CoP: Co-expressed Biological Processes

Gene omics information

Query gene ID At4g39870

Gene name -

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
0.54 69.5 At4g39870 830146 - F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOFPBV S.X. H.G.
0.77 88.0 At3g62660 825440 GATL7 (Galacturonosyltransferase-like 7) Encodes a protein with putative galacturonosyltransferase activity. S.X. H.G.
0.74 86.1 At1g06700 837180 serine/threonine protein kinase, putative F:protein tyrosine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:plasma membrane;MPOBFVA S.X. H.G.
0.73 85.5 At4g20380 827786 zinc finger protein (LSD1) LSD1 monitors a superoxide-dependent signal and negatively regulates a plant cell death pathway. contains zinc-finger motifs. LSD1 negatively regulates a basal defense pathway that can act upstream or independently of both NIM1/NPR1 function and SA accumulation following avirulent or virulent pathogen challenge S.X. H.G.
0.73 85.5 At5g47620 834812 heterogeneous nuclear ribonucleoprotein, putative / hnRNP, putative F:RNA binding, nucleotide binding, nucleic acid binding;P:biological_process unknown;C:cellular_component unknown;MPOFBA S.X. H.G.
0.73 85.5 At3g57480 824915 zinc finger (C2H2 type, AN1-like) family protein F:zinc ion binding, nucleic acid binding;P:biological_process unknown;C:intracellular;MFOP S.X. H.G.
0.72 84.8 At1g05960 837106 binding F:binding;P:biological_process unknown;C:plasma membrane;MFPBO S.X. H.G.
0.71 84.2 At1g10660 837609 unknown protein F:unknown;P:unknown;C:endomembrane system;PMF S.X. H.G.
0.70 83.5 At3g12620 820442 protein phosphatase 2C family protein / PP2C family protein F:protein serine/threonine phosphatase activity, catalytic activity;P:protein amino acid dephosphorylation;C:protein serine/threonine phosphatase complex;PMOFBV S.X. H.G.
0.70 83.5 At5g16480 831509 tyrosine specific protein phosphatase family protein F:phosphatase activity, protein tyrosine phosphatase activity, phosphoprotein phosphatase activity;P:dephosphorylation;C:cellular_component unknown;FOPBM 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
165.7 100.0 E-MEXP-285-raw-cel-440782725
149.6 99.9 E-MEXP-285-raw-cel-440782791
98.5 99.9 GSM239251 Columbia glabrous (C24) wild type pollen GSE9408 Identification of putative Arabidopsis DEMETER target genes by GeneChip Analysis
93.2 99.9 GSM131638 ATGE_73_C GSE5632 AtGenExpress: Developmental series (flowers and pollen)
90.7 99.9 GSM131637 ATGE_73_B GSE5632 AtGenExpress: Developmental series (flowers and pollen)
82.9 99.9 GSM131636 ATGE_73_A GSE5632 AtGenExpress: Developmental series (flowers and pollen)
78.6 99.9 GSM239253 CaMV::DME pollen GSE9408 Identification of putative Arabidopsis DEMETER target genes by GeneChip Analysis
72.9 99.9 E-MEXP-1138-raw-cel-1432772906
64.7 99.8 GSM142740 DH001_ATH1_A7-MPG1 GSE6162 Transcriptome analysis of Arabidopsis microgametogenesis
61.1 99.8 E-MEXP-1138-raw-cel-1432772714
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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
0.01 4e-2 40 At3g07900 819981 unknown protein F:molecular_function unknown;P:biological_process unknown;C:chloroplast;P C.G. S.X.
0.03 4e-2 40 At2g27250 817267 CLV3 (CLAVATA3) One of the three CLAVATA genes controlling the size of the shoot apical meristem (SAM) in Arabidopsis. Belongs to a large gene family called CLE for CLAVATA3/ESR-related. Encodes a stem cell-specific protein CLV3 presumed to be a precursor of a secreted peptide hormone. The deduced ORF encodes a 96-amino acid protein with an 18-amino acid N-terminal signal peptide. The functional form of CLV3 (MCLV3) is a posttranscriptionally modified 12-amino acid peptide, in which two of the three prolines were modified to hydroxyproline. CLV3 binds the ectodomain of the CLAVATA1 (CLV1) receptor-kinase. Regulates shoot and floral meristem development. Required for CLAVATA1 receptor-like kinase assembly into a signaling complex that includes KAPP and a Rho-related protein. It restricts its own domain of expression, the central zone (CZ) of the shoot apical meristem (SAM), by preventing differentiation of peripheral zone cells, which surround the CZ, into CZ cells and restricts overall SAM size by a separate, long-range effect on cell division rate. CLE domain of CLV3 is sufficient for function. C.G. S.X.
0.01 6e-1 36 At4g08180 826368 ORP1C (OSBP(OXYSTEROL BINDING PROTEIN)-RELATED PROTEIN 1C) F:phosphoinositide binding, oxysterol binding;P:steroid metabolic process, signal transduction;C:cellular_component unknown;MFOPB C.G. S.X.
0.01 6e-1 36 At3g57880 824957 C2 domain-containing protein F:molecular_function unknown;P:tryptophan biosynthetic process;C:endoplasmic reticulum, cell wall;MPOF C.G. S.X.
0.01 6e-1 36 At2g03240 814853 - F:unknown;P:unknown;C:integral to membrane;MFPO C.G. S.X.
0.01 2e+0 34 At5g53480 835429 importin beta-2, putative F:protein transporter activity, binding;P:intracellular protein transport, protein import into nucleus, docking;C:nucleus, chloroplast, nuclear pore, cytoplasm;MFOP C.G. S.X.
0.01 2e+0 34 At5g57050 835809 ABI2 (ABA INSENSITIVE 2) Encodes a protein phosphatase 2C and is involved in ABA signal transduction. Binds fibrillin preprotein in vitro and in vivo. 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 5e-2 40 Glycine max Gma.12040.1.S1_a_at CA783276 - - 2e-2 At4g39870 - C.G. S.X.
0.05 5e-3 42 Hordeum vulgare Contig17097_at Contig17097 - - 8e-3 At4g39870 - C.G. S.X.
0.02 1e+0 36 Oryza sativa OsAffx.25272.1.S1_at - - - 0 C.G. S.X.
0.13 4e-9 63 Populus trichocarpa PtpAffx.63654.1.S1_at CV232034 hypothetical protein - 3e-9 At4g39870 - C.G. S.X.
0.03 6e-4 46 Triticum aestivum Ta.6324.1.S1_at CA681095 - - 8e-4 At4g39870 - C.G. S.X.
0.04 5e-5 48 Vitis vinifera 1609316_at BQ795046 hypothetical protein LOC100244322 - 1e-4 At4g39870 - C.G. S.X.
0.06 2e-2 40 Zea mays Zm.2673.1.S1_at CA401457 TLD family protein - 5e-2 At4g39870 - 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
N GO:0008150 Any process specifically pertinent to the functioning of integrated living units: cells, tissues, organs, and organisms. A process is a collection of molecular events with a defined beginning and end.
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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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