Co-expression analysis

Gene ID At4g14560
Gene name IAA1 (INDOLE-3-ACETIC ACID INDUCIBLE)
Module size 67 genes
NF 0.21
%ile 20.3



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
1.00100.01.00At4g14560827103IAA1 (INDOLE-3-ACETIC ACID INDUCIBLE)auxin (indole-3-acetic acid) induced gene (IAA1) encoding a short-lived nuclear-localized transcriptional regulator protein.O.I.H.G.S.X.
0.3338.10.78At3g29760822663NLI interacting factor (NIF) family proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;OMBFPVO.I.H.G.S.X.
0.3032.10.76At5g633808364574-coumarate--CoA ligase family protein / 4-coumaroyl-CoA synthase family proteinEncodes a peroxisomal protein involved in the activation of fatty acids through esterification with CoA. At5g63380 preferentially activates fatty acids with increased chain length (C9:0 to C8:0) and thus shares characteristics with long-chain fatty acyl-CoA synthases. Also able to catalyze the conversion of OPDA to its CoA ester and is therefore thought to be involved in the peroxisomal β-oxidation steps of jasmonic acid biosynthesis.O.I.H.G.S.X.
0.3032.10.78At1g11090837650hydrolase, alpha/beta fold family proteinF:hydrolase activity;P:biological_process unknown;C:cellular_component unknown;BOPMFVAO.I.H.G.S.X.
0.3032.10.77At1g35470840440SPla/RYanodine receptor (SPRY) domain-containing proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFOPO.I.H.G.S.X.
0.2930.30.78At3g56840824851FAD-dependent oxidoreductase family proteinF:oxidoreductase activity;P:biological_process unknown;C:cellular_component unknown;BOMFAPVO.I.H.G.S.X.
0.2930.30.77At2g32450817806calcium-binding EF hand family proteinF:binding, zinc ion binding, calcium ion binding;P:unknown;C:plasma membrane;BOMAPFO.I.H.G.S.X.
0.2726.20.78At4g38900830045bZIP proteinF:transcription factor activity, DNA binding;P:regulation of transcription, DNA-dependent;C:nucleus;OMPBFAO.I.H.G.S.X.
0.2726.20.77At2g22830816814SQE2 (squalene epoxidase 2)F:squalene monooxygenase activity, oxidoreductase activity, FAD binding;P:sterol biosynthetic process;C:integral to membrane;BOFMPAO.I.H.G.S.X.
0.2624.40.77At1g80400844380zinc finger (C3HC4-type RING finger) family proteinF:protein binding, zinc ion binding;P:unknown;C:unknown;PMOFVBO.I.H.G.S.X.
0.2624.40.76At3g07190819906-F:molecular_function unknown;P:intracellular protein transport;C:endomembrane system, integral to membrane, endoplasmic reticulum;MOBPFAVO.I.H.G.S.X.
0.2624.40.78At4g38040829960exostosin family proteinF:catalytic activity;P:biological_process unknown;C:chloroplast, membrane;PMOBFVO.I.H.G.S.X.
0.2624.40.77At1g29550839832eukaryotic translation initiation factor 4E, putative / eIF-4E, putative / eIF4E, putative / mRNA cap-binding protein, putativeF:RNA binding, translation initiation factor activity;P:translational initiation;C:cytoplasm;MOPFO.I.H.G.S.X.
0.2522.60.76At1g35510840444unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;PO.I.H.G.S.X.
0.2522.60.77At3g42630823280pentatricopeptide (PPR) repeat-containing proteinF:unknown;P:unknown;C:chloroplast;POO.I.H.G.S.X.
0.2522.60.78At1g31300840018-F:molecular_function unknown;P:biological_process unknown;C:integral to membrane;MFPOO.I.H.G.S.X.
0.2420.70.78At2g19560816475EER5 (ENHANCED ETHYLENE RESPONSE 5)encodes a protein with a PAM domain involved in ethylene signaling. eer5 mutants show ethylene hypersensitivity in relation to hypocotyl elongation. EER5 interacts with EIN2 and with COP9 in Y2H assays. EIN3 protein levels are the same in WT and eer5-1 mutants. EER5 may be involved in promoting a dampening of the ethylene response.O.I.H.G.S.X.
0.2420.70.77At1g25570839144leucine-rich repeat protein-relatedF:protein binding;P:unknown;C:plasma membrane, vacuole;POBMFAO.I.H.G.S.X.
0.2420.70.78At5g63870836507PP7 (SERINE/THREONINE PHOSPHATASE 7)Encodes a nuclear localized serine/threonine phosphatase that appears to be regulated by redox activity and is a positive regulator of cryptochrome mediated blue light signalling.O.I.H.G.S.X.
0.2420.70.78At3g24030821988hydroxyethylthiazole kinase family proteinF:catalytic activity, hydroxyethylthiazole kinase activity;P:thiamin biosynthetic process;C:cellular_component unknown;BOFAPMO.I.H.G.S.X.
0.2319.30.77At3g53030824469SRPK4 (Ser/Arg-rich protein kinase 4)Encodes a protein kinase SRPK4 that specifically targets Arabidopsis Ser/Arg-rich (SR) slicing factors involved in RNA metabolism. In vitro kinase assay showed that SRPK4 phosphorylates the SR protein RSp31.O.I.H.G.S.X.
0.2319.30.77At5g16940831557carbon-sulfur lyaseF:carbon-sulfur lyase activity;P:metabolic process;C:cellular_component unknown;OBMFPO.I.H.G.S.X.
0.2319.30.77At2g35360818103ubiquitin family proteinF:molecular_function unknown;P:protein modification process;C:cellular_component unknown;MPOO.I.H.G.S.X.
0.2319.30.77At1g05860837096unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;PMOFO.I.H.G.S.X.
0.2319.30.78At1g06390837150GSK1 (GSK3/SHAGGY-LIKE PROTEIN KINASE 1)encodes a GSK3/shaggy-like protein kinase. Gene expression is induced by NaCl and ABA but not KCl, suggesting that this gene may be involved in response to osmotic stress. This protein can interact with the BZR1 protein involved in brassinosteroid-mediated signaling in a Y2H assay and promotes BZR1 phosphorylation in protoplasts.O.I.H.G.S.X.
0.2319.30.77At4g25280828631adenylate kinase family proteinF:nucleobase, nucleoside, nucleotide kinase activity, nucleotide kinase activity, phosphotransferase activity, phosphate group as acceptor, ATP binding;P:nucleobase, nucleoside, nucleotide and nucleic acid metabolic process;C:unknown;BOMFPAO.I.H.G.S.X.
0.2319.30.77At1g47310841134unknown proteinF:molecular_function unknown;P:biological_process unknown;C:endomembrane system;PO.I.H.G.S.X.
0.2319.30.77At1g05070839330unknown proteinF:molecular_function unknown;P:biological_process unknown;C:Golgi apparatus;PBOO.I.H.G.S.X.
0.2319.30.77At4g32560829391paramyosin-relatedF:molecular_function unknown;P:biological_process unknown;C:unknown;MOBFAPVO.I.H.G.S.X.
0.2319.30.77At5g25360832608unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POO.I.H.G.S.X.
0.2217.50.76At3g27320822351hydrolaseF:hydrolase activity;P:metabolic process;C:unknown;BOPFMAVO.I.H.G.S.X.
0.2217.50.77At1g75420843878glycosyl transferase family 1 proteinF:transferase activity, transferring glycosyl groups;P:biosynthetic process;C:cellular_component unknown;BOAMPFO.I.H.G.S.X.
0.2217.50.77At5g21040832228FBX2 (F-BOX PROTEIN 2)Encodes an F-box containing protein that interacts physically with BHLH32 and appears to be involved in mediating phosphate starvation responses.O.I.H.G.S.X.
0.2217.50.78At5g48150834867PAT1 (phytochrome a signal transduction 1)Member of GRAS gene family. Semi-dominant mutant has a reduced response to far-red light and appears to act early in the phytochrome A signaling pathway.O.I.H.G.S.X.
0.2217.50.76At4g09580826542-F:unknown;P:biological_process unknown;C:endoplasmic reticulum;BOMPFAO.I.H.G.S.X.
0.2115.80.77At4g39400830095BRI1 (BRASSINOSTEROID INSENSITIVE 1)Encodes a plasma membrane localized leucine-rich repeat receptor kinase involved in brassinosteroid signal transduction. BRI1 ligand is brassinolide which binds at the extracellular domain. Binding results in phosphorylation of the kinase domain which activates the BRI1 protein leading to BR responses. Residue T-1049 and either S-1044 or T-1045 were essential for kinase function in vitro and normal BRI1 signaling in planta. Although BAK1 and BRI1 alone localize in the plasma membrane, when BAK1 and BRI1 are coexpressed, the heterodimer BAK1/BRI1 they form is localized in the endosome. BRI1 appears to be involved in the autonomous pathway that regulates the transition to flowering, primarily through its effects on FLC expression levels, as uncovered by double mutant analyses. This most likely occurs as a result of BRI1-dependent effects on histone acetylation, but not histone triMeH3K4 methylation, at the FLC locus.O.I.H.G.S.X.
0.2115.80.77At1g33780840269unknown proteinF:unknown;P:unknown;C:chloroplast thylakoid lumen, chloroplast;BOPO.I.H.G.S.X.
0.2115.80.76At3g45850823728kinesin motor protein-relatedF:microtubule motor activity, ATP binding;P:microtubule-based movement;C:plasma membrane;MOBFPAVO.I.H.G.S.X.
0.2014.40.77At5g09740830834HAM2 (histone acetyltransferase of the MYST family 2)Encodes an enzyme with histone acetyltransferase activity. HAM2 primarily acetylate histone H4, but also display some ability to acetylate H3. Prior acetylation of lysine 5 on histone H4 reduces radioactive acetylation by either HAM2.O.I.H.G.S.X.
0.2014.40.76At5g47310834778unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPOFO.I.H.G.S.X.
0.2014.40.77At4g26640828771WRKY20member of WRKY Transcription Factor; Group IO.I.H.G.S.X.
0.2014.40.78At4g37880829944protein binding / zinc ion bindingF:protein binding, zinc ion binding;P:biological_process unknown;C:cellular_component unknown;MFOPO.I.H.G.S.X.
0.2014.40.76At5g08120830707MBP2C (MICROTUBULE BINDING PROTEIN 2C)Microtubule-associated and viral movement protein binding protein. Negatively regulates KN1 association to plasmodesmata and, consequently, cell-to-cell transport. Involved in the alignment of cortical microtubules, the patterning of stomata and in restricting tobamoviral infections.O.I.H.G.S.X.
0.2014.40.76At5g32470833206-F:molecular_function unknown;P:biological_process unknown;C:mitochondrion;BOFAPMO.I.H.G.S.X.
0.2014.40.77At1g60430842338ARPC3 (actin-related protein C3)F:structural molecule activity;P:actin filament organization;C:Arp2/3 protein complex;MFOPO.I.H.G.S.X.
0.2014.40.77At5g41480834149GLA1 (GLOBULAR ARREST1)Encodes a dihydrofolate synthetase based on yeast complementation experiments. This protein is involved in folate biosynthesis.O.I.H.G.S.X.
0.1912.70.77At3g17750821043protein kinase family proteinF:protein serine/threonine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:cytosol, plasma membrane;MOPFBVAO.I.H.G.S.X.
0.1912.70.76At4g15415827211ATB' GAMMAB' regulatory subunit of PP2A (AtB'gamma)O.I.H.G.S.X.
0.1811.40.78At4g18060827531clathrin bindingF:clathrin binding;P:unknown;C:unknown;MOFPBO.I.H.G.S.X.
0.1811.40.77At1g18030838383protein phosphatase 2C, putative / PP2C, putativeF:protein serine/threonine phosphatase activity, catalytic activity;P:biological_process unknown;C:cellular_component unknown;PMOFBVAO.I.H.G.S.X.
0.1710.20.78At5g43700834390ATAUX2-11 (AUXIN INDUCIBLE 2-11)Auxin inducible protein similar to transcription factors.O.I.H.G.S.X.
0.1710.20.77At1g17280838300UBC34 (ubiquitin-conjugating enzyme 34)F:ubiquitin-protein ligase activity;P:ubiquitin-dependent protein catabolic process;C:cellular_component unknown;MFOPVO.I.H.G.S.X.
0.1710.20.77At3g02720820875DJ-1 family protein / protease-relatedF:hydrolase activity, acting on glycosyl bonds;P:biological_process unknown;C:cellular_component unknown;BOAPMFO.I.H.G.S.X.
0.1710.20.77At3g55480824714adaptin family proteinF:protein binding, binding;P:intracellular protein transport, vesicle-mediated transport;C:membrane coat, endomembrane system;BMFOPO.I.H.G.S.X.
0.1710.20.77At4g32330829367-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOFBPVAO.I.H.G.S.X.
0.168.80.76At5g18760831994zinc finger (C3HC4-type RING finger) family proteinF:protein binding, zinc ion binding;P:biological_process unknown;C:chloroplast;MPFOVO.I.H.G.S.X.
0.168.80.77At2g40540818649KT2 (POTASSIUM TRANSPORTER 2)putative potassium transporter AtKT2p (AtKT2) mRNA,O.I.H.G.S.X.
0.168.80.77At3g62970825472protein binding / zinc ion bindingF:protein binding, zinc ion binding;P:N-terminal protein myristoylation;C:unknown;MPOFBO.I.H.G.S.X.
0.168.80.77At2g30980817649ASKdZeta (Arabidopsis SHAGGY-related protein kinase dZeta)Encodes a GSK3-like protein kinase. This protein can interact with the BZR1 protein involved in brassinosteroid-mediated signaling in a Y2H assay and promotes BZR1 phosphorylation in protoplasts.O.I.H.G.S.X.
0.146.80.77At5g64830836606programmed cell death 2 C-terminal domain-containing proteinF:molecular_function unknown;P:apoptosis;C:cytoplasm;MFOPO.I.H.G.S.X.
0.135.80.76At1g10940837637SNRK2.4 (SNF1-RELATED PROTEIN KINASE 2.4)Encodes a plant protein kinase similar to the calcium/calmodulin-dependent protein kinase subfamily and the SNF1 kinase subfamily (SnRK2) whose activity is activated by ionic (salt) and non-ionic (mannitol) osmotic stress. Kinase activity of its homolog in tobacco is induced by hyperosmotic condition within 1 minute.O.I.H.G.S.X.
0.135.80.77At1g77140844050VPS45 (VACUOLAR PROTEIN SORTING 45)A peripheral membrane protein that associates with microsomal membranes, likely to function in the transport of proteins to the vacuole. It is a member of Sec1p protein family. It may be involved in the regulation of vesicle fusion reactions through interaction with t-SNAREs at the Golgi trans face.O.I.H.G.S.X.
0.135.80.77At2g20190816539CLASP (CLIP-ASSOCIATED PROTEIN)Encodes a microtubule-associated protein that is involved in both cell division and cell expansion. It likely promotes microtubule stability.O.I.H.G.S.X.
0.135.80.77At3g27090822327-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;OPMBO.I.H.G.S.X.
0.135.80.78At5g50000835064protein kinase, putativeF:protein serine/threonine/tyrosine kinase activity, kinase activity;P:protein amino acid phosphorylation;C:plasma membrane;MPOBFVAO.I.H.G.S.X.
0.135.80.78At2g32580817818unknown proteinF:molecular_function unknown;P:biological_process unknown;C:endomembrane system;PMOO.I.H.G.S.X.
0.114.10.77At3g01340821216protein transport protein SEC13 family protein / WD-40 repeat family proteinF:nucleotide binding;P:intracellular protein transport, membrane budding;C:cellular_component unknown;MFBOPAO.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
63.399.8GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
50.899.8GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
50.799.8GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
47.599.8GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
47.499.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
46.999.8GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
46.599.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
46.199.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
45.399.8GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
44.799.8GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
44.799.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
43.199.8GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
42.299.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
42.099.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
38.699.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
37.999.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
37.899.8GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
36.899.7GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
33.999.7GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
33.599.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
32.999.7GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
32.099.7GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
31.999.7GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
30.999.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
30.499.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
28.099.7GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
18.099.5GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
17.599.5GSM133764Lindsey_1-16_torpedo-root_Rep2_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
15.699.5GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
12.899.3GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
8.999.0E-MEXP-265-raw-cel-414618491
8.899.0GSM311280Laser capture microdissected (LCM) chalazal endosperm at the pre-globular stage, biological replicate 2GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
8.699.0GSM311279Laser capture microdissected (LCM) chalazal endosperm at the pre-globular stage, biological replicate 1GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0653GO:0009742A series of molecular signals mediated by the detection of brassinosteroid.Link to AmiGO
0.0562GO:0032880Any process that modulates the frequency, rate or extent of any process by which a protein is transported to, or maintained in, a specific location.Link to AmiGO
0.0354GO:0006886The directed movement of proteins in a cell, including the movement of proteins between specific compartments or structures within a cell, such as organelles of a eukaryotic cell.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.027100730Thiamine metabolismLink to KEGG PATHWAY
0.027100790Folate biosynthesisLink to KEGG PATHWAY
0.024204120Ubiquitin mediated proteolysisLink to KEGG PATHWAY

Inter-species module comparison

Select a plant to compare co-expressed genes between species.
Glycine_max
Hordeum_vulgare
Oryza_sativa
Populus_trichocarpa
Triticum_aestivum
Vitis_vinifera
Zea_mays



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