transport protein particle (TRAPP) component Bet3, putative F:molecular_function unknown;P:ER to Golgi vesicle-mediated transport;C:cellular_component unknown;MFOP O.I. H.G. S.X.
0.21 15.8 0.88 At4g27690 828883 VPS26B (VACUOLAR PROTEIN SORTING 26B) F:molecular_function unknown;P:intracellular protein transport, vacuolar transport, retrograde transport, endosome to Golgi;C:retromer complex;MOFP O.I. H.G. S.X.
0.21 15.8 0.88 At4g24490 828551 protein prenyltransferase F:protein prenyltransferase activity;P:response to cadmium ion;C:unknown;MOFBPAV O.I. H.G. S.X.
0.21 15.8 0.88 At5g05000 830382 TOC34 (TRANSLOCON AT THE OUTER ENVELOPE MEMBRANE OF CHLOROPLASTS 34) Outer membrane protein that may function in import of nuclear encoded proteins into the chloroplast. O.I. H.G. S.X.
0.21 15.8 0.89 At2g34520 818015 RPS14 (mitochondrial ribosomal protein S14) nuclear-encoded mitochondrial ribosomal protein S14 O.I. H.G. S.X.
0.21 15.8 0.88 At4g31180 829246 aspartyl-tRNA synthetase, putative / aspartate--tRNA ligase, putative F:aspartate-tRNA ligase activity, nucleotide binding, aminoacyl-tRNA ligase activity, nucleic acid binding, ATP binding;P:response to cadmium ion, aspartyl-tRNA aminoacylation;C:chloroplast, cytoplasm;BOMFAP O.I. H.G. S.X.
0.20 14.4 0.88 At4g35980 829752 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. H.G. S.X.
0.20 14.4 0.88 At4g34670 829619 40S ribosomal protein S3A (RPS3aB) F:structural constituent of ribosome;P:translation;C:in 6 components;MOAPFB O.I. H.G. S.X.
0.20 14.4 0.89 At3g46040 823747 RPS15AD (ribosomal protein S15A D) Regulated by TCP20. O.I. H.G. S.X.
0.20 14.4 0.88 At3g51010 824265 unknown protein F:molecular_function unknown;P:biological_process unknown;C:mitochondrion, plastid;P O.I. H.G. S.X.
0.18 11.4 0.89 At3g24830 822081 60S ribosomal protein L13A (RPL13aB) F:structural constituent of ribosome;P:translation;C:cytosolic ribosome, cytosolic large ribosomal subunit, large ribosomal subunit, membrane;OMBAPF O.I. H.G. S.X.
0.18 11.4 0.88 At3g02080 821120 40S ribosomal protein S19 (RPS19A) F:structural constituent of ribosome;P:translation;C:cytosolic small ribosomal subunit, cytosolic ribosome, ribosome, cell wall;MOAPFB O.I. H.G. S.X.
0.18 11.4 0.88 At4g32680 829403 unknown protein F:molecular_function unknown;P:biological_process unknown;C:unknown;P O.I. H.G. S.X.
0.17 10.2 0.89 At1g61010 842393 CPSF73-I (CLEAVAGE AND POLYADENYLATION SPECIFICITY FACTOR 73-I) F:protein binding;P:mRNA polyadenylation;C:mRNA cleavage and polyadenylation specificity factor complex, nucleus;BOMAFPV O.I. H.G. S.X.
0.17 10.2 0.89 At4g05000 825842 VPS28-2 F:transporter activity;P:transport;C:ESCRT I complex;MFPO O.I. H.G. S.X.
0.17 10.2 0.88 At4g09800 826569 RPS18C (S18 RIBOSOMAL PROTEIN) encodes a ribosomal protein S18C, a constituent of the small subunit of the ribosomal complex O.I. H.G. S.X.
0.16 8.8 0.88 At3g01150 821129 PTB1 (POLYPYRIMIDINE TRACT-BINDING PROTEIN 1) Encodes one of the two polypyrimidine tract-binding (PTB) protein homologs in the Arabidopsis genome. Double mutants have defects in pollen germination. O.I. H.G. S.X.
0.16 8.8 0.88 At3g02560 821308 40S ribosomal protein S7 (RPS7B) F:structural constituent of ribosome;P:translation;C:cytosolic small ribosomal subunit, cytosolic ribosome, chloroplast, membrane;MPOF O.I. H.G. S.X.
0.16 8.8 0.88 At5g63520 836471 - F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;BOPM O.I. H.G. S.X.
0.14 6.8 0.88 At5g11810 831054 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO O.I. H.G. S.X.
0.12 4.9 0.89 At1g11020 837644 zinc finger (C3HC4-type RING finger) family protein F:protein binding, zinc ion binding;P:unknown;C:unknown;MOPFV O.I. H.G. S.X.

VF	%ile	CC	Gene ID	Repr. ID	Gene name	Func.	O.I.	H.G.	S.X.
1.00	100.0	1.00	At3g18030	821327	ATHAL3A	flavin mononucleotide flavoprotein involved in salt and osmotic tolerance HAL3A encodes for phosphopantothenoylcysteine decarboxylase being involved in Coenzyme A biosynthesis. HAL3A is predominant over another gene with the presumably same function (HAL3B).	O.I.	H.G.	S.X.
0.41	52.4	0.88	At1g06010	837110	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	H.G.	S.X.
0.40	50.8	0.89	At2g36130	818186	peptidyl-prolyl cis-trans isomerase, putative / cyclophilin, putative / rotamase, putative	F:peptidyl-prolyl cis-trans isomerase activity;P:protein folding;C:cellular_component unknown;OBMFPA	O.I.	H.G.	S.X.
0.39	48.4	0.90	At3g12130	820388	KH domain-containing protein / zinc finger (CCCH type) family protein	F:transcription factor activity, nucleic acid binding;P:regulation of transcription;C:unknown;MPOFB	O.I.	H.G.	S.X.
0.39	48.4	0.89	At2g19080	816425	metaxin-related	F:molecular_function unknown;P:protein targeting to mitochondrion;C:mitochondrial outer membrane, mitochondrion, mitochondrial inner membrane, plastid;MBPFO	O.I.	H.G.	S.X.
0.38	46.7	0.88	At1g14510	838013	AL7 (ALFIN-LIKE 7)	AL7 encodes a member of the Alfin-Like family of nuclear-localized PhD domain containing homeodomain proteins. Binds to H3K4 di or trimethylated DNA.	O.I.	H.G.	S.X.
0.38	46.7	0.89	At3g17590	821025	BSH (BUSHY GROWTH)	Encodes the Arabidopsis homologue of yeast SNF5 and represents a conserved subunit of plant SWI/SNF complexes.	O.I.	H.G.	S.X.
0.38	46.7	0.90	At3g55460	824712	SCL30	encodes an SC35-like splicing factor that is localized to nuclear specks.	O.I.	H.G.	S.X.
0.37	45.0	0.89	At1g73820	843718	Ssu72-like family protein	F:phosphoprotein phosphatase activity;P:mRNA processing;C:chloroplast;MFPO	O.I.	H.G.	S.X.
0.36	43.6	0.90	At1g19120	838495	small nuclear ribonucleoprotein, putative / snRNP, putative / Sm protein, putative	F:molecular_function unknown;P:biological_process unknown;C:small nucleolar ribonucleoprotein complex, nucleus;MFPOA	O.I.	H.G.	S.X.
0.36	43.6	0.89	At4g10090	826600	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPOF	O.I.	H.G.	S.X.
0.35	41.6	0.88	At2g30920	817642	ATCOQ3 (ARABDIOPSIS THALIANA COENZYME Q 3)	The enzyme encoded by this gene has been shown to complement the Saccharomyces cerevisiae coq3 mutation and, therefore, to have hexaprenyldihydroxybenzoate methyltransferase activity. It is however likely that, in Arabidopsis, the enzyme catalyzes the methylation of nonaprenyldihydroxybenzoate as it is the prevalent polyprenoid in this plant species. The enzyme is a mitochondrial-localized methyltransferase involved in ubiquinone biosynthesis.	O.I.	H.G.	S.X.
0.35	41.6	0.90	At5g49510	835011	PDF3 (PREFOLDIN 3)	F:unfolded protein binding;P:protein folding;C:prefoldin complex;MFOP	O.I.	H.G.	S.X.
0.35	41.6	0.89	At4g14110	827049	COP9 (CONSTITUTIVE PHOTOMORPHOGENIC 9)	Represses photomorphogenesis and induces skotomorphogenesis in the dark. A component of the COP9 signalosome complex.	O.I.	H.G.	S.X.
0.35	41.6	0.89	At3g12180	820395	cornichon family protein	F:molecular_function unknown;P:intracellular signaling cascade;C:endomembrane system, membrane;MFPO	O.I.	H.G.	S.X.
0.34	39.8	0.89	At5g57950	835906	26S proteasome regulatory subunit, putative	F:protein binding;P:intracellular signaling cascade;C:proteasome regulatory particle;MOFBP	O.I.	H.G.	S.X.
0.34	39.8	0.89	At4g14000	827036	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:unknown;MFOPB	O.I.	H.G.	S.X.
0.34	39.8	0.90	At4g29870	829109	-	F:molecular_function unknown;P:biological_process unknown;C:plasma membrane;MPO	O.I.	H.G.	S.X.
0.34	39.8	0.89	At5g55160	835609	SUMO2 (SMALL UBIQUITIN-LIKE MODIFIER 2)	Encodes a small ubiquitin-like modifier (SUMO) polypeptide that becomes covalently attached to various intracellular protein targets, much like ubiquitination, leading to post-translational modification of those targets. SUMO2 can form SUMO chains through lysine residue 10 during in vitro assays.	O.I.	H.G.	S.X.
0.33	38.1	0.90	At2g43770	818980	transducin family protein / WD-40 repeat family protein	F:nucleotide binding;P:biological_process unknown;C:CUL4 RING ubiquitin ligase complex, heterotrimeric G-protein complex;MFOBPAV	O.I.	H.G.	S.X.
0.32	35.7	0.89	At4g15520	827225	tRNA/rRNA methyltransferase (SpoU) family protein	F:RNA binding, RNA methyltransferase activity;P:RNA processing;C:cellular_component unknown;BOMPA	O.I.	H.G.	S.X.
0.31	33.8	0.89	At1g09150	837434	pseudouridine synthase and archaeosine transglycosylase (PUA) domain-containing protein	F:RNA binding;P:biological_process unknown;C:cellular_component unknown;MOFAP	O.I.	H.G.	S.X.
0.31	33.8	0.89	At1g09760	837505	U2A' (U2 small nuclear ribonucleoprotein A)	F:protein binding;P:nuclear mRNA splicing, via spliceosome, response to cold;C:in 6 components;MBOFPV	O.I.	H.G.	S.X.
0.31	33.8	0.89	At2g45640	819172	SAP18 (SIN3 ASSOCIATED POLYPEPTIDE P18)	Involved in the regulation of salt stress. Expression of AtSAP18 is induced by NaCl, cold, drought, ABA, and ethylene treatment. AtSAP18 and HDA19 associate with ERF3 and ERF4 both in vitro and in vivo.	O.I.	H.G.	S.X.
0.31	33.8	0.90	At3g58470	825016	methyltransferase/ nucleic acid binding	F:methyltransferase activity, nucleic acid binding;P:methylation;C:cellular_component unknown;MFPO	O.I.	H.G.	S.X.
0.30	32.1	0.89	At5g26210	832690	AL4 (ALFIN-LIKE 4)	AL4 encodes a member of the Alfin-Like family of nuclear-localized PhD domain containing homeodomain proteins. Binds to H3K4 di or trimethylated DNA.	O.I.	H.G.	S.X.
0.30	32.1	0.90	At1g21710	838775	OGG1 (8-OXOGUANINE-DNA GLYCOSYLASE 1)	Encodes 8-oxoguanine-DNA glycosylase. DNA repair enzyme.	O.I.	H.G.	S.X.
0.30	32.1	0.88	At2g32070	817767	CCR4-NOT transcription complex protein, putative	F:ribonuclease activity, nucleic acid binding;P:RNA modification;C:nucleus;MPOF	O.I.	H.G.	S.X.
0.30	32.1	0.89	At5g01230	830268	FtsJ-like methyltransferase family protein	F:methyltransferase activity;P:rRNA methylation;C:cellular_component unknown;OBMFAVP	O.I.	H.G.	S.X.
0.30	32.1	0.89	At1g52740	841707	HTA9 (HISTONE H2A PROTEIN 9)	Encodes HTA9, a histone H2A protein.	O.I.	H.G.	S.X.
0.30	32.1	0.89	At2g45200	819128	GOS12 (GOLGI SNARE 12)	Encodes a member of the GOS1 (Golgi SNARE) gene family.	O.I.	H.G.	S.X.
0.29	30.3	0.89	At1g43190	840918	polypyrimidine tract-binding protein, putative / heterogeneous nuclear ribonucleoprotein, putative	F:RNA binding, nucleotide binding, nucleic acid binding;P:mRNA processing;C:nucleus;MPOF	O.I.	H.G.	S.X.
0.29	30.3	0.89	At5g59460	836065	scarecrow-like transcription factor 11 (SCL11)	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MP	O.I.	H.G.	S.X.
0.29	30.3	0.88	At1g16900	838261	sugar binding / transferase, transferring glycosyl groups	curculin-like (mannose-binding) lectin family protein, very low similarity to Ser Thr protein kinase GI:2598067 from (Zea mays); contains Pfam lectin (probable mannose binding) domain PF01453 but not the protein kinase domain of the Z. mays protein	O.I.	H.G.	S.X.
0.29	30.3	0.89	At2g44020	819007	mitochondrial transcription termination factor-related / mTERF-related	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMO	O.I.	H.G.	S.X.
0.28	30.3	0.88	At3g33520	823150	ATARP6	Encodes ACTIN-RELATED PROTEIN6 (ARP6), a putative component of a chromatin-remodeling complex. Required for both histone acetylation and methylation of the FLC chromatin in Arabidopsis. Along with PIE1 forms a complex to deposit modified histone H2A.Z at several loci within the genome. This modification alters the expression of the target genes (i.e. FLC, MAF4, MAF6. Located at specific regions of the nuclear periphery. Expression throughout plants shown by in-situ and immunolocalization methods. Mutants show defects in fertility, leaf, flower and inflorescence development and shorter flowering times.	O.I.	H.G.	S.X.
0.28	30.3	0.90	At4g33250	829461	EIF3K (EUKARYOTIC TRANSLATION INITIATION FACTOR 3K)	Encodes initiation factor 3k (EIF3k).	O.I.	H.G.	S.X.
0.28	30.3	0.89	At1g10840	837627	TIF3H1	Encodes eukaryotic initiation factor 3H1 subunit (TIF3H1).	O.I.	H.G.	S.X.
0.28	30.3	0.89	At5g20920	832216	EIF2 BETA	protein synthesis initiation factor eIF2 beta	O.I.	H.G.	S.X.
0.28	30.3	0.89	At5g50320	835098	ELO3 (ELONGATA 3)	A subunit of Elongator, a histone acetyl transferase complex, consisting of six subunits (ELP1�ELP6), that copurifies with the elongating RNAPII in yeast and humans. Three Arabidopsis thaliana genes, encoding homologs of the yeast Elongator subunits ELP1, ELP3 (histone acetyl transferase), and ELP4 are responsible for the narrow leaf phenotype in elongata mutants and for reduced root growth that results from a decreased cell division rate. Two lines with RNAi constructs directed against HAG3 grow normally and can produce root calli, but have defects in agrobacterium-mediated transformation.	O.I.	H.G.	S.X.
0.28	30.3	0.90	At4g35910	829746	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFPOA	O.I.	H.G.	S.X.
0.27	26.2	0.89	At1g66740	842992	SGA2	Located on the SSL2 region of Arabidopsis thaliana, which is homeologous to the Brassica S locus for self incompatibility. Expressed in both vegetative and reproductive organs suggesting AtSP7 might not be involved in self incompatibility.	O.I.	H.G.	S.X.
0.27	26.2	0.89	At3g23710	821952	chloroplast inner membrane import protein Tic22, putative	F:unknown;P:unknown;C:chloroplast, chloroplast inner membrane;BPO	O.I.	H.G.	S.X.
0.27	26.2	0.88	At1g30230	839903	elongation factor 1-beta / EF-1-beta	F:translation elongation factor activity;P:translational elongation, response to cadmium ion;C:plasma membrane, eukaryotic translation elongation factor 1 complex;MOFP	O.I.	H.G.	S.X.
0.27	26.2	0.88	At3g13570	820559	SCL30a	encodes an SC35-like splicing factor of 30 kD that is localized to the nuclear specks.	O.I.	H.G.	S.X.
0.27	26.2	0.89	At5g23550	832421	-	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOFP	O.I.	H.G.	S.X.
0.27	26.2	0.89	At3g03220	821224	ATEXPA13 (ARABIDOPSIS THALIANA EXPANSIN A13)	member of Alpha-Expansin Gene Family. Naming convention from the Expansin Working Group (Kende et al, 2004. Plant Mol Bio)	O.I.	H.G.	S.X.
0.26	24.4	0.89	At5g23290	832393	PDF5 (PREFOLDIN 5)	F:unfolded protein binding;P:protein folding;C:prefoldin complex;MFOAPB	O.I.	H.G.	S.X.
0.26	24.4	0.89	At2g46470	819256	OXA1L (INNER MEMBRANE PROTEIN OXA1-LIKE)	F:molecular_function unknown;P:protein import into mitochondrial inner membrane;C:mitochondrion, membrane;BOMFP	O.I.	H.G.	S.X.
0.26	24.4	0.88	At5g51510	835225	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO	O.I.	H.G.	S.X.
0.26	24.4	0.88	At3g20970	821647	NFU4	Encodes a protein containing the NFU domain that may be involved in iron-sulfur cluster assembly. Part of a five member gene family, more closely related to NFU5 than to NFU1,2, and 3. Targeted to the mitochondrion.	O.I.	H.G.	S.X.
0.25	22.6	0.89	At1g72480	843580	-	F:molecular_function unknown;P:biological_process unknown;C:Golgi apparatus;MFPO	O.I.	H.G.	S.X.
0.25	22.6	0.89	At3g22990	821873	LFR (LEAF AND FLOWER RELATED)	Armadillo-repeat containing protein. Involved in leaf and flower development. Located in nucleus. Broadly expressed throughout vegetative and floral tissues.	O.I.	H.G.	S.X.
0.25	22.6	0.89	At5g64200	836541	ATSC35	encodes an SC35-like splicing factor of 35 kD localized to the nuclear specks.	O.I.	H.G.	S.X.
0.25	22.6	0.89	At1g08970	837417	NF-YC9 (NUCLEAR FACTOR Y, SUBUNIT C9)	heme activated protein (HAP5c)	O.I.	H.G.	S.X.
0.25	22.6	0.88	At1g30825	839965	DIS2 (DISTORTED TRICHOMES 2)	Involved in trichome maturation. mutant displays enlarged trichomes	O.I.	H.G.	S.X.
0.24	20.7	0.89	At1g55150	841958	DEAD box RNA helicase, putative (RH20)	F:helicase activity, ATP-dependent helicase activity, ATP binding, nucleic acid binding;P:unknown;C:cellular_component unknown;BOMFPAV	O.I.	H.G.	S.X.
0.24	20.7	0.89	At1g08750	837397	GPI-anchor transamidase, putative	F:GPI-anchor transamidase activity, cysteine-type endopeptidase activity;P:proteolysis;C:endomembrane system;MPOFAB	O.I.	H.G.	S.X.
0.24	20.7	0.88	At3g50880	824252	HhH-GPD base excision DNA repair family protein	F:catalytic activity;P:DNA repair, base-excision repair;C:chloroplast;OBFPA	O.I.	H.G.	S.X.
0.24	20.7	0.89	At5g45620	834602	26S proteasome regulatory subunit, putative (RPN9)	F:molecular_function unknown;P:ubiquitin-dependent protein catabolic process;C:proteasome regulatory particle, lid subcomplex;MFOP	O.I.	H.G.	S.X.
0.24	20.7	0.88	At3g06960	819881	PDE320 (PIGMENT DEFECTIVE 320)	F:molecular_function unknown;P:acylglycerol transport;C:endoplasmic reticulum, chloroplast;P	O.I.	H.G.	S.X.
0.24	20.7	0.88	At5g55940	835692	emb2731 (embryo defective 2731)	F:molecular_function unknown;P:embryonic development ending in seed dormancy;C:endoplasmic reticulum;MOPF	O.I.	H.G.	S.X.
0.24	20.7	0.88	At5g64610	836582	HAM1 (HISTONE ACETYLTRANSFERASE OF THE MYST FAMILY 1)	Encodes an enzyme with histone acetyltransferase activity. HAM1 primarily acetylate histone H4, but also display some ability to acetylate H3. Prior acetylation of lysine 5 on histone H4 reduces radioactive acetylation by either HAM1. HAM1 acetylates histone H4 lysine 5.	O.I.	H.G.	S.X.
0.24	20.7	0.90	At2g04540	814996	3-oxoacyl-(acyl-carrier-protein) synthase II, putative	F:transferase activity, transferring acyl groups other than amino-acyl groups, fatty-acid synthase activity, catalytic activity;P:biosynthetic process, fatty acid biosynthetic process, metabolic process;C:mitochondrion;BOFMPA	O.I.	H.G.	S.X.
0.23	19.3	0.89	At1g18450	838425	ATARP4	Encodes a gene similar to actin-related proteins in other organisms. Member of nuclear ARP family of genes. Component of chromatin remodeling complexes, involved in chromatin-mediated gene regulation. Phenotype of the arp4-1 mutant allele revealed partial sterility due to defects in anther development. Targeting the distinct, 3' UTR of AtARP4 transcripts with RNA interference caused a drastic reduction in the level of AtARP4 protein expression, and resulted in strong pleiotropic phenotypes such as altered organization of plant organs, early flowering, delayed flower senescence and high levels of sterility. Western blot analysis and immunolabelling demonstrated a clear correlation between reductions in the level of AtARP4 expression and severity of the phenotypes.	O.I.	H.G.	S.X.
0.23	19.3	0.88	At4g24880	828590	unknown protein	F:unknown;P:unknown;C:unknown;MPOF	O.I.	H.G.	S.X.
0.23	19.3	0.88	At1g47720	841183	OSB1 (Organellar Single-stranded)	Encodes an organellar single-strand DNA binding protein, located in mitochondria, controls the stoichiometry of alternative mitochondrial DNA forms generated by homologous recombination.	O.I.	H.G.	S.X.
0.23	19.3	0.89	At3g63270	825502	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPFO	O.I.	H.G.	S.X.
0.23	19.3	0.89	At1g73720	843707	transducin family protein / WD-40 repeat family protein	F:nucleotide binding;P:biological_process unknown;C:CUL4 RING ubiquitin ligase complex;MFOBPAV	O.I.	H.G.	S.X.
0.23	19.3	0.89	At3g07200	819908	zinc finger (C3HC4-type RING finger) family protein	F:protein binding, zinc ion binding;P:unknown;C:unknown;MOFPV	O.I.	H.G.	S.X.
0.23	19.3	0.89	At5g58030	835915	transport protein particle (TRAPP) component Bet3 family protein	F:molecular_function unknown;P:ER to Golgi vesicle-mediated transport;C:cellular_component unknown;MFOP	O.I.	H.G.	S.X.
0.23	19.3	0.89	At1g04260	839565	MPI7 (CAMV MOVEMENT PROTEIN INTERACTING PROTEIN 7)	Encodes protein that interacts with CaMV movement protein. Colocalizes in the cytoplasm with the movement protein. Has similarity to mammalian proteins (such as the rat PRA1) which have been described as rab acceptors.	O.I.	H.G.	S.X.
0.23	19.3	0.88	At1g06630	837172	-	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO	O.I.	H.G.	S.X.
0.23	19.3	0.88	At3g56110	824777	PRA1.B1 (PRENYLATED RAB ACCEPTOR 1.B1)	F:molecular_function unknown;P:vesicle-mediated transport;C:endoplasmic reticulum;PMFO	O.I.	H.G.	S.X.
0.22	17.5	0.88	At1g09520	837478	protein binding / zinc ion binding	F:protein binding, zinc ion binding;P:unknown;C:chloroplast;POF	O.I.	H.G.	S.X.
0.22	17.5	0.90	At5g55190	835612	RAN3 (RAN GTPASE 3)	A member of RAN GTPase gene family. Encodes a small soluble GTP-binding protein. Likely to be involved in nuclear translocation of proteins. May also be involved in cell cycle progression.	O.I.	H.G.	S.X.
0.22	17.5	0.88	At3g48750	824036	CDC2 (CELL DIVISION CONTROL 2)	A-type cyclin-dependent kinase. Together with its specific inhibitor, the Kip-related protein, KRP2 they regulate the mitosis-to-endocycle transition during leaf development. Dominant negative mutations abolish cell division. Loss of function phenotype has reduced fertility with failure to transmit via pollen. Pollen development is arrested at the second mitotic division. Expression is regulated by environmental and chemical signals. Part of the promoter is responsible for expression in trichomes. Functions as a positive regulator of cell proliferation during development of the male gametophyte, embryo and endosperm. Phosphorylation of threonine 161 is required for activation of its associated kinase.	O.I.	H.G.	S.X.
0.21	15.8	0.88	At5g02740	831811	nucleotide binding	F:nucleotide binding;P:biological_process unknown;C:cellular_component unknown;PM	O.I.	H.G.	S.X.
0.21	15.8	0.90	At5g54750	835565	transport protein particle (TRAPP) component Bet3, putative	F:molecular_function unknown;P:ER to Golgi vesicle-mediated transport;C:cellular_component unknown;MFOP	O.I.	H.G.	S.X.
0.21	15.8	0.88	At4g27690	828883	VPS26B (VACUOLAR PROTEIN SORTING 26B)	F:molecular_function unknown;P:intracellular protein transport, vacuolar transport, retrograde transport, endosome to Golgi;C:retromer complex;MOFP	O.I.	H.G.	S.X.
0.21	15.8	0.88	At4g24490	828551	protein prenyltransferase	F:protein prenyltransferase activity;P:response to cadmium ion;C:unknown;MOFBPAV	O.I.	H.G.	S.X.
0.21	15.8	0.88	At5g05000	830382	TOC34 (TRANSLOCON AT THE OUTER ENVELOPE MEMBRANE OF CHLOROPLASTS 34)	Outer membrane protein that may function in import of nuclear encoded proteins into the chloroplast.	O.I.	H.G.	S.X.
0.21	15.8	0.89	At2g34520	818015	RPS14 (mitochondrial ribosomal protein S14)	nuclear-encoded mitochondrial ribosomal protein S14	O.I.	H.G.	S.X.
0.21	15.8	0.88	At4g31180	829246	aspartyl-tRNA synthetase, putative / aspartate--tRNA ligase, putative	F:aspartate-tRNA ligase activity, nucleotide binding, aminoacyl-tRNA ligase activity, nucleic acid binding, ATP binding;P:response to cadmium ion, aspartyl-tRNA aminoacylation;C:chloroplast, cytoplasm;BOMFAP	O.I.	H.G.	S.X.
0.20	14.4	0.88	At4g35980	829752	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	H.G.	S.X.
0.20	14.4	0.88	At4g34670	829619	40S ribosomal protein S3A (RPS3aB)	F:structural constituent of ribosome;P:translation;C:in 6 components;MOAPFB	O.I.	H.G.	S.X.
0.20	14.4	0.89	At3g46040	823747	RPS15AD (ribosomal protein S15A D)	Regulated by TCP20.	O.I.	H.G.	S.X.
0.20	14.4	0.88	At3g51010	824265	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:mitochondrion, plastid;P	O.I.	H.G.	S.X.
0.18	11.4	0.89	At3g24830	822081	60S ribosomal protein L13A (RPL13aB)	F:structural constituent of ribosome;P:translation;C:cytosolic ribosome, cytosolic large ribosomal subunit, large ribosomal subunit, membrane;OMBAPF	O.I.	H.G.	S.X.
0.18	11.4	0.88	At3g02080	821120	40S ribosomal protein S19 (RPS19A)	F:structural constituent of ribosome;P:translation;C:cytosolic small ribosomal subunit, cytosolic ribosome, ribosome, cell wall;MOAPFB	O.I.	H.G.	S.X.
0.18	11.4	0.88	At4g32680	829403	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:unknown;P	O.I.	H.G.	S.X.
0.17	10.2	0.89	At1g61010	842393	CPSF73-I (CLEAVAGE AND POLYADENYLATION SPECIFICITY FACTOR 73-I)	F:protein binding;P:mRNA polyadenylation;C:mRNA cleavage and polyadenylation specificity factor complex, nucleus;BOMAFPV	O.I.	H.G.	S.X.
0.17	10.2	0.89	At4g05000	825842	VPS28-2	F:transporter activity;P:transport;C:ESCRT I complex;MFPO	O.I.	H.G.	S.X.
0.17	10.2	0.88	At4g09800	826569	RPS18C (S18 RIBOSOMAL PROTEIN)	encodes a ribosomal protein S18C, a constituent of the small subunit of the ribosomal complex	O.I.	H.G.	S.X.
0.16	8.8	0.88	At3g01150	821129	PTB1 (POLYPYRIMIDINE TRACT-BINDING PROTEIN 1)	Encodes one of the two polypyrimidine tract-binding (PTB) protein homologs in the Arabidopsis genome. Double mutants have defects in pollen germination.	O.I.	H.G.	S.X.
0.16	8.8	0.88	At3g02560	821308	40S ribosomal protein S7 (RPS7B)	F:structural constituent of ribosome;P:translation;C:cytosolic small ribosomal subunit, cytosolic ribosome, chloroplast, membrane;MPOF	O.I.	H.G.	S.X.
0.16	8.8	0.88	At5g63520	836471	-	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;BOPM	O.I.	H.G.	S.X.
0.14	6.8	0.88	At5g11810	831054	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO	O.I.	H.G.	S.X.
0.12	4.9	0.89	At1g11020	837644	zinc finger (C3HC4-type RING finger) family protein	F:protein binding, zinc ion binding;P:unknown;C:unknown;MOPFV	O.I.	H.G.	S.X.

Click More genes

Link to AtGenExpress Visualization Tool

Specific experiments for the module

Std2 GX %ile GSM ID Assay name GSE ID Experiment title Link to GEO
40.2 99.8 GSM184556 Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
36.4 99.7 GSM143310 Tsu_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
35.2 99.7 GSM143308 Tsu_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
34.0 99.7 GSM143309 Tsu_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
33.9 99.7 GSM143298 Low_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
33.2 99.7 GSM253646 Low_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
33.1 99.7 GSM143307 Low_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
32.5 99.7 GSM143301 Ts_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
32.5 99.7 GSM253645 High_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
30.8 99.7 GSM143300 Ts_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
29.9 99.7 GSM143302 Ts_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
29.4 99.7 GSM253647 Col-0 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
29.2 99.7 GSM253649 Col-0-2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
28.8 99.7 GSM143306 High_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
28.8 99.7 GSM143299 High_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
28.3 99.7 GSM253648 Col-0-1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
24.6 99.6 GSM253652 Ler 2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
24.0 99.6 GSM253650 Ler 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
22.9 99.6 GSM253651 Ler 1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
20.4 99.6 GSM154507 Arabidopsis growing pollen tubes rep1 GSE6696 Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in Arabidopsis
20.3 99.6 GSM205364 met1-3_leaf_second-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
18.7 99.5 GSM205430 met1-3_leaf_fourth-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
18.0 99.5 GSM205426 met1-3_leaf_second-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
17.4 99.5 GSM205432 Col_ leaf_ wildtype_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
15.6 99.5 GSM184551 Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
13.9 99.4 GSM205435 Col_ leaf_ wildtype_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
13.3 99.4 E-ATMX-35-raw-cel-1574334816
12.6 99.3 GSM205428 met1-3_leaf_fourth-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
11.6 99.3 GSM154508 Arabidopsis growing pollen tubes rep2 GSE6696 Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in Arabidopsis
10.8 99.2 GSM184537 Whole roots 2hr KCl control treated then frozen, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
10.8 99.2 GSM133762 Lindsey_1-14_torpedo-root_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
10.0 99.2 E-ATMX-35-raw-cel-1574334832

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
40.2	99.8	GSM184556	Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
36.4	99.7	GSM143310	Tsu_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
35.2	99.7	GSM143308	Tsu_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
34.0	99.7	GSM143309	Tsu_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
33.9	99.7	GSM143298	Low_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
33.2	99.7	GSM253646	Low_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
33.1	99.7	GSM143307	Low_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
32.5	99.7	GSM143301	Ts_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
32.5	99.7	GSM253645	High_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
30.8	99.7	GSM143300	Ts_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
29.9	99.7	GSM143302	Ts_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
29.4	99.7	GSM253647	Col-0 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
29.2	99.7	GSM253649	Col-0-2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
28.8	99.7	GSM143306	High_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
28.8	99.7	GSM143299	High_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
28.3	99.7	GSM253648	Col-0-1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
24.6	99.6	GSM253652	Ler 2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
24.0	99.6	GSM253650	Ler 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
22.9	99.6	GSM253651	Ler 1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
20.4	99.6	GSM154507	Arabidopsis growing pollen tubes rep1	GSE6696	Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in Arabidopsis
20.3	99.6	GSM205364	met1-3_leaf_second-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
18.7	99.5	GSM205430	met1-3_leaf_fourth-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
18.0	99.5	GSM205426	met1-3_leaf_second-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
17.4	99.5	GSM205432	Col_ leaf_ wildtype_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
15.6	99.5	GSM184551	Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
13.9	99.4	GSM205435	Col_ leaf_ wildtype_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
13.3	99.4	E-ATMX-35-raw-cel-1574334816
12.6	99.3	GSM205428	met1-3_leaf_fourth-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
11.6	99.3	GSM154508	Arabidopsis growing pollen tubes rep2	GSE6696	Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in Arabidopsis
10.8	99.2	GSM184537	Whole roots 2hr KCl control treated then frozen, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
10.8	99.2	GSM133762	Lindsey_1-14_torpedo-root_Rep1_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
10.0	99.2	E-ATMX-35-raw-cel-1574334832

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO
0.060 4 GO:0000398 The joining together of exons from one or more primary transcripts of nuclear messenger RNA (mRNA) and the excision of intron sequences, via a spliceosomal mechanism, so that mRNA consisting only of the joined exons is produced.
0.058 4 GO:0008380 The process of removing sections of the primary RNA transcript to remove sequences not present in the mature form of the RNA and joining the remaining sections to form the mature form of the RNA.
0.035 2 GO:0006333 The formation or destruction of chromatin structures.

SF	Genes	GO ID	Process Name
0.060	4	GO:0000398	The joining together of exons from one or more primary transcripts of nuclear messenger RNA (mRNA) and the excision of intron sequences, via a spliceosomal mechanism, so that mRNA consisting only of the joined exons is produced.
0.058	4	GO:0008380	The process of removing sections of the primary RNA transcript to remove sequences not present in the mature form of the RNA and joining the remaining sections to form the mature form of the RNA.
0.035	2	GO:0006333	The formation or destruction of chromatin structures.

KEGG PATHWAY inferred to related to the module

SF Genes KEGG ID Pathway name Link to KEGG
0.030 5 03010 Ribosome
0.029 2 03410 Base excision repair
0.018 1 00770 Pantothenate and CoA biosynthesis

SF	Genes	KEGG ID	Pathway name
0.030	5	03010	Ribosome
0.029	2	03410	Base excision repair
0.018	1	00770	Pantothenate and CoA biosynthesis

Inter-species module comparison

Select a plant to compare co-expressed genes between species.
Glycine_max
Hordeum_vulgare
Oryza_sativa
Populus_trichocarpa
Triticum_aestivum
Vitis_vinifera
Zea_mays

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Gene ID	At3g18030
Gene name	ATHAL3A
Module size	99 genes
NF	0.26
%ile	28.9

Co-expression analysis

Gene ID At3g18030 Gene name ATHAL3A Module size 99 genes NF 0.26 %ile 28.9

Co-expression network

: Transcription factor, : Binding protein, : Enzyme protein, : Other protein: VF over 0.50, : over 0.25, : below 0.25

Co-expressed genes

Click More genes

Link to AtGenExpress Visualization Tool

Specific experiments for the module

Biological processes inferred to relate to the module

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG0.030503010Ribosome0.029203410Base excision repair0.018100770Pantothenate and CoA biosynthesis

Inter-species module comparison

Select a plant to compare co-expressed genes between species.Glycine_maxHordeum_vulgareOryza_sativaPopulus_trichocarpaTriticum_aestivumVitis_viniferaZea_mays

Gene ID At3g18030

Gene name ATHAL3A

Module size 99 genes

NF 0.26

%ile 28.9

: Transcription factor, : Binding protein, : Enzyme protein, : Other protein
: VF over 0.50, : over 0.25, : below 0.25

SF Genes KEGG ID Pathway name Link to KEGG
0.030 5 03010 Ribosome
0.029 2 03410 Base excision repair
0.018 1 00770 Pantothenate and CoA biosynthesis

Select a plant to compare co-expressed genes between species.
Glycine_max
Hordeum_vulgare
Oryza_sativa
Populus_trichocarpa
Triticum_aestivum
Vitis_vinifera
Zea_mays