Co-expression analysis

Gene ID At1g77990
Gene name AST56
Module size 50 genes
NF 0.29
%ile 34.2



Co-expression network

pink confeito: Transcription factor, green bicone: Binding protein, red cone: Enzyme protein, blue sphere: Other protein
large node: VF over 0.50, middle node: over 0.25, small node: 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
1.00100.01.00At1g77990844134AST56cDNA encoding a sulfate transporter.O.I.H.G.S.X.
0.5166.30.84At5g54290835517cytochrome c biogenesis protein familyF:unknown;P:cytochrome complex assembly;C:membrane;BOAPO.I.H.G.S.X.
0.4355.30.84At3g26085822206CAAX amino terminal protease family proteinF:molecular_function unknown;P:proteolysis;C:membrane;BOPAO.I.H.G.S.X.
0.4355.30.85At5g49970835061ATPPOX (A. THALIANA PYRIDOXIN (PYRODOXAMINE) 5'-PHOSPHATE OXIDASE)encodes the bifunctional pyridoxine (pyridoxamine) 5-phosphate oxidase (PPOX)(EC 1.4.3.5) that is involved in the formation of pyridoxal 5'-phosphate (member of the vitamin B6 group)O.I.H.G.S.X.
0.4253.90.84At2g03390814868uvrB/uvrC motif-containing proteinF:DNA binding, nuclease activity;P:nucleotide-excision repair;C:chloroplast;OBMFPO.I.H.G.S.X.
0.4253.90.84At1g36320840539unknown proteinF:molecular_function unknown;P:biological_process unknown;C:unknown;POO.I.H.G.S.X.
0.4152.40.83At5g42030834208ABIL4 (ABL INTERACTOR-LIKE PROTEIN 4)F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.4152.40.84At1g49970841420CLPR1Encodes a ClpP-related sequence. Though similar to ClpP proteins, this does not contains the highly conserved catalytic triad of Ser-type proteases (Ser-His-Asp). The name reflects nomenclature described in Adam et. al (2001).O.I.H.G.S.X.
0.4050.80.85At3g58010824970unknown proteinF:unknown;P:biological_process unknown;C:thylakoid, thylakoid lumen, chloroplast thylakoid membrane, chloroplast, plastoglobule;PFOO.I.H.G.S.X.
0.3948.40.83At3g43540823446unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;BOPO.I.H.G.S.X.
0.3846.70.84At1g35340840423ATP-dependent protease La (LON) domain-containing proteinF:ATP-dependent peptidase activity;P:ATP-dependent proteolysis;C:chloroplast;BOPFMO.I.H.G.S.X.
0.3846.70.83At3g04890819649unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;BPOO.I.H.G.S.X.
0.3745.00.83At1g69935843330SHW1 (SHORT HYPOCOTYL IN WHITE LIGHT1)Encodes a nuclear localized serine-arginine-aspartate-rich protein that acts as a negative regulator of photomorphogenesis.O.I.H.G.S.X.
0.3643.60.85At4g35760829729-F:unknown;P:unknown;C:chloroplast;OBPO.I.H.G.S.X.
0.3643.60.84At4g14210827061PDS3 (PHYTOENE DESATURASE 3)Encodes phytoene desaturase (phytoene dehydrogenase), an enzyme that catalyzes the desaturation of phytoene to zeta-carotene during carotenoid biosynthesis. Processed protein is localized to the plastid.O.I.H.G.S.X.
0.3643.60.83At2g24820817019TIC55 (TRANSLOCON AT THE INNER ENVELOPE MEMBRANE OF CHLOROPLASTS 55)F:electron carrier activity, oxidoreductase activity, 2 iron, 2 sulfur cluster binding;P:oxidation reduction;C:chloroplast, chloroplast envelope;BOPMFAO.I.H.G.S.X.
0.3541.60.84At3g63520825527CCD1 (CAROTENOID CLEAVAGE DIOXYGENASE 1)Encodes a protein with 9-cis-epoxycarotenoid dioxygenase activity. The enzyme was shown to act on a variety of carotenoid including β-carotene, lutein, zeaxanthin, and all-trans-violaxanthin. When those compounds are used as substrates, the major reaction product detected is a C14 dialdehyde: 4,9-dimethyldodeca-2,4,6,8,10-pentaene-1,12-dial. The enzyme did not cleave as efficiently carotenoids containing 9-cis-double or allenic bonds.O.I.H.G.S.X.
0.3439.80.84At3g04870819647ZDS (ZETA-CAROTENE DESATURASE)Involved in the biosynthesis of carotenes and xanthophylls, reduces zeta-carotene to lycopene.O.I.H.G.S.X.
0.3439.80.83At1g54350841876ABC transporter family proteinF:ATPase activity, coupled to transmembrane movement of substances;P:transport;C:chloroplast;BOMFAPVO.I.H.G.S.X.
0.3338.10.84At5g03900831927-F:molecular_function unknown;P:biological_process unknown;C:chloroplast envelope;BPOO.I.H.G.S.X.
0.3338.10.85At5g06130830500chaperone protein dnaJ-relatedF:unknown;P:unknown;C:unknown;PBOO.I.H.G.S.X.
0.3338.10.85At5g53170835398FTSH11 (FtsH protease 11)encodes an FtsH protease that is localized to the chloroplast and the mitochondrionO.I.H.G.S.X.
0.3235.70.84At1g02475839236-F:molecular_function unknown;P:biological_process unknown;C:chloroplast;BOPO.I.H.G.S.X.
0.3235.70.84At1g32160840108unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;PBOO.I.H.G.S.X.
0.3235.70.85At4g09620826547-F:molecular_function unknown;P:biological_process unknown;C:chloroplast;POO.I.H.G.S.X.
0.3235.70.84At3g05350819699aminopeptidase/ hydrolaseF:hydrolase activity, aminopeptidase activity;P:proteolysis, cellular process;C:chloroplast, chloroplast stroma;BOMFAPO.I.H.G.S.X.
0.3133.80.85At2g35490818114plastid-lipid associated protein PAP, putativeF:structural molecule activity;P:biological_process unknown;C:thylakoid, chloroplast thylakoid membrane, chloroplast, plastoglobule;PBOMO.I.H.G.S.X.
0.3032.10.83At5g36170833614HCF109 (HIGH CHLOROPHYLL FLUORESCENT 109)Required for normal processing of polycistronic plastidial transcriptsO.I.H.G.S.X.
0.2930.30.83At3g20930821642RNA recognition motif (RRM)-containing proteinF:RNA binding, nucleotide binding, nucleic acid binding;P:biological_process unknown;C:chloroplast;MPFOBAO.I.H.G.S.X.
0.2930.30.83At1g02910839350LPA1 (LOW PSII ACCUMULATION1)Mutants defective in this gene were shown to have a reduced PSII content (overall reduction in the levels of several PSII subunits) and a disrupted grana stack structure. The N-terminal half of the protein contains two tetratricopeptide repeat (TPR) motifs that are arranged tandemly, each consisting of a 34-residue degenerate consensus sequence. The N-terminal sequence is rich in positive and hydroxylated amino acid residues.O.I.H.G.S.X.
0.2830.30.83At4g08280826382-F:molecular_function unknown;P:biological_process unknown;C:chloroplast;BOPFO.I.H.G.S.X.
0.2830.30.83At5g49940835057NFU2 (NIFU-LIKE PROTEIN 2)Encodes a protein containing the NFU domain and functions as a molecular scaffold for iron-sulfur cluster assembly and delivery. Homologous to the cyanobacterial CNFU protein and is targeted to the chloroplast.O.I.H.G.S.X.
0.2830.30.83At3g25690822157CHUP1 (CHLOROPLAST UNUSUAL POSITIONING 1)actin binding protein required for normal chloroplast positioningO.I.H.G.S.X.
0.2830.30.85At2g26340817174unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast thylakoid membrane, chloroplast thylakoid lumen, chloroplast;PO.I.H.G.S.X.
0.2726.20.85At4g03520825653ATHM2chloroplast localized thioredoxin, similar to prokaryotic types.O.I.H.G.S.X.
0.2624.40.84At4g14910827149imidazoleglycerol-phosphate dehydratase, putativeF:imidazoleglycerol-phosphate dehydratase activity;P:histidine biosynthetic process;C:chloroplast;BOFAPMO.I.H.G.S.X.
0.2420.70.83At1g02560839433CLPP5 (NUCLEAR ENCODED CLP PROTEASE 5)One of several nuclear-encoded ClpPs (caseinolytic protease). Contains a highly conserved catalytic triad of Ser-type proteases (Ser-His-Asp). The name reflects nomenclature described in Adam et. al (2001).O.I.H.G.S.X.
0.2319.30.84At5g53580835440aldo/keto reductase family proteinF:oxidoreductase activity, aldo-keto reductase activity;P:oxidation reduction;C:chloroplast;BOMFPAO.I.H.G.S.X.
0.2014.40.83At1g31800840067CYP97A3 (CYTOCHROME P450-TYPE MONOOXYGENASE 97A3)Encodes a protein with β-ring carotenoid hydroxylase activity.O.I.H.G.S.X.
0.2014.40.83At2g04700815013ferredoxin thioredoxin reductase catalytic beta chain family proteinF:ferredoxin:thioredoxin reductase activity, ferredoxin reductase activity;P:unknown;C:chloroplast;BOPAO.I.H.G.S.X.
0.2014.40.84At5g03880831679electron carrierF:electron carrier activity;P:cell redox homeostasis;C:chloroplast thylakoid membrane, chloroplast;BOPAFMO.I.H.G.S.X.
0.2014.40.83At3g26900822306shikimate kinase family proteinF:shikimate kinase activity, ATP binding;P:aromatic amino acid family biosynthetic process;C:chloroplast stroma, chloroplast;BOPMAFO.I.H.G.S.X.
0.1811.40.84At3g56010824767unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast thylakoid membrane;PO.I.H.G.S.X.
0.1710.20.84At2g43750818978OASB (O-ACETYLSERINE (THIOL) LYASE B)Arabidopsis thaliana O-acetylserine (thiol) lyase (OAS-TL) isoform oasB, the key enzyme for fixation of inorganic sulfide. It catalyzes the formation of cysteine from O-acetylserine and inorganic sulfide.O.I.H.G.S.X.
0.168.80.84At3g10670820236ATNAP7Plastidic SufC-like ATP-binding cassette/ATPase essential for Arabidopsis embryogenesis. Involved in the biogenesis and/or repair of oxidatively damaged FeS clusters. Expressed in embryos and meristems.O.I.H.G.S.X.
0.146.80.83At5g57850835895aminotransferase class IV family proteinF:4-amino-4-deoxychorismate lyase activity, catalytic activity;P:tetrahydrofolate biosynthetic process;C:chloroplast;BOAPFO.I.H.G.S.X.
0.135.80.85At1g48420841263D-CDES (D-CYSTEINE DESULFHYDRASE)Encodes an enzyme that decomposes D-cysteine into pyruvate, H2S, and NH3. Only D-cysteine but not L-cysteine was converted by D-CDes to pyruvate, H2S, and NH3. Unlike homologous bacterial enzymes, it does not have 1-aminocyclopropane-1-carboxylate deaminase activity.O.I.H.G.S.X.
0.092.80.84At4g31990829330ASP5 (ASPARTATE AMINOTRANSFERASE 5)encodes a plastid-localized aspartate aminotransferaseO.I.H.G.S.X.
0.082.30.83At1g79870844326oxidoreductase family proteinF:in 6 functions;P:metabolic process;C:unknown;BOFMPAVO.I.H.G.S.X.
0.082.30.83At1g33780840269unknown proteinF:unknown;P:unknown;C:chloroplast thylakoid lumen, chloroplast;BOPO.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
59.199.8GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
46.699.8GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
42.599.8GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
42.399.8GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
41.299.8GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
40.799.8GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
40.499.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
39.599.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
38.499.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
37.699.7GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
37.399.7GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
36.999.7GSM270870Arabidopsis cell culture, 4 h_response to phytoprostane A1_rep3GSE10719Response of Arabidopsis cell culture to phytoprostane A1Link to GEO
36.799.7GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
36.599.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
35.499.7GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
35.299.7GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
34.899.7GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
34.599.7GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
34.499.7GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
34.299.7GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
34.099.7GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
32.799.7GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
32.499.7GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
32.399.7GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
30.699.7GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
26.499.7GSM270868Arabidopsis cell culture, 4 h_response to phytoprostane A1_rep2GSE10719Response of Arabidopsis cell culture to phytoprostane A1Link to GEO
25.399.6GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
23.999.6GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
23.299.6GSM284389Arabidopsis GMPE2GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
19.299.6GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
18.999.5GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
12.299.3GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
12.099.3GSM311275Laser capture microdissected (LCM) micropylar endosperm at the pre-globular stage, biological replicate 1GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
11.899.3GSM311276Laser capture microdissected (LCM) micropylar endospermr at the pre-globular stage, biological replicate 2GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
10.399.2GSM284394Arabidopsis GCE3GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
10.099.2GSM284392Arabidopsis GCE1GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
8.699.0GSM284393Arabidopsis GCE2GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0712GO:0016120The chemical reactions and pathways resulting in the formation of carotenes, hydrocarbon carotenoids.Link to AmiGO
0.0632GO:0016117The chemical reactions and pathways resulting in the formation of carotenoids, tetraterpenoid compounds in which two units of 4 isoprenoid residues joined head-to-tail are themselves joined tail-to-tail.Link to AmiGO
0.0572GO:0016226The incorporation of iron and exogenous sulfur into a metallo-sulfur cluster.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.056200906Carotenoid biosynthesisLink to KEGG PATHWAY
0.035200270Cysteine and methionine metabolismLink to KEGG PATHWAY
0.033100950Isoquinoline alkaloid biosynthesisLink to KEGG PATHWAY

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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