Co-expression analysis

Gene ID At1g57906
Gene name -
Module size 21 genes
NF 0.72
%ile 90.3



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
0.4862.51.00At1g57906842163-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.9195.60.94At3g28280822454-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.8693.10.92At2g01500814678PFS2 (PRETTY FEW SEEDS 2)PFS2 encodes a homeodomain gene that is a member of the WUS clade of transcription factors. It delays differentiation and maturation of primordia and regulates ovule patterning. The pfs2 mutant exhibits developmental defects in the maternal integuments and gametophyte, specifically, the boundary between the chalaza and the nucellus shifted towards the distal end of pfs2 ovule primordia. In addition, leaves displayed curling and petals were wavy and crenulated. Overexpression of PFS2 affects floral organ and leaf development. Single- and double-mutant analyses reveal that PFS2 activity represses AGAMOUS expression in young floral primordia. Also involved in regulation of response to low temperature.O.I.H.G.S.X.
0.8592.40.90At2g40440818638BTB/POZ domain-containing proteinF:protein binding;P:biological_process unknown;C:cellular_component unknown;PMOO.I.H.G.S.X.
0.8190.40.90At2g33160817877glycoside hydrolase family 28 protein / polygalacturonase (pectinase) family proteinF:polygalacturonase activity, nucleic acid binding;P:carbohydrate metabolic process;C:endomembrane system;PFBOMAO.I.H.G.S.X.
0.8089.80.90At4g25510828655unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.7989.10.93At5g44330834458male sterility MS5 family proteinF:binding;P:biological_process unknown;C:unknown;POBAO.I.H.G.S.X.
0.7888.60.92At4g02970828121AT7SL-1 (Arabidopsis 7SL RNA 1)Signal recognition particle. Type 4 of RNA polymerase III dependent genes.O.I.H.G.S.X.
0.7888.60.90At4g16050827290unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;OMFPBVAO.I.H.G.S.X.
0.7888.60.92At1g29730839851ATP binding / kinase/ protein binding / protein kinase/ protein serine/threonine kinase/ protein tyrosine kinaseF:in 6 functions;P:protein amino acid phosphorylation;C:endomembrane system;PMOBFVAO.I.H.G.S.X.
0.7586.90.94At1g52430841674ubiquitin carboxyl-terminal hydrolase-relatedF:ubiquitin thiolesterase activity;P:ubiquitin-dependent protein catabolic process;C:cellular_component unknown;POBMFO.I.H.G.S.X.
0.7586.90.90At3g57900824959unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.7486.10.90At2g13640815849Golgi GDP mannose transporter (GONST1)F:unknown;P:transcription;C:nucleus;OMBPFVAO.I.H.G.S.X.
0.7284.80.93At1g11690837713unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOBFPAVO.I.H.G.S.X.
0.7184.20.90At3g04990819659-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOBFPAVO.I.H.G.S.X.
0.7184.20.92At1g50800841502unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PBOMFVO.I.H.G.S.X.
0.7083.50.92At1g46912841119F-box family protein-relatedF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.7083.50.90At5g66370836769unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POFO.I.H.G.S.X.
0.6378.10.90At5g18160831934F-box family proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.6176.70.91At1g29570839834zinc finger protein-relatedF:zinc ion binding, nucleic acid binding;P:biological_process unknown;C:cellular_component unknown;MOBFPVAO.I.H.G.S.X.
0.5570.60.94At3g19070821441cell wall protein-relatedF:transcription factor activity;P:regulation of transcription;C:unknown;OMFPBVAO.I.H.G.S.X.

VF%ileCCGene IDRepr. IDGene nameFunc.O.I.H.G.S.X.Other DB
0.8693.10.88At5g26620832728unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.7888.60.89At2g13900815874DC1 domain-containing proteinF:protein binding, zinc ion binding;P:unknown;C:unknown;PMOO.I.H.G.S.X.
0.7888.60.90At4g220653769974transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.7888.60.86At4g220203770103-F:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.7888.60.86At1g33670840258leucine-rich repeat family proteinF:protein binding;P:signal transduction;C:endomembrane system;PMOBFAO.I.H.G.S.X.
0.7788.00.84At3g03290821301universal stress protein (USP) family proteinF:molecular_function unknown;P:response to stress;C:unknown;PMOFO.I.H.G.S.X.
0.7586.90.88At5g14560831307unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.7586.90.87At1g20530838641unknown proteinF:molecular_function unknown;P:N-terminal protein myristoylation;C:cellular_component unknown;OMPBFAO.I.H.G.S.X.
0.7385.50.95At1g33820840277unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOBPO.I.H.G.S.X.
0.7284.80.88At1g18050838385SWAP (Suppressor-of-White-APricot)/surp domain-containing proteinF:RNA binding;P:RNA processing;C:cellular_component unknown;MPOFO.I.H.G.S.X.
0.7284.80.89At5g27810832843sequence-specific DNA binding / transcription factorF:transcription factor activity, sequence-specific DNA binding;P:regulation of transcription, DNA-dependent;C:nucleus;PO.I.H.G.S.X.
0.7184.20.89At2g24410816977-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFPOO.I.H.G.S.X.
0.7184.20.88At4g14670827117CLPB2This locus was originally annotated as encoding ClpB2 (also referred to as Hsp92.7), which belongs to the Casein lytic proteinase/heat shock protein 100 (Clp/Hsp100) family. However, according to Lee et al. (2007, Plant Journal, 49:115-127), there is no evidence for expression of an appropriate-sized mRNA from this locus. Re-annotation of the genome indicates that this locus potentially encodes a 68.8-kDa protein, containing only the N-terminal two thirds of the originally predicted open reading frame. This locus contains a 626-bp deletion in WS ecotype compared with the Col ecotype, which eliminates residues 1-86 of the predicted protein.O.I.H.G.S.X.
0.7184.20.91At5g37860833764copper-binding family proteinF:copper ion binding, metal ion binding;P:copper ion transport, metal ion transport;C:cellular_component unknown;POBFMO.I.H.G.S.X.
0.7184.20.81At4g09080826486TOC75-IVComponent of the translocon outer membrane (TOC) complex. Forms the outer envelope translocation channel (beta-barrel). Plays a role in preprotein conductance. Imported into chloroplast. Knockout mutants have abnormal etioplasts.O.I.H.G.S.X.
0.7083.50.89At1g54880841927unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.6882.20.86At4g01030827926pentatricopeptide (PPR) repeat-containing proteinF:unknown;P:biological_process unknown;C:cellular_component unknown;POMFBAO.I.H.G.S.X.
0.6781.60.87At2g33010817863ubiquitin-associated (UBA)/TS-N domain-containing proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMFO.I.H.G.S.X.
0.6781.60.82At3g56380824805ARR17 (ARABIDOPSIS RESPONSE REGULATOR 17)response regulator 17O.I.H.G.S.X.
0.6781.60.84At3g20180821562metal ion bindingF:metal ion binding;P:metal ion transport;C:cellular_component unknown;PO.I.H.G.S.X.
0.6680.10.87At1g32650840159unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknownO.I.H.G.S.X.
0.6579.60.79At5g60110836133APUM18 (Arabidopsis Pumilio 18)F:RNA binding, binding;P:unknown;C:chloroplast;OPFMO.I.H.G.S.X.
0.6579.60.85At2g32050817765cell cycle control protein-relatedF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFOPO.I.H.G.S.X.
0.6579.60.84At1g30140839894unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PFO.I.H.G.S.X.
0.6579.60.86At3g25185--O.I.H.G.S.X.
0.6478.90.87At2g34580818022unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;OMBFPAVO.I.H.G.S.X.
0.6478.90.89At2g34800818045unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.6378.10.85At4g19570827699DNAJ heat shock N-terminal domain-containing proteinF:unfolded protein binding, heat shock protein binding;P:protein folding;C:cellular_component unknown;BOMPFVAO.I.H.G.S.X.
0.6378.10.87At2g20510816572ATTIM44-1One of two loci encoding the TIM44 subunit of the mitochondrial inner membrane translocase complex. TIM44 subunit is the part of the complex that hydrolyzes ATP to provide energy for protein translocation to the inner membrane.O.I.H.G.S.X.
0.6378.10.92At4g08450826403disease resistance protein (TIR-NBS-LRR class), putativeF:transmembrane receptor activity, nucleoside-triphosphatase activity, nucleotide binding, ATP binding;P:signal transduction, defense response, apoptosis, innate immune response;C:intrinsic to membrane;BPOMFVAO.I.H.G.S.X.
0.6378.10.87At5g44470834474-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.6378.10.84At2g18540816369cupin family proteinF:nutrient reservoir activity;P:biological_process unknown;C:endomembrane system;MOBFPVAO.I.H.G.S.X.
0.6277.30.87At4g26020828708-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOBFPAVO.I.H.G.S.X.
0.6176.70.85At1g341003766911-F:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.6176.70.72At3g60650825236unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.6176.70.85At3g49170824078EMB2261 (embryo defective 2261)F:unknown;P:embryonic development ending in seed dormancy;C:chloroplast;POMFBO.I.H.G.S.X.
0.6075.70.82At1g11920837742pectate lyase family proteinF:lyase activity, pectate lyase activity;P:biological_process unknown;C:endomembrane system;BPFOO.I.H.G.S.X.
0.6075.70.89At2g16200816117protein binding / structural moleculeF:protein binding, structural molecule activity;P:intracellular protein transport, vesicle-mediated transport;C:membrane coat, Golgi-associated vesicle;POO.I.H.G.S.X.
0.6075.70.87At4g21950828284unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.5974.70.86At3g06970819882RNA binding / nucleic acid binding / nucleotide bindingF:RNA binding, nucleotide binding, nucleic acid binding;P:biological_process unknown;C:cellular_component unknown;MPOFBVO.I.H.G.S.X.
0.5974.70.86At2g36610818233ATHB22 (ARABIDOPSIS THALIANA HOMEOBOX PROTEIN 22)Encodes a homeodomain leucine zipper class I (HD-Zip I) protein.O.I.H.G.S.X.
0.5974.70.89At4g22500--O.I.H.G.S.X.
0.5873.80.92At1g09410837463pentatricopeptide (PPR) repeat-containing proteinF:unknown;P:biological_process unknown;C:unknown;POMFBO.I.H.G.S.X.
0.5873.80.89At2g30430817594unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.5873.80.84At2g17960816306unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.5873.80.85At2g181153767908-F:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.5873.80.87At1g61270842421lysine and histidine specific transporter, putativeF:amino acid transmembrane transporter activity;P:amino acid transport;C:membrane;MPOFBAVO.I.H.G.S.X.
0.5873.80.86At2g20616816587unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;PO.I.H.G.S.X.
0.5773.80.88At5g401303771383-F:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.5773.80.85At5g38400833827unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;OPO.I.H.G.S.X.

Link to AtGenExpress Visualization Tool



Specific experiments for the module

Std2 GX %ile GSM ID Assay name GSE ID Experiment title Link to GEO
62.099.8GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
61.999.8GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
61.099.8GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
58.099.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
54.699.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
50.899.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
50.799.8GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
50.099.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
49.099.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
48.799.8GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
48.399.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
48.299.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
45.099.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
44.599.8GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
43.999.8GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
42.699.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
40.199.8GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
39.899.8GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
39.299.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
39.099.8GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
37.899.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
35.299.7GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
33.899.7GSM131707ATGE_84_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
32.499.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
31.599.7GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
30.699.7GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
28.399.7GSM131708ATGE_84_DGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
27.799.7GSM131706ATGE_84_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
24.999.6GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
21.399.6GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
19.999.6GSM131703ATGE_83_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
18.999.5GSM131705ATGE_83_CGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
18.499.5GSM131704ATGE_83_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
15.899.5GSM131701ATGE_82_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
14.999.4GSM176876AWP_AL_Txed_1GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO
14.799.4GSM131702ATGE_82_CGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
14.599.4GSM131700ATGE_82_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
12.399.3GSM10454WT Post-Mature Green Seed 1GSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO
11.599.3GSM10456WT Post-Mature Green Seed 2GSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO
9.399.1GSM133117RIKEN-YAMAUCHI1AGSE5687AtGenExpress: Different temperature treatment of seedsLink to GEO
8.799.0GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
8.699.0GSM133303RIKEN-NAKABAYASHI1AGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0871GO:0048314The process by which the anatomical structures of the embryo sac are generated and organized. Morphogenesis pertains to the creation of form. The embryo sac develops from the megaspore in heterosporous plants.Link to AmiGO
0.0871GO:0048446The process by which the anatomical structures of the petal are generated and organized. Morphogenesis pertains to the creation of form.Link to AmiGO
0.0871GO:0048482The process by which the anatomical structures of the ovule are generated and organized. Morphogenesis pertains to the creation of form. The ovule is the structure in seed plants enclosing the female gametophyte, and is composed of the nucellus, one or two integuments, and the funiculus; it develops into the seed.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG

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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