Co-expression analysis

Gene ID At5g01190
Gene name LAC10 (laccase 10)
Module size 26 genes
NF 0.84
%ile 95.9

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
0.8190.41.00At5g01190831697LAC10 (laccase 10)putative laccase, a member of laccase family of genes (17 members in Arabidopsis).O.I.H.G.S.X.
0.9496.70.73At3g50220824184unknown proteinF:unknown;P:biological_process unknown;C:cellular_component unknown;POBO.I.H.G.S.X.
0.9496.70.79At5g15630831417IRX6Encodes a member of the COBRA family, similar to phytochelatin synthetase. Involved in secondary cell wall biosynthesis. Mutants make smaller plants with reduced levels of cellulose and cell wall sugars.O.I.H.G.S.X.
0.9396.40.75At1g27380839627RIC2 (ROP-INTERACTIVE CRIB MOTIF-CONTAINING PROTEIN 2)encodes a member of a novel protein family that contains contain a CRIB (for Cdc42/Rac-interactive binding) motif required for their specific interaction with GTP-bound Rop1 (plant-specific Rho GTPase). Interacts with Rop1 and is involved in pollen tube growth and function. Protein most similar to RIC4 (family subgroup V). Gene is expressed in all tissues examined.O.I.H.G.S.X.
0.9396.40.78At2g41610818759unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.9396.40.77At5g17420831608IRX3 (IRREGULAR XYLEM 3)Encodes a xylem-specific cellulose synthase that is phosphorylated on one or more serine residues (on either S185 or one of S180 or S181).O.I.H.G.S.X.
0.9195.60.70At2g29130817462LAC2 (laccase 2)putative laccase, knockout mutant had reduced root elongation under PEG-induced dehydrationO.I.H.G.S.X.
0.9195.60.76At5g67210836856unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POBO.I.H.G.S.X.
0.9195.60.74At3g16920820947chitinaseF:chitinase activity;P:cell wall macromolecule catabolic process;C:unknown;PBMOFO.I.H.G.S.X.
0.9095.10.69At4g28500828968ANAC073 (ARABIDOPSIS NAC DOMAIN CONTAINING PROTEIN 73)F:transcription factor activity, transcription activator activity;P:multicellular organismal development, regulation of secondary cell wall thickening;C:nucleus;POO.I.H.G.S.X.
0.8994.60.74At4g27435828852unknown proteinF:molecular_function unknown;P:biological_process unknown;C:endomembrane system;PO.I.H.G.S.X.
0.8994.60.82At1g09610837488unknown proteinF:molecular_function unknown;P:biological_process unknown;C:endomembrane system;POBO.I.H.G.S.X.
0.8693.10.80At5g05390830421LAC12 (laccase 12)putative laccase, a member of laccase family of genes (17 members in Arabidopsis).O.I.H.G.S.X.
0.8693.10.61At1g22480838854plastocyanin-like domain-containing proteinF:electron carrier activity, copper ion binding;P:unknown;C:anchored to membrane;PFOO.I.H.G.S.X.
0.8693.10.72At3g15050820734IQD10 (IQ-domain 10)F:calmodulin binding;P:biological_process unknown;C:chloroplast;PO.I.H.G.S.X.
0.8693.10.75At5g60490836170FLA12F:unknown;P:unknown;C:plasma membrane, anchored to membrane;PBOMAFO.I.H.G.S.X.
0.8491.90.74At3g18660821397PGSIP1 (PLANT GLYCOGENIN-LIKE STARCH INITIATION PROTEIN 1)Plants expressing an RNAi construct specifically targeting PGSIP1 was shown to have a dramatically reduced amount of starch.O.I.H.G.S.X.
0.8391.40.80At5g54690835558GAUT12 (GALACTURONOSYLTRANSFERASE 12)Encodes a protein with putative galacturonosyltransferase activity. Mutants defective in this gene displayed a notable reduction in xylose (>50%) in the cell walls from stems and roots and a reduction in cellulose (~25%).O.I.H.G.S.X.
0.8190.40.62At1g32770840171ANAC012 (ARABIDOPSIS NAC DOMAIN CONTAINING PROTEIN 12)Encodes SND1, a NAC Domain transcription factor involved in secondary wall biosynthesis in fibers. Expressed specifically in interfascicular fibers and xylary fibers in stems. Expressed in the procambium of stem inflorescences and root. May act as a negative regulator of secondary wall thickening in xylary fibers. Acts redundantly with NST1 to control development of secondary walls in siliques.O.I.H.G.S.X.
0.8190.40.76At2g31930817751unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.7888.60.75At2g38080818386IRX12 (IRREGULAR XYLEM 12)Encodes a protein with similarity to putative laccase, a member of laccase family (17 members in Arabidopsis). Might be involved in cell wall biosynthesis. Mutants have a mild irregular xylem phenotype.O.I.H.G.S.X.
0.7184.20.80At1g27440839635GUT2F:glucuronoxylan glucuronosyltransferase activity, catalytic activity;P:secondary cell wall biogenesis, glucuronoxylan biosynthetic process;C:endomembrane system, membrane;PMOBFO.I.H.G.S.X.
0.7184.20.75At4g18780827612IRX1 (IRREGULAR XYLEM 1)Encodes a member of the cellulose synthase family involved in secondary cell wall biosynthesis. Mutants have abnormal xylem formation, reduced cellulose content, and enhanced drought and osmotic stress tolerance. Mediates resistance towards bacterial pathogens via ABA. Confers resistance towards bacterial and fungal pathogens, independent of salicylic acid, ethylene and jasmonate signaling.O.I.H.G.S.X.
0.6579.60.71At1g08340837354rac GTPase activating protein, putativeF:Rac GTPase activator activity;P:signal transduction;C:intracellular;MOFPVBAO.I.H.G.S.X.
0.6478.90.71At3g62020825375GLP10 (GERMIN-LIKE PROTEIN 10)germin-like protein (GLP10)O.I.H.G.S.X.
0.6378.10.78At2g37090818285IRX9 (IRREGULAR XYLEM 9)The IRX9 gene encodes a putative family 43 glycosyl transferase. It was coordinately expressed with the cellulose synthase subunits during secondary cell wall formation. Cell wall analysis revealed a decrease in the abundance of xylan in the irx9 mutant, indicating that IRX9 is required for xylan synthesis. Mutants have irregular xylem phenotype suggesting a role in secondary cell wall biosynthesis.O.I.H.G.S.X.

Click More genes

Link to AtGenExpress Visualization Tool

Specific experiments for the module

Std2 GX %ile GSM ID Assay name GSE ID Experiment title Link to GEO
54.099.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
50.499.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
49.499.8GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
48.599.8GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
46.799.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
45.599.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
44.999.8GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
43.799.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
43.099.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
41.699.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
40.299.8GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
39.599.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
39.399.8GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
38.699.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
38.299.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
35.999.7GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
31.699.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
30.499.7GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
28.199.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
27.999.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
21.799.6GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
19.499.6GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
17.499.5GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
12.599.3GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
11.699.3GSM176876AWP_AL_Txed_1GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO
10.999.2GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
10.599.2GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
10.299.2GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
9.099.1GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.3187GO:0009834The chemical reactions and pathways resulting in the formation of inextensible cellulose and pectin-containing cell walls that are formed between the plasma membrane and primary cell wall after cell expansion is complete. An example of this is found in Arabidopsis thaliana.Link to AmiGO
0.1763GO:0010417The chemical reactions and pathways resulting in the formation of glucuronoxylan, a polymer containing a beta-1,4-linked D-xylose backbone substituted with glucuronic acid residues.Link to AmiGO
0.1432GO:0010413The chemical reactions and pathways involving xylan, a polymer containing a beta-(1->4)-linked D-xylose backbone decorated with glucuronic acid side units.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.

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