Co-expression analysis

Gene ID At5g19540
Gene name unknown protein
Module size 39 genes
NF 0.48
%ile 67.8



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
0.8793.51.00At5g19540832074unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;POBO.I.H.G.S.X.
0.7989.10.95At1g54520841894unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;BPOMO.I.H.G.S.X.
0.6781.60.94At4g25650828670ACD1-LIKE (ACD1-LIKE)Similar to ACD1. Leaves of antisense ACD1-like plants turn yellow in darkness like wild-type whereas antisense ACD1 plants remain dark after five days of dark treatment.O.I.H.G.S.X.
0.6680.10.93At5g48590834916unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;PBOO.I.H.G.S.X.
0.6680.10.93At5g02790831798In2-1 protein, putativeF:unknown;P:response to cadmium ion;C:unknown;PBMOFAO.I.H.G.S.X.
0.6277.30.94At1g67280843048lactoylglutathione lyase, putative / glyoxalase I, putativeF:lactoylglutathione lyase activity, metal ion binding;P:response to cold, carbohydrate metabolic process;C:thylakoid, thylakoid lumen, stromule, chloroplast, chloroplast stroma;BOMFPAO.I.H.G.S.X.
0.6176.70.93At1g767308440075-formyltetrahydrofolate cyclo-ligase family proteinF:catalytic activity, ATP binding, 5-formyltetrahydrofolate cyclo-ligase activity;P:folic acid and derivative biosynthetic process, metabolic process;C:chloroplast;MBAOPFO.I.H.G.S.X.
0.6176.70.92At4g37200829874HCF164Encodes thioredoxin-like protein with disulfide reductase activity that is involved in the biogenesis of the plastid cytochrome b6f complex. Protein is located in the thylakoid membrane with the C-terminal hydrophilic portion, containing the thioredoxin like domain, extending into the thylakoid lumen.O.I.H.G.S.X.
0.5974.70.93At1g02475839236-F:molecular_function unknown;P:biological_process unknown;C:chloroplast;BOPO.I.H.G.S.X.
0.5873.80.93At3g27925822416DEGP1 (DegP protease 1)Encodes a DegP protease; nuclear gene encoding chloroplast-targeted protease that can degrade two lumenal proteins, plastocyanin and OE33, suggesting a role as a general-purpose protease in the thylakoid lumen. Involved in the degradation of D1 protein of PS II, hence participating in the repair of PS II damages caused by photoinhibition.O.I.H.G.S.X.
0.5773.80.93At1g69390843271ATMINE1 (Arabidopsis homologue of bacterial MinE 1)Encodes an Arabidopsis homologue of the bacterial MinE topological specificity factor ensuring correct division site placement. It is an essential integral component of the plastid division machinery.O.I.H.G.S.X.
0.5469.50.92At1g48450841266unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;PBOO.I.H.G.S.X.
0.5469.50.92At1g49970841420CLPR1Encodes 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.
0.5368.60.93At1g32070840099ATNSI (NUCLEAR SHUTTLE INTERACTING)Encodes a nuclear acetyltransferase (NSI)that interacts with the geminivirus movement protein NSP. This interaction is required for viral infection and systemic spread. Acetylates the viral coat protein (CP) in vitro, but not NSP. NSP inhibits NSI activity in vitro. NSI is highly transcribed in phloem and in xylem parenchyma cells, and in the apical meristem and guard cells, within young tissues in Arabidopsis, and its expression is turned off as tissues mature.O.I.H.G.S.X.
0.5267.40.93At1g09130837432ATP-dependent Clp protease proteolytic subunit, putativeF:serine-type endopeptidase activity;P:proteolysis;C:in 6 components;BOPMFVO.I.H.G.S.X.
0.5166.30.93At2g35490818114plastid-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.
0.5166.30.93At5g45170834553CbbY protein-relatedF:molecular_function unknown;P:biological_process unknown;C:chloroplast stroma, chloroplast;BPOO.I.H.G.S.X.
0.4963.50.93At4g14210827061PDS3 (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.
0.4963.50.92At5g49940835057NFU2 (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.
0.4862.50.94At5g22830832346ATMGT10 (MAGNESIUM (MG) TRANSPORTER 10)putative Mg(2+) transport proteinO.I.H.G.S.X.
0.4862.50.93At1g32160840108unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;PBOO.I.H.G.S.X.
0.4761.20.93At4g38225829979unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;PO.I.H.G.S.X.
0.4761.20.93At4g35760829729-F:unknown;P:unknown;C:chloroplast;OBPO.I.H.G.S.X.
0.4457.20.93At1g63970842700ISPFEncodes a protein with 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase activity. The protein's activity was confirmed by heterologous expression of phenotypic complementation of the E. coli ispF mutant. Plants defective in this gene display an albino lethal phenotype.Homolog of E. coli IspFO.I.H.G.S.X.
0.4355.30.93At5g03880831679electron carrierF:electron carrier activity;P:cell redox homeostasis;C:chloroplast thylakoid membrane, chloroplast;BOPAFMO.I.H.G.S.X.
0.4355.30.93At2g28800817429ALB3 (ALBINO 3)member of Chloroplast membrane protein ALBINO3 familyO.I.H.G.S.X.
0.4355.30.93At1g02560839433CLPP5 (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.
0.4152.40.94At2g01110814640APG2 (ALBINO AND PALE GREEN 2)mutant is Albino and pale green; Chloroplast Protein Translocation (tatC). Core subunit of the chloroplast Tat translocase. Integral chloroplast thylakoid membrane protein.O.I.H.G.S.X.
0.4152.40.92At4g14910827149imidazoleglycerol-phosphate dehydratase, putativeF:imidazoleglycerol-phosphate dehydratase activity;P:histidine biosynthetic process;C:chloroplast;BOFAPMO.I.H.G.S.X.
0.4050.80.93At4g31530829280binding / catalyticF:binding, catalytic activity;P:metabolic process;C:chloroplast stroma, chloroplast, chloroplast envelope;BOPMFAO.I.H.G.S.X.
0.4050.80.93At2g44870819096unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;PBO.I.H.G.S.X.
0.3948.40.93At5g38660833856APE1 (ACCLIMATION OF PHOTOSYNTHESIS TO ENVIRONMENT)mutant has Altered acclimation responses;O.I.H.G.S.X.
0.3846.70.92At1g66670842985CLPP3One 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.
0.3846.70.93At3g10970820268haloacid dehalogenase-like hydrolase family proteinF:hydrolase activity, catalytic activity;P:metabolic process;C:chloroplast;BOPAMFO.I.H.G.S.X.
0.3745.00.94At2g04700815013ferredoxin thioredoxin reductase catalytic beta chain family proteinF:ferredoxin:thioredoxin reductase activity, ferredoxin reductase activity;P:unknown;C:chloroplast;BOPAO.I.H.G.S.X.
0.3643.60.93At2g30950817646VAR2 (VARIEGATED 2)Metalloprotease that functions in thylakoid membrane biogenesis. Involved in the repair of PSII following damaged incurred during photoinhibition. Forms a complex with VAR1. Mutants show a variegated phenotype, which decreases during development. Transcript and protein levels increase with light intensity.O.I.H.G.S.X.
0.3133.80.92At1g65260842833PTAC4 (PLASTID TRANSCRIPTIONALLY ACTIVE4)F:unknown;P:biological_process unknown;C:in 8 components;BOMVFPAO.I.H.G.S.X.
0.3032.10.92At3g08010819992ATAB2Encodes a chloroplast-localized protein ATAB2. ATAB2 is involved in the biogenesis of Photosystem I and II. ATAB2 has A/U-rich RNA-binding activity and presumably functions as an activator of translation with targets at PS I and PS II.O.I.H.G.S.X.
0.2830.30.94At3g15360820775TRX-M4 (ARABIDOPSIS THIOREDOXIN M-TYPE 4)encodes a prokaryotic thioredoxinO.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
76.899.9GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
42.199.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
41.599.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
40.999.8GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
40.699.8GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
40.099.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
39.399.8GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
38.499.8GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
38.399.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
38.199.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
37.499.7GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
36.899.7GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
36.199.7GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
36.199.7GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
35.799.7GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
34.099.7GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
33.799.7GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
33.799.7GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
32.799.7GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
32.699.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
30.699.7GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
30.399.7GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
25.799.7GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
25.599.7GSM311280Laser capture microdissected (LCM) chalazal endosperm at the pre-globular stage, biological replicate 2GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
25.499.6GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
24.999.6GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
24.999.6GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
24.299.6GSM284392Arabidopsis GCE1GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
19.699.6GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
18.799.5GSM311279Laser capture microdissected (LCM) chalazal endosperm at the pre-globular stage, biological replicate 1GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
16.799.5GSM284394Arabidopsis GCE3GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
14.099.4GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
13.999.4GSM311277Laser capture microdissected (LCM) peripheral endosperm at the pre-globular stage, biological replicate 1GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
13.599.4GSM284393Arabidopsis GCE2GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
12.899.3GSM311278Laser capture microdissected (LCM) peripheral endosperm at the pre-globular stage, biological replicate 2GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
12.499.3E-MEXP-807-raw-cel-1173273144
12.099.3E-MEXP-807-raw-cel-1173273252
10.899.2GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
10.299.2GSM176876AWP_AL_Txed_1GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO
9.099.1E-MEXP-807-raw-cel-1173273116

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.1404GO:0010027A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of the thylakoid membrane.Link to AmiGO
0.0772GO: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
0.0501GO:0016050A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a vesicle.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.062203060Protein exportLink to KEGG PATHWAY
0.038100340Histidine metabolismLink to KEGG PATHWAY
0.036100670One carbon pool by folateLink 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



Back to the CoP portal site

Back to the KAGIANA project homepage