CoP: Co-expressed Biological Processes

Gene omics information

Query gene ID At2g01500

Gene name PFS2 (PRETTY FEW SEEDS 2)

Organism Arabidopsis thaliana

Co-expressed genes

As this page just shows up to 10 genes to the query, if you wish to have the complete list of co-expressed genes, click Gene/Probe ID.

VF %ile Gene/Probe ID Repr.ID Gene Name Functional Description S.X. H.G. Other DB
1.00 100.0 At2g01500 814678 PFS2 (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. S.X. H.G.
0.88 94.0 At2g33160 817877 glycoside hydrolase family 28 protein / polygalacturonase (pectinase) family protein F:polygalacturonase activity, nucleic acid binding;P:carbohydrate metabolic process;C:endomembrane system;PFBOMA S.X. H.G.
0.86 93.1 At2g40440 818638 BTB/POZ domain-containing protein F:protein binding;P:biological_process unknown;C:cellular_component unknown;PMO S.X. H.G.
0.85 92.4 At3g28280 822454 - F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P S.X. H.G.
0.81 90.4 At1g52430 841674 ubiquitin carboxyl-terminal hydrolase-related F:ubiquitin thiolesterase activity;P:ubiquitin-dependent protein catabolic process;C:cellular_component unknown;POBMF S.X. H.G.
0.79 89.1 At1g29730 839851 ATP binding / kinase/ protein binding / protein kinase/ protein serine/threonine kinase/ protein tyrosine kinase F:in 6 functions;P:protein amino acid phosphorylation;C:endomembrane system;PMOBFVA S.X. H.G.
0.79 89.1 At4g25510 828655 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P S.X. H.G.
0.78 88.6 At4g02970 828121 AT7SL-1 (Arabidopsis 7SL RNA 1) Signal recognition particle. Type 4 of RNA polymerase III dependent genes. S.X. H.G.
0.77 88.0 At5g44330 834458 male sterility MS5 family protein F:binding;P:biological_process unknown;C:unknown;POBA S.X. H.G.
0.75 86.9 At1g33820 840277 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOBP S.X. H.G.
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Specifically expressed experiments

As this page just shows up to 10 assays to the query, if you wish to have the complete list of assays that the query gene/probe was specifically expressed, click here.
Std2 GX %ile GSM ID Assay Name GSE ID Experiment Title
407.2 100.0 GSM143302 Ts_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
383.7 100.0 GSM253648 Col-0-1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
378.3 100.0 GSM143300 Ts_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
308.2 100.0 GSM253645 High_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
301.3 100.0 GSM143299 High_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
291.8 100.0 GSM143301 Ts_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
291.4 100.0 GSM143310 Tsu_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
290.7 100.0 GSM253646 Low_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
282.5 100.0 GSM253651 Ler 1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
265.2 100.0 GSM143298 Low_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
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Homologous genes

Paralogous genes

Click Gene ID to show a list of homologous genes.

HF Ev BS Gene ID Repr. ID Gene Name Functional description C.G. S.X. Other DB
0.06 7e-12 71 At3g11260 820297 WOX5 (WUSCHEL RELATED HOMEOBOX 5) Arabidopsis thaliana WOX5 protein mRNA C.G. S.X.
0.07 7e-6 52 At5g05770 830462 WOX7 (WUSCHEL-RELATED HOMEOBOX 7) Encodes a WUSCHEL-related homeobox gene family member with 65 amino acids in its homeodomain. Proteins in this family contain a sequence of eight residues (TLPLFPMH) downstream of the homeodomain called the WUS box. C.G. S.X.
0.07 1e-4 48 At2g28610 817410 PRS (PRESSED FLOWER) Encodes a homeodomain containing protein that regulates lateral axis-dependent development of Arabidopsis flowers and is required for cell proliferation. It is expressed in a restricted number of L1 cells at the lateral regions of flower primordia, floral organ primordia, and young leaf primordia. C.G. S.X.
0.03 7e-3 42 At2g47560 819369 zinc finger (C3HC4-type RING finger) family protein F:protein binding, zinc ion binding;P:unknown;C:unknown;PMOFV C.G. S.X.
0.05 7e-3 42 At1g46480 841113 WOX4 (WUSCHEL RELATED HOMEOBOX 4) Encodes a WUSCHEL-related homeobox gene family member with 65 amino acids in its homeodomain. Proteins in this family contain a sequence of eight residues (TLPLFPMH) downstream of the homeodomain called the WUS box. This protein also contains an acidic domain approximately 10 residues upstream of the WUS box. C.G. S.X.
0.02 3e-2 40 At5g35940 833584 jacalin lectin family protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POBM C.G. S.X.
0.05 1e-1 38 At5g59340 836053 WOX2 (WUSCHEL RELATED HOMEOBOX 2) Encodes a WUSCHEL-related homeobox gene family member with 65 amino acids in its homeodomain. Proteins in this family contain a sequence of eight residues (TLPLFPMH) downstream of the homeodomain called the WUS box. WOX2 has a putative Zinc finger domain downstream of the homeodomain. Transcripts are expressed in the egg cell, the zygote and the apical cell lineage and are reduced in met3-1 early embryos. This gene is necessary for cell divisions that form the apical embryo domain. C.G. S.X.
0.02 1e-1 38 At5g40870 834088 AtUK/UPRT1 (Uridine kinase/Uracil phosphoribosyltransferase 1) Encodes a protein that appears to possess both uridine kinase and uracil phosphoribosyltransferase activities. C.G. S.X.
0.02 1e-1 38 At4g09520 826536 catalytic/ metal ion binding / phosphoglycerate mutase F:phosphoglycerate mutase activity, catalytic activity, metal ion binding;P:metabolic process;C:cellular_component unknown;BAOP C.G. S.X.
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Orthologous genes

Click Gene ID to show a list of orthologous genes.

HF Ev BS Species Gene ID Repr. ID Gene Name Functional description Ev AGI code Arabidopsis gene name C.G. S.X. Other DB
0.07 2e-10 67 Glycine max GmaAffx.24671.1.S1_at CA783362 - - 7e-26 At5g05770 WOX7 (WUSCHEL-RELATED HOMEOBOX 7) C.G. S.X.
0.02 3e+0 32 Hordeum vulgare HT09L21r_at HT09L21r - - 5e-3 At3g42310 unknown protein C.G. S.X.
0.03 2e-1 38 Oryza sativa OsAffx.26640.1.S1_at - - - 0 C.G. S.X.
0.07 6e-1 36 Populus trichocarpa PtpAffx.208881.1.S1_at pmrna17616 hypothetical protein - 5e-1 At2g01500 PFS2 (PRETTY FEW SEEDS 2) C.G. S.X.
0.03 7e+0 32 Triticum aestivum TaAffx.78828.1.S1_x_at CA726689 - - 5e-3 At1g55600 WRKY10 (WRKY DNA-BINDING PROTEIN 10) C.G. S.X.
0.03 5e-1 34 Vitis vinifera 1606842_s_at CB914064 - - 1e+0 At4g21610 LOL2 (LSD ONE LIKE 2) C.G. S.X.
0.03 3e+0 32 Zea mays ZmAffx.466.1.A1_at AI677405 - - 8e-4 At1g52870 peroxisomal membrane protein-related C.G. S.X.
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Biological processes

Click GO ID to show a list of genes that are associated with the GO ID.

ECC GO ID Process Name
X GO:0048366 The process whose specific outcome is the progression of the leaf over time, from its formation to the mature structure.
X GO:0048437 The process whose specific outcome is the progression of the floral organ over time, from its formation to the mature structure.
X GO:0009965 The process by which the anatomical structures of the leaf are generated and organized. Morphogenesis pertains to the creation of form.
X GO:0016049 The process by which a cell irreversibly increases in size over time by accretion and biosynthetic production of matter similar to that already present.
X GO:0048314 The 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.
X GO:0048446 The process by which the anatomical structures of the petal are generated and organized. Morphogenesis pertains to the creation of form.
X GO:0051301 The process resulting in the physical partitioning and separation of a cell into daughter cells.
X GO:0048482 The 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.
N GO:0009409 A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a cold stimulus, a temperature stimulus below the optimal temperature for that organism.
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Metabolic pathways

Click KaPPA-View ID to show a list of genes that are assigned to the KaPPA-View ID.

KaPPA-View ID Link to Kappa-View Pathway Name

Click KEGG PATHWAY ID to show a list of genes that are assigned to the KEGG PATHWAY ID.

KEGG PATHWAY ID Link to KEGG PATHWAY Pathway Name
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