CoP: Co-expressed Biological Processes

Gene omics information

Query gene ID At3g22840

Gene name ELIP1 (EARLY LIGHT-INDUCABLE PROTEIN)

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 At3g22840 821855 ELIP1 (EARLY LIGHT-INDUCABLE PROTEIN) Encodes an early light-inducible protein. S.X. H.G.
0.67 81.6 At3g51240 824287 F3H (FLAVANONE 3-HYDROXYLASE) Encodes flavanone 3-hydroxylase that is coordinately expressed with chalcone synthase and chalcone isomerases. Regulates flavonoid biosynthesis. S.X. H.G.
0.67 81.6 At4g14690 827119 ELIP2 (EARLY LIGHT-INDUCIBLE PROTEIN 2) Encodes an early light-induced protein. ELIPs are thought not to be directly involved in the synthesis and assembly of specific photosynthetic complexes, but rather affect the biogenesis of all chlorophyll-binding complexes. A study (PMID 17553115) has shown that the chlorophyll synthesis pathway was downregulated as a result of constitutive ELIP2 expression, leading to decreased chlorophyll availability for the assembly of pigment-binding proteins for photosynthesis. S.X. H.G.
0.61 76.7 At1g06000 837109 UDP-glucoronosyl/UDP-glucosyl transferase family protein encodes a flavonol-7-O-rhamnosyltransferase involved in the formation of rhamnosylated flavonols S.X. H.G.
0.59 74.7 At5g08640 830765 FLS (FLAVONOL SYNTHASE) Encodes a flavonol synthase that catalyzes formation of flavonols from dihydroflavonols. S.X. H.G.
0.57 73.8 At5g13930 831241 TT4 (TRANSPARENT TESTA 4) Encodes chalcone synthase (CHS), a key enzyme involved in the biosynthesis of flavonoids. Required for the accumulation of purple anthocyanins in leaves and stems. Also involved in the regulation of auxin transport and the modulation of root gravitropism. S.X. H.G.
0.53 68.6 At1g65060 842814 4CL3 encodes an isoform of 4-coumarate:CoA ligase (4CL), which is involved in the last step of the general phenylpropanoid pathway. mRNA levels are not induced in response to wounding or to fungal infection by P. parasitica. mRNA is expressed in flowers, to a lesser degree in mature leaves and siliques and marginally in seedling roots and bolting stems of mature plants. The catalytic efficiency was in the following (descending) order: p-coumaric acid, caffeic acid, ferulic acid, cinnamic acid and 5-OH-ferulic acid. At4CL3 was unable to use sinapic acid as substrate. S.X. H.G.
0.52 67.4 At3g55120 824678 TT5 (TRANSPARENT TESTA 5) Catalyzes the conversion of chalcones into flavanones. Required for the accumulation of purple anthocyanins in leaves and stems. S.X. H.G.
0.40 50.8 At5g17050 831568 UGT78D2 (UDP-GLUCOSYL TRANSFERASE 78D2) The At5g17050 encodes a anthocyanidin 3-O-glucosyltransferase which specifically glucosylates the 3-position of the flavonoid C-ring. Anthocyanidins such as cyanidin and pelargonidin as well as flavonols such as kaempferol and quercetin are accepted substrates. S.X. H.G.
0.23 19.3 At3g21560 821710 UGT84A2 Encodes a protein with sinapic acid:UDP-glucose glucosyltransferase activity. Mutants defective in this gene are hyper-fluorescent (which accumulate in their trichomes a compound that is likely to be 3',5'-dimethoxynaringenin chalcone or sinapoyltriacetic acid lactone, potential products of the concerted action of 4-coumarate CoA ligase and chalcone synthase on sinapic acid). 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
66.9 99.8 GSM339546 Environmental regulation of leaf colour in red 35S:PAP1 Arabidopsis -8 GSE13469 Environmental regulation of leaf colour in red 35S:PAP1 Arabidopsis
62.1 99.8 GSM339545 Environmental regulation of leaf colour in red 35S:PAP1 Arabidopsis -7 GSE13469 Environmental regulation of leaf colour in red 35S:PAP1 Arabidopsis
59.4 99.8 E-TABM-52-raw-cel-1583683022
55.8 99.8 E-TABM-52-raw-cel-1583682926
46.0 99.8 E-TABM-52-raw-cel-1583683438
43.7 99.8 E-MEXP-449-raw-cel-676423218
39.7 99.8 E-TABM-52-raw-cel-1583683326
38.8 99.8 E-MEXP-1112-raw-cel-1590665637
38.5 99.8 E-TABM-52-raw-cel-1583683182
38.1 99.8 E-MEXP-1112-raw-cel-1590665585
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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
0.55 1e-37 157 At4g14690 827119 ELIP2 (EARLY LIGHT-INDUCIBLE PROTEIN 2) Encodes an early light-induced protein. ELIPs are thought not to be directly involved in the synthesis and assembly of specific photosynthetic complexes, but rather affect the biogenesis of all chlorophyll-binding complexes. A study (PMID 17553115) has shown that the chlorophyll synthesis pathway was downregulated as a result of constitutive ELIP2 expression, leading to decreased chlorophyll availability for the assembly of pigment-binding proteins for photosynthesis. C.G. S.X.
0.01 7e-2 38 At5g56890 835791 protein kinase family protein F:protein serine/threonine kinase activity, protein tyrosine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:plasma membrane;MPOFBVA C.G. S.X.
0.02 7e-2 38 At1g01650 839499 aspartic-type endopeptidase/ peptidase F:peptidase activity, aspartic-type endopeptidase activity;P:proteolysis;C:endomembrane system, integral to membrane;MOPBF C.G. S.X.
0.03 3e-1 36 At5g13090 831148 unknown protein F:molecular_function unknown;P:biological_process unknown;C:unknown;PFOM C.G. S.X.
0.04 3e-1 36 At1g61795 5007827 - F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P C.G. S.X.
0.01 3e-1 36 At1g62440 842542 LRX2 (LEUCINE-RICH REPEAT/EXTENSIN 2) encodes a paralog of LRX1 (LEUCINE-RICH REPEAT/EXTENSIN 1) which acts synergistically with LRX1 in root hair cell morphogenesis. 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
0.03 2e+0 34 Glycine max GmaAffx.90559.1.S1_x_at CF806284 - - 2e-23 At3g48890 ATMP2 C.G. S.X.
0.05 1e-1 36 Hordeum vulgare Contig3426_at Contig3426 - - 9e-5 At4g14690 ELIP2 (EARLY LIGHT-INDUCIBLE PROTEIN 2) C.G. S.X.
0.04 2e-3 44 Oryza sativa Os07g0178700 9635.m00764 - Early light-inducible protein 1e-4 At4g14690 ELIP2 (EARLY LIGHT-INDUCIBLE PROTEIN 2) C.G. S.X.
0.04 4e-1 36 Populus trichocarpa PtpAffx.205250.1.S1_x_at pmrna10405 hypothetical protein - 2e-1 At3g22840 ELIP1 (EARLY LIGHT-INDUCABLE PROTEIN) C.G. S.X.
0.10 8e-5 48 Triticum aestivum Ta.20594.1.S1_at CA486033 - - 1e-6 At4g14690 ELIP2 (EARLY LIGHT-INDUCIBLE PROTEIN 2) C.G. S.X.
0.04 1e+0 32 Vitis vinifera 1611444_at CF211599 - - 2e-1 At2g40310 glycoside hydrolase family 28 protein / polygalacturonase (pectinase) family protein C.G. S.X.
0.03 2e+0 32 Zea mays Zm.3841.1.A1_at AW057015 SKP1-like protein 1A - 3e-3 At1g75950 SKP1 (S PHASE KINASE-ASSOCIATED PROTEIN 1) 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: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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