Co-expression analysis

Gene ID At5g58620
Gene name zinc finger (CCCH-type) family protein
Module size 9 genes
NF 0.15
%ile 11.7



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
1.00100.01.00At5g58620835976zinc finger (CCCH-type) family proteinF:transcription factor activity;P:regulation of transcription;C:endomembrane system;MOPFBVAO.I.H.G.S.X.
0.5773.80.86At2g20010816520-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POO.I.H.G.S.X.
0.5065.30.85At4g33430829480BAK1 (BRI1-ASSOCIATED RECEPTOR KINASE)Leu-rich receptor Serine/threonine protein kinase. Component of BR signaling that interacts with BRI1 in vitro and in vivo to form a heterodimer. Brassinolide-dependent association of BRI1 and BAK1 in vivo. Phosphorylation of both BRI1 and BAK1 on Thr residues was BR dependent. Although BAK1 and BRI1 alone localize in the plasma membrane, when BAK1 and BRI1 are coexpressed, the heterodimer BAK1/BRI1 they form is localized in the endosome.O.I.H.G.S.X.
0.3846.70.86At1g07630837276PLL5Encodes a protein phosphatase 2C like gene, similar to POL. Involved in leaf development. Knockout mutants have abnormally shaped leaves.O.I.H.G.S.X.
0.3541.60.85At1g17500838324ATPase, coupled to transmembrane movement of ions, phosphorylative mechanismF:ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism;P:metabolic process, ATP biosynthetic process, phospholipid transport;C:integral to membrane, membrane;MBOFPAVO.I.H.G.S.X.
0.157.80.86At1g21380838737VHS domain-containing protein / GAT domain-containing proteinF:protein transporter activity;P:intracellular protein transport, intra-Golgi vesicle-mediated transport;C:Golgi stack, intracellular;MFPOBO.I.H.G.S.X.
0.092.80.85At1g02500839501SAM1 (S-ADENOSYLMETHIONINE SYNTHETASE 1)encodes a S-adenosylmethionine synthetase. SAM1 is regulated by protein S-nitrosylation. The covalent binding of nitric oxide (NO) to the Cys114 residue inhibits the enzyme activity.O.I.H.G.S.X.
0.061.40.85At5g03290831884isocitrate dehydrogenase, putative / NAD+ isocitrate dehydrogenase, putativeF:isocitrate dehydrogenase (NAD+) activity, ATP binding;P:tricarboxylic acid cycle, metabolic process;C:mitochondrion, chloroplast;BOMFAPO.I.H.G.S.X.
0.030.60.85At2g18090816321PHD finger family protein / SWIB complex BAF60b domain-containing protein / GYF domain-containing proteinF:protein binding, DNA binding, zinc ion binding;P:regulation of transcription, DNA-dependent;C:unknown;MPBOFO.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
42.999.8GSM10456WT Post-Mature Green Seed 2GSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO
32.599.7GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
29.999.7GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
25.399.6GSM131702ATGE_82_CGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
25.399.6GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
24.899.6GSM10454WT Post-Mature Green Seed 1GSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO
21.999.6GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
21.699.6GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
19.899.6GSM131705ATGE_83_CGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
19.799.6GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
19.699.6GSM131706ATGE_84_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
18.999.5GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
18.299.5GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
17.399.5GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
17.399.5GSM131707ATGE_84_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
16.599.5GSM133304RIKEN-NAKABAYASHI1BGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO
16.299.5GSM133303RIKEN-NAKABAYASHI1AGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO
15.399.4GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
15.399.4GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
15.299.4GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
15.199.4GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
14.399.4GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
13.899.4GSM131703ATGE_83_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
13.299.4GSM131701ATGE_82_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
13.099.4GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
12.999.3GSM284391Arabidopsis GPE3GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
12.799.3GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
12.799.3GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
11.999.3GSM131700ATGE_82_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
10.499.2GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
9.699.1GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
9.399.1GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
9.199.1GSM131708ATGE_84_DGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
8.699.0GSM10484lec1-1 Post-Mature Green Seed 2GSE1051Seed development in LEAFY COTYLEDON1 mutantsLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.1671GO:0002229Reactions triggered in response to the presence of oomycetes that act to protect the cell or organism.Link to AmiGO
0.1541GO:0006556The chemical reactions and pathways resulting in the formation of S-adenosylmethionine, S-(5'-adenosyl)-L-methionine, an important intermediate in one-carbon metabolism.Link to AmiGO
0.0951GO:0015914The directed movement of phospholipids into, out of, within or between cells. Phospholipids are any lipids containing phosphoric acid as a mono- or diester.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.029100020Citrate cycle (TCA cycle)Link to KEGG PATHWAY
0.012101065Biosynthesis of alkaloids derived from histidine and purineLink to KEGG PATHWAY
0.012101066Biosynthesis of alkaloids derived from terpenoid and polyketideLink 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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