Co-expression analysis

Gene ID At4g39710
Gene name immunophilin, putative / FKBP-type peptidyl-prolyl cis-trans isomerase, putative
Module size 21 genes
NF 0.40
%ile 54.9



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
1.00100.01.00At4g39710830126immunophilin, putative / FKBP-type peptidyl-prolyl cis-trans isomerase, putativeF:FK506 binding, peptidyl-prolyl cis-trans isomerase activity;P:protein folding;C:thylakoid, chloroplast thylakoid membrane, chloroplast thylakoid lumen, chloroplast;BMOPFAO.I.H.G.S.X.
0.7083.50.94At2g39470818532PPL2 (PsbP-like protein 2)F:calcium ion binding;P:photosynthesis;C:in 6 components;PBOO.I.H.G.S.X.
0.5469.50.93At2g01590814688CRR3 (CHLORORESPIRATORY REDUCTION 3)Likely a subunit of the chloroplast NAD(P)H dehydrogenase complex, involved in PSI cyclic electron transport. Located in the membrane fraction of chloroplast. Mutant has impaired NAD(P)H dehydrogenase activity.O.I.H.G.S.X.
0.5065.30.93At5g58260835938-Encodes subunit NDH-N of NAD(P)H:plastoquinone dehydrogenase complex (Ndh complex) present in the thylakoid membrane of chloroplasts. This subunit is thought to be required for Ndh complex assembly.O.I.H.G.S.X.
0.4761.20.94At3g55330824699PPL1 (PsbP-like protein 1)F:calcium ion binding;P:photosynthesis;C:in 6 components;POBO.I.H.G.S.X.
0.4659.80.94At1g14150837974oxygen evolving enhancer 3 (PsbQ) family proteinF:calcium ion binding;P:photosynthesis;C:chloroplast thylakoid membrane, chloroplast photosystem II, chloroplast thylakoid lumen, chloroplast;PO.I.H.G.S.X.
0.4558.30.93At1g45474841099LHCA5Encodes a component of the light harvesting complex of photosystem I.O.I.H.G.S.X.
0.4457.20.93At1g70760843413CRR23 ((chlororespiratory reduction 23)a subunit of the chloroplast NAD(P)H dehydrogenase complex, involved in PSI cyclic electron transport. Located on the thylakoid membrane. Mutant has impaired NAD(P)H dehydrogenase activity.O.I.H.G.S.X.
0.4355.30.93At1g32080840100membrane protein, putativeF:unknown;P:unknown;C:chloroplast, chloroplast inner membrane, membrane, chloroplast envelope;BOFPAO.I.H.G.S.X.
0.4050.80.93At1g19150838498LHCA6PSI type II chlorophyll a/b-binding protein (Lhca2*1) mRNA,O.I.H.G.S.X.
0.3948.40.93At5g45680834607FK506-binding protein 1 (FKBP13)F:FK506 binding, peptidyl-prolyl cis-trans isomerase activity;P:protein folding;C:thylakoid lumen, chloroplast thylakoid lumen, chloroplast;BMOPFAO.I.H.G.S.X.
0.3846.70.94At3g56650824832thylakoid lumenal 20 kDa proteinF:unknown;P:unknown;C:thylakoid, thylakoid lumen, chloroplast thylakoid lumen, chloroplast stroma, chloroplast;PBOO.I.H.G.S.X.
0.3745.00.94At1g20810838672immunophilin / FKBP-type peptidyl-prolyl cis-trans isomerase family proteinF:FK506 binding, peptidyl-prolyl cis-trans isomerase activity;P:protein folding;C:thylakoid lumen, chloroplast thylakoid lumen, chloroplast;BOPMFO.I.H.G.S.X.
0.3643.60.93At4g18370827564DEG5 (DEGP PROTEASE 5)Encodes DEG5. Forms a hexamer with DEG8 in the thylakoid lumen. Involved in the cleavage of photodamaged D2 protein of photosystem II (PSII).O.I.H.G.S.X.
0.3338.10.93At1g76450843978oxygen-evolving complex-relatedF:unknown;P:unknown;C:thylakoid, thylakoid lumen, chloroplast thylakoid membrane, chloroplast thylakoid lumen, chloroplast;POO.I.H.G.S.X.
0.3338.10.93At5g23120832376HCF136encodes a stability and/or assembly factor of photosystem IIO.I.H.G.S.X.
0.3235.70.93At3g23700821951S1 RNA-binding domain-containing proteinF:RNA binding;P:response to cold;C:chloroplast stroma, nucleus, chloroplast;BOPMFAO.I.H.G.S.X.
0.3235.70.93At3g10060820167immunophilin, putative / FKBP-type peptidyl-prolyl cis-trans isomerase, putativeF:FK506 binding, peptidyl-prolyl cis-trans isomerase activity;P:protein folding;C:thylakoid, chloroplast thylakoid membrane, chloroplast thylakoid lumen, chloroplast;BMOPFAO.I.H.G.S.X.
0.2522.60.93At5g66190836751FNR1 (FERREDOXIN-NADP(+)-OXIDOREDUCTASE 1)Encodes a leaf-type ferredoxin:NADP(H) oxidoreductase. It is present in both chloroplast stroma and thylakoid membranes but is more abundant in the thylakoid. The affinity of this enzyme for ferredoxin is slightly, but significantly, higher than AtLFNR2, an isoform of the same enzyme. AtLFNR1 forms a heterodimer with AtFNR2 and is also a prerequisite to attach AtFNR2 to the thylakoid membrane.O.I.H.G.S.X.
0.2319.30.92At1g11860837733aminomethyltransferase, putativeF:aminomethyltransferase activity;P:response to cadmium ion;C:in 6 components;OBMFAPO.I.H.G.S.X.
0.2319.30.93At2g35370818104GDCHEncodes glycine decarboxylase complex H protein. Involved in photorespiration.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
96.999.9GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
82.799.9GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
70.099.9GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
69.399.9GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
68.899.9GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
68.299.9GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
64.399.8GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
63.999.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
62.599.8GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
62.299.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
61.999.8GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
61.699.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
60.299.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
59.499.8GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
58.699.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
57.699.8GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
57.099.8GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
55.199.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
53.599.8GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
53.399.8GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
40.499.8GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
16.099.5GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
15.999.5GSM154505Arabidopsis hydrated pollen grains rep1GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
14.399.4GSM154503Arabidopsis desiccated mature pollen grains rep1GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
13.699.4GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
13.199.4GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
11.599.3GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
11.099.2GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
10.899.2GSM176876AWP_AL_Txed_1GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO
9.499.1E-ATMX-35-raw-cel-1574334880
8.699.0E-ATMX-35-raw-cel-1574334864

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.1142GO:0009773Electrons move from the primary electron acceptor (Quinone, X) through a chain of electron transport molecules in the thylakoid membrane until they reach ferredoxin which passes the electron to the ultimate electron acceptor; NADP.Link to AmiGO
0.1095GO:0015979The synthesis by organisms of organic chemical compounds, especially carbohydrates, from carbon dioxide (CO2) using energy obtained from light rather than from the oxidation of chemical compounds.Link to AmiGO
0.0831GO:0010258The aggregation, arrangement and bonding together of a set of components to form NADH:plastoquinone dehydrogenase complex, which is involved in the non-photochemical reduction of plastoquinones, as well as the cyclic electron transport around photosystem I.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.064300195PhotosynthesisLink to KEGG PATHWAY
0.053100670One carbon pool by folateLink to KEGG PATHWAY
0.050100196Photosynthesis - antenna proteinsLink 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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