CoP: Co-expressed Biological Processes

Gene omics information

Query gene ID At2g37090

Gene name IRX9 (IRREGULAR XYLEM 9)

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
0.65 79.6 At2g37090 818285 IRX9 (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. S.X. H.G.
0.92 96.0 At2g38080 818386 IRX12 (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. S.X. H.G.
0.92 96.0 At5g44030 834426 CESA4 (CELLULOSE SYNTHASE A4) Encodes a cellulose synthase involved in secondary cell wall biosynthesis. Confers resistance towards bacterial and fungal pathogens, independent of salicylic acid, ethylene and jasmonate signaling. S.X. H.G.
0.92 96.0 At5g67210 836856 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POB S.X. H.G.
0.87 93.5 At4g27435 828852 unknown protein F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P S.X. H.G.
0.87 93.5 At4g28500 828968 ANAC073 (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;PO S.X. H.G.
0.86 93.1 At5g17420 831608 IRX3 (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). S.X. H.G.
0.85 92.4 At3g16920 820947 chitinase F:chitinase activity;P:cell wall macromolecule catabolic process;C:unknown;PBMOF S.X. H.G.
0.84 91.9 At3g18660 821397 PGSIP1 (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. S.X. H.G.
0.83 91.4 At2g41610 818759 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P 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
320.1 100.0 GSM133962 Fukuda_1-7_6A_Rep1_ATH1 GSE5748 In vitro tracheary element transdifferentiation of Col-0 suspension cells.
285.0 100.0 GSM184910 Arabidopsis, root cells, columella root cap, 140 mM NaCl, replicate 1 GSE7641 Expression analysis of root cell-types after treatment with salt
265.3 100.0 GSM133963 Fukuda_1-8_6B_Rep2_ATH1 GSE5748 In vitro tracheary element transdifferentiation of Col-0 suspension cells.
176.9 100.0 E-MEXP-265-raw-cel-414618693
176.6 100.0 E-MEXP-265-raw-cel-414618796
159.7 99.9 E-MEXP-265-raw-cel-414618585
139.1 99.9 E-MEXP-265-raw-cel-414618394
135.4 99.9 GSM184911 Arabidopsis, root cells, columella root cap, 140 mM NaCl, replicate 2 GSE7641 Expression analysis of root cell-types after treatment with salt
127.3 99.9 E-MEXP-265-raw-cel-414618491
122.1 99.9 E-MEXP-1451-raw-cel-1585200362
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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 5e-1 36 At4g00930 827980 CIP4.1 Encodes COP1-interacting protein CIP4.1. C.G. S.X.
0.01 5e-1 36 At2g47040 819318 VGD1 (VANGUARD1) Share high homologies with a group of pectin methylesterases (PME), pollen specific, and is required for enhancing the growth of pollen tube in style and transmitting tract tissues. C.G. S.X.
0.01 5e-1 36 At2g47030 819317 VGDH1 F:enzyme inhibitor activity, pectinesterase activity;P:cell wall modification;C:endomembrane system, cell wall, plant-type cell wall;PBFMO C.G. S.X.
0.01 2e+0 34 Atcg00340 - - Encodes the D1 subunit of photosystem I and II reaction centers. C.G. S.X.
0.01 2e+0 34 At5g39865 833983 glutaredoxin family protein F:electron carrier activity, protein disulfide oxidoreductase activity;P:N-terminal protein myristoylation, cell redox homeostasis;C:plasma membrane;POMBF C.G. S.X.
0.01 2e+0 34 At5g61460 836267 MIM (hypersensitive to MMS, irradiation and MMC) Encodes a protein closely related to the structural maintenance of chromosomes (SMC) family involved in structural changes in chromosomes. C.G. S.X.
0.01 2e+0 34 At5g11380 831009 DXPS3 (1-deoxy-D-xylulose 5-phosphate synthase 3) Encodes a protein postulated to have 1-deoxy-D-xylulose 5-phosphate synthase activity. 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
0.02 3e+0 34 Glycine max HgAffx.10938.1.S1_at CB935516 - - 5e+0 At5g50740 metal ion binding C.G. S.X.
0.03 1e+0 34 Hordeum vulgare HU11E10u_at HU11E10u - - 1e+0 At2g37090 IRX9 (IRREGULAR XYLEM 9) C.G. S.X.
0.02 1e+0 36 Oryza sativa Os.50952.1.S1_at - - - 0 C.G. S.X.
0.13 8e-7 56 Populus trichocarpa Ptp.5496.1.S1_at AY935504.1 glycosyl transferase - 8e-7 At2g37090 IRX9 (IRREGULAR XYLEM 9) C.G. S.X.
0.02 1e-1 38 Triticum aestivum Ta.12929.3.S1_at BJ273832 - - 7e-2 At2g37090 IRX9 (IRREGULAR XYLEM 9) C.G. S.X.
0.05 4e-2 38 Vitis vinifera 1607442_at CF403717 hypothetical protein LOC100249957 - 5e-2 At2g37090 IRX9 (IRREGULAR XYLEM 9) C.G. S.X.
0.02 6e-2 38 Zea mays Zm.17095.1.A1_at BG840781 hypothetical protein LOC100191291 - 1e-13 At4g32830 AtAUR1 (ATAURORA1) 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:0010413 The chemical reactions and pathways involving xylan, a polymer containing a beta-(1->4)-linked D-xylose backbone decorated with glucuronic acid side units.
X GO:0010417 The 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.
X GO:0009834 The 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.
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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
00359 Glucosyltransferase

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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