Gene omics information

Query gene ID At3g21230
Gene name 4CL5 (4-coumarate:CoA ligase 5)
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%ileGene/Probe IDRepr.IDGene NameFunctional DescriptionS.X.H.G.Other DB
0.2115.8At3g212308216774CL5 (4-coumarate:CoA ligase 5)The gene encodes a 4-coumarate coenzyme A ligase being able to use sinapate as substrate. The catalytic efficiency was in the following (descending) order: p-coumaric acid, caffeic acid, 5-OH-ferulic acid, ferulic acid and sinapic acid. At4CL5 was unable to use cinnamic acid as substrate. Knockout of At4CL5 (4cl5) revealed no effect on syringyl lignin content indicating that the activity observed does probably not occur in vivo.S.X.H.G.
0.5065.3At2g34930818058disease resistance family proteinF:protein binding;P:signal transduction, defense response to fungus, defense response;C:cell wall;PMOBFAVS.X.H.G.
0.4659.8At2g27690817315CYP94C1Encodes a CYP94C1. Has highest omega-hydroxylase activity with 9,10-epoxystearic acid, while also metabolized lauric acid (C12:0) and C18 unsaturated fatty acids. Gene expression is induced in response to wounding and jasmonic acid treatment.S.X.H.G.
0.3643.6At2g38240818403oxidoreductase, 2OG-Fe(II) oxygenase family proteinF:oxidoreductase activity;P:response to salt stress;C:unknown;POBFMS.X.H.G.
0.3643.6At5g53750835456-F:molecular_function unknown;P:response to wounding;C:cellular_component unknown;PS.X.H.G.
0.3032.1At1g17420838314LOX3LipoxygenaseS.X.H.G.
0.2319.3At4g23200828419protein kinase family proteinF:protein serine/threonine kinase activity, protein tyrosine kinase activity, protein kinase activity, ATP binding;P:protein amino acid phosphorylation;C:vacuole;MPOBFVAS.X.H.G.
0.146.8At1g02400839508GA2OX6 (GIBBERELLIN 2-OXIDASE 6)Encodes a gibberellin 2-oxidase.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%ileGSM IDAssay NameGSE IDExperiment Title
217.6100.0E-MEXP-546-raw-cel-863289424
172.4100.0E-MEXP-546-raw-cel-863289532
150.699.9E-MEXP-546-raw-cel-863289476
143.099.9GSM131134AtGen_B-20_2-6-1_REP2_ATH1GSE5615AtGenExpress: Response to bacterial-(LPS, HrpZ, Flg22) and oomycete-(NPP1) derived elicitors
131.899.9GSM142839MG001_ATH1_A18-Torres-6N6GSE6176Impact of Type III effectors on plant defense responses
131.799.9GSM142837MG001_ATH1_A16-Torres-6N1GSE6176Impact of Type III effectors on plant defense responses
128.599.9GSM142838MG001_ATH1_A17-Torres-6N3GSE6176Impact of Type III effectors on plant defense responses
117.999.9GSM131148AtGen_B-34_3-6-1_REP3_ATH1GSE5615AtGenExpress: Response to bacterial-(LPS, HrpZ, Flg22) and oomycete-(NPP1) derived elicitors
111.699.9GSM131146AtGen_B-32_3-4-1_REP3_ATH1GSE5615AtGenExpress: Response to bacterial-(LPS, HrpZ, Flg22) and oomycete-(NPP1) derived elicitors
100.699.9GSM131132AtGen_B-18_2-4-1_REP2_ATH1GSE5615AtGenExpress: Response to bacterial-(LPS, HrpZ, Flg22) and oomycete-(NPP1) derived elicitors
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Homologous genes



Paralogous genes



Click Gene ID to show a list of homologous genes.

HFEvBSGene IDRepr. IDGene NameFunctional descriptionC.G.S.X.Other DB
0.142e-1377At1g650608428144CL3encodes 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.C.G.S.X.
0.172e-757At1g516808415934CL1 (4-COUMARATE:COA LIGASE 1)encodes an isoform of 4-coumarate:CoA ligase (4CL), which is involved in the last step of the general phenylpropanoid pathway. In addition to 4-coumarate, it also converts ferulate. The catalytic efficiency was in the following (descending) order: p-coumaric acid, ferulic acid, caffeic acid and 5-OH-ferulic acid. At4CL1 was unable to use sinapic acid as substrate.C.G.S.X.
0.174e-654At3g212408216784CL2 (4-COUMARATE:COA LIGASE 2)encodes an isoform of 4-coumarate:CoA ligase (4CL), which is involved in the last step of the general phenylpropanoid pathway. The catalytic efficiency was in the following (descending) order: p-coumaric acid, caffeic acid, ferulic acid, 5-OH-ferulic acid and cinnamic acid. At4CL2 was unable to use sinapic acid as substrate.C.G.S.X.
0.034e-654At1g20510838639OPCL1 (OPC-8:0 COA LIGASE1)F:4-coumarate-CoA ligase activity;P:phenylpropanoid metabolic process, jasmonic acid biosynthetic process, response to wounding;C:peroxisome;BOFMPAVC.G.S.X.
0.033e-344At4g051608258644-coumarate--CoA ligase, putative / 4-coumaroyl-CoA synthase, putativeEncodes a peroxisomal protein involved in the activation of fatty acids through esterification with CoA. At4g05160 preferentially activates fatty acids with medium chain length (C6:0 and C7:0) as well as even-numbered long-chain fatty acids (C14:0, C16:0 and C18:0). At4g05160 was also able to catalyze the conversion of OPC-6:0 to its CoA ester and is therefore thought to be involved in the peroxisomal β-oxidation steps of jasmonic acid biosynthesis.C.G.S.X.
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Orthologous genes



Click Gene ID to show a list of orthologous genes.

HFEvBSSpeciesGene IDRepr. IDGene NameFunctional descriptionEvAGI codeArabidopsis gene nameC.G.S.X.Other DB
0.102e-861Glycine maxGma.4928.1.S1_a_atAF002259.14-coumarate:CoA ligase isoenzyme 2-4e-9At1g516804CL1 (4-COUMARATE:COA LIGASE 1)C.G.S.X.
0.041e-448Hordeum vulgareContig16738_atContig16738--2e-3At1g20510OPCL1 (OPC-8:0 COA LIGASE1)C.G.S.X.
0.023e-242Oryza sativaOs02g0177600AK070083.1-4-coumarate--CoA ligase 1 (EC 6.2.1.12) (4CL 1)(4-coumaroyl-CoA synthase 1)3e-7At3g212404CL2 (4-COUMARATE:COA LIGASE 2)C.G.S.X.
0.105e-963Populus trichocarpaPtp.3043.1.S1_s_atAF041049.14-Coumarate:CoA ligase-3e-13At1g516804CL1 (4-COUMARATE:COA LIGASE 1)C.G.S.X.
0.051e-242Triticum aestivumTaAffx.8533.2.S1_atCA627108--4e-3At3g212304CL5 (4-coumarate:CoA ligase 5)C.G.S.X.
0.097e-1477Vitis vinifera1609307_atCD715818hypothetical protein LOC100254698-3e-16At3g212404CL2 (4-COUMARATE:COA LIGASE 2)C.G.S.X.
0.082e-344Zea maysZm.1390.1.A1_atAY106966.1--3e-3At3g212304CL5 (4-coumarate:CoA ligase 5)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.

ECCGO IDProcess Name
XGO:0009699The chemical reactions and pathways resulting in the formation of aromatic derivatives of trans-cinnamic acid.
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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 IDLink to Kappa-ViewPathway Name
00061Link to KaPPA-View 4Flavonoids biosynthesis
00064Link to KaPPA-View 4The cinnamate-monolignol pathway/sinapoyl ester biosynthesis
00420Link to KaPPA-View 4Ubiquinone biosynthesis



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

KEGG PATHWAY IDLink to KEGG PATHWAYPathway Name
00130Link to KEGG PATHWAYUbiquinone and other terpenoid-quinone biosynthesis
00940Link to KEGG PATHWAYPhenylpropanoid biosynthesis
01061Link to KEGG PATHWAYBiosynthesis of phenylpropanoids
01063Link to KEGG PATHWAYBiosynthesis of alkaloids derived from shikimate pathway
01100Link to KEGG PATHWAYMetabolic pathways
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