Co-expression analysis

Gene ID At1g64440
Gene name RHD1 (ROOT HAIR DEFECTIVE 1)
Module size 61 genes
NF 0.31
%ile 38.5



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
1.00100.01.00At1g64440842752RHD1 (ROOT HAIR DEFECTIVE 1)Encodes a protein with UDP-D-glucose 4-epimerase activity. Mutants in RHD1 have abnormally shaped root hairs with a bulbous region at the base. Allelic to REB1 encoding a UDP-D-glucose 4-epimerase involved in cell wall biosynthesis.Involved in growth and cell wall carbohydrate biosynthesis.O.I.H.G.S.X.
0.5469.50.91At3g51460824309RHD4 (ROOT HAIR DEFECTIVE4)Encodes RHD4 (ROOT HAIR DEFECTIVE4), a phosphatidylinositol-4-phosphate phosphatase required for root hair development.O.I.H.G.S.X.
0.4862.50.91At4g34640829616SQS1 (SQUALENE SYNTHASE 1)Encodes squalene synthase, which converts two molecules of farnesyl diphosphate (FPP) into squalene via an intermediate: presqualene diphosphate (PSPP). It is generally thought to be one of the key enzymes of sterol biosynthesis, since it catalyzes the first pathway-specific reaction of the sterol branch of the isoprenoid pathway.O.I.H.G.S.X.
0.4761.20.90At3g52200824385LTA3dihydrolipoamide S-acetyltransferase (LTA3) mRNA, nuclearO.I.H.G.S.X.
0.4761.20.91At1g26640839204aspartate/glutamate/uridylate kinase family proteinF:molecular_function unknown;P:amino acid biosynthetic process;C:cellular_component unknown;BAOPMO.I.H.G.S.X.
0.4761.20.90At1g47290841132AT3BETAHSD/D1 (3BETA-HYDROXYSTEROID-DEHYDROGENASE/DECARBOXYLASE ISOFORM 1)Encodes an enzyme with 3β-hydroxysteroid dehydrogenase/C4-decarboxylase activity in vitro. The activity of the enzyme was determined using microsomal extracts of yeast overexpressing the Arabidopsis gene. Cytosolic fractions failed to be associated to the activity, leading to the speculation that the enzyme is membrane-bound.O.I.H.G.S.X.
0.4659.80.91At1g60070842301binding / clathrin binding / protein binding / protein transporterF:protein transporter activity, protein binding, clathrin binding, binding;P:intracellular protein transport, vesicle-mediated transport, protein transport;C:membrane coat, Golgi apparatus part, Golgi apparatus, clathrin adaptor complex;MFOPBO.I.H.G.S.X.
0.4558.30.90At4g31340829261myosin heavy chain-relatedF:unknown;P:unknown;C:endoplasmic reticulum, plasma membrane;MOBFPAVO.I.H.G.S.X.
0.4457.20.90At1g14830838048ADL1C (ARABIDOPSIS DYNAMIN-LIKE PROTEIN 1C)Encodes a dynamin-like protein that is involved in mitochondrial morphogenesis and pollen development. Protein is localized as speckles in the cytoplasm, partially co-localizes with mitochondrial markers, cell plate of dividing cells, and the tip of root hairs, root cap cells, and expanding part of trichoblasts.O.I.H.G.S.X.
0.4355.30.91At3g05420819707ACBP4 (ACYL-COA BINDING PROTEIN 4)Acyl-CoA binding protein with high affinity for oleoyl-CoA. Expressed in all plant organs. Involved in fatty acid transport.O.I.H.G.S.X.
0.4253.90.90At5g35180833472phosphoinositide bindingF:phosphoinositide binding;P:signal transduction;C:plasma membrane;POMFVO.I.H.G.S.X.
0.4050.80.91At1g60780842372HAP13 (HAPLESS 13)F:protein binding;P:intracellular protein transport, transport, vesicle-mediated transport;C:clathrin vesicle coat, clathrin adaptor complex;MFOPO.I.H.G.S.X.
0.4050.80.90At4g11380826741beta-adaptin, putativeF:protein transporter activity, protein binding, clathrin binding, binding;P:intracellular protein transport, vesicle-mediated transport, protein transport;C:plasma membrane;MOFPBAO.I.H.G.S.X.
0.4050.80.90At3g06580819837GALKEncodes a protein with galactose kinase activity. The gene was shown to complement the yeast Δgal1 mutant defective in the galactokinase gene GAL1.O.I.H.G.S.X.
0.4050.80.89At2g38700818452MVD1 (MEVALONATE DIPHOSPHATE DECARBOXYLASE 1)Encodes mevalonate diphosphate decarboxylase, the enzyme that catalyzes the synthesis of isopentenyl diphosphate, used in sterol and isoprenoid biosynthesis. The protein appears to form a homodimeric complex. Incidentally, it was shown that the Arabidopsis MVD protein could also interact with its yeast homolog to form a heterodimer.O.I.H.G.S.X.
0.3948.40.89At5g48230834876ACAT2 (ACETOACETYL-COA THIOLASE 2)F:acetyl-CoA C-acetyltransferase activity, catalytic activity;P:embryonic development ending in seed dormancy;C:peroxisome, plasma membrane;BOMFAPO.I.H.G.S.X.
0.3948.40.91At3g17430821007phosphate translocator-relatedF:organic anion transmembrane transporter activity;P:unknown;C:endomembrane system;PMFOBO.I.H.G.S.X.
0.3948.40.90At5g61840836306GUT1F:glucuronoxylan glucuronosyltransferase activity, catalytic activity;P:secondary cell wall biogenesis, glucuronoxylan biosynthetic process;C:Golgi apparatus, membrane;PMOBFO.I.H.G.S.X.
0.3846.70.90At5g35730833549EXS family protein / ERD1/XPR1/SYG1 family proteinF:molecular_function unknown;P:biological_process unknown;C:integral to membrane;MFPOO.I.H.G.S.X.
0.3846.70.90At5g49810835044MMTArabidopsis thaliana methionine S-methyltransferase, an enzyme that catalyzes S -methylmethionine formation.O.I.H.G.S.X.
0.3745.00.89At4g29130829034HXK1 (HEXOKINASE 1)Encodes a hexokinase (HXK1) in the plant glucose-signaling network. Functions as a glucose sensor to interrelate nutrient, light, and hormone signaling networks for controlling growth and development in response to the changing environment.O.I.H.G.S.X.
0.3643.60.90At4g24840828587-F:molecular_function unknown;P:protein transport, Golgi organization;C:vacuole;MFOPO.I.H.G.S.X.
0.3643.60.90At1g04910839373unknown proteinF:molecular_function unknown;P:biological_process unknown;C:Golgi apparatus;PO.I.H.G.S.X.
0.3643.60.90At5g53340835415galactosyltransferase family proteinF:transferase activity, transferring hexosyl groups, transferase activity, transferring glycosyl groups;P:protein amino acid glycosylation;C:membrane;PMOO.I.H.G.S.X.
0.3439.80.90At3g17900821058unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMFOO.I.H.G.S.X.
0.3439.80.91At5g14790831331bindingF:binding;P:biological_process unknown;C:cellular_component unknown;MPOFO.I.H.G.S.X.
0.3338.10.89At1g16570838227glycosyl transferase family 1 proteinF:transferase activity, transferring glycosyl groups;P:biosynthetic process;C:mitochondrion;BMOFPAO.I.H.G.S.X.
0.3338.10.90At1g05500837052NTMC2T2.1F:molecular_function unknown;P:biological_process unknown;C:plasma membrane;MPFOO.I.H.G.S.X.
0.3235.70.90At3g03570821234-F:molecular_function unknown;P:biological_process unknown;C:cytosol;MPOO.I.H.G.S.X.
0.3133.80.90At1g26850839229dehydration-responsive family proteinF:unknown;P:unknown;C:Golgi apparatus, membrane;PBOO.I.H.G.S.X.
0.3133.80.90At5g08080830702SYP132 (SYNTAXIN OF PLANTS 132)member of SYP13 Gene FamilyO.I.H.G.S.X.
0.3032.10.90At2g25280817066-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;BAMOFPO.I.H.G.S.X.
0.3032.10.91At4g38200829976guanine nucleotide exchange family proteinF:binding, ARF guanyl-nucleotide exchange factor activity, guanyl-nucleotide exchange factor activity;P:regulation of ARF protein signal transduction;C:chloroplast;MFOPBO.I.H.G.S.X.
0.3032.10.90At2g30710817622RabGAP/TBC domain-containing proteinF:RAB GTPase activator activity;P:regulation of Rab GTPase activity;C:intracellular;MOFPO.I.H.G.S.X.
0.2930.30.90At2g20360816555binding / catalytic/ coenzyme bindingF:coenzyme binding, binding, catalytic activity;P:response to salt stress;C:mitochondrion, respiratory chain complex I, membrane;BOMFPAO.I.H.G.S.X.
0.2930.30.89At1g43690840956ubiquitin interaction motif-containing proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOPO.I.H.G.S.X.
0.2930.30.90At3g15410820780leucine-rich repeat family proteinF:protein binding;P:signal transduction;C:unknown;MPBOFAVO.I.H.G.S.X.
0.2830.30.90At1g56590842113clathrin adaptor complexes medium subunit family proteinF:protein binding;P:intracellular protein transport, transport, vesicle-mediated transport;C:clathrin vesicle coat, clathrin adaptor complex;MFOPO.I.H.G.S.X.
0.2830.30.90At1g71860843516PTP1 (PROTEIN TYROSINE PHOSPHATASE 1)Encodes a protein with tyrosine phosphatase activity that is downregulated in response to cold and upregulated in response to salt stress.O.I.H.G.S.X.
0.2830.30.89At4g24760828578unknown proteinF:unknown;P:unknown;C:unknown;OBMPFVAO.I.H.G.S.X.
0.2830.30.90At4g39690830124unknown proteinF:molecular_function unknown;P:biological_process unknown;C:mitochondrion;MOBFPVAO.I.H.G.S.X.
0.2624.40.90At4g39370830092UBP27 (UBIQUITIN-SPECIFIC PROTEASE 27)Encodes a ubiquitin-specific protease.O.I.H.G.S.X.
0.2624.40.90At4g09630826549-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;OMPFBVAO.I.H.G.S.X.
0.2624.40.90At5g59160836034TOPP2Encodes the catalytic subunit of a Type 1 phosphoprotein Ser/Thr phosphatase, expressed in roots, shoots and flowers.O.I.H.G.S.X.
0.2624.40.89At5g55500835643XYLT (ARABIDOPSIS THALIANA BETA-1,2-XYLOSYLTRANSFERASE)Encodes a beta-1,2-xylosyltransferase that is glycosylated at two positions.O.I.H.G.S.X.
0.2624.40.90At2g45540819162WD-40 repeat family protein / beige-relatedF:nucleotide binding;P:biological_process unknown;C:cellular_component unknown;MBFOPAO.I.H.G.S.X.
0.2624.40.91At4g31480829275coatomer beta subunit, putative / beta-coat protein, putative / beta-COP, putativeF:protein binding, clathrin binding, structural molecule activity, binding;P:intracellular protein transport, vesicle-mediated transport;C:membrane coat, endomembrane system, COPI vesicle coat;MOFPO.I.H.G.S.X.
0.2522.60.91At1g12470837804Pep3/Vps18/deep orange family proteinF:protein binding, zinc ion binding;P:unknown;C:unknown;MFOPBO.I.H.G.S.X.
0.2420.70.89At4g34490829600ATCAP1 (ARABIDOPSIS THALIANA CYCLASE ASSOCIATED PROTEIN 1)CYCLASE ASSOCIATED PROTEINO.I.H.G.S.X.
0.2319.30.89At2g30050817556transducin family protein / WD-40 repeat family proteinF:nucleotide binding;P:membrane budding;C:nucleolus, heterotrimeric G-protein complex;MFBOPAO.I.H.G.S.X.
0.2319.30.90At3g02090821084mitochondrial processing peptidase beta subunit, putativeF:metalloendopeptidase activity, catalytic activity, zinc ion binding, metal ion binding;P:proteolysis;C:in 11 components;BOMFPAVO.I.H.G.S.X.
0.2319.30.89At1g20575838646dolichyl-phosphate beta-D-mannosyltransferase, putative / dolichol-phosphate mannosyltransferase, putative / mannose-P-dolichol synthase, putativeF:elongation factor-2 kinase activity, dolichyl-phosphate beta-D-mannosyltransferase activity;P:protein amino acid glycosylation;C:endoplasmic reticulum;BOAMFPVO.I.H.G.S.X.
0.2115.80.89At1g25280839112AtTLP10 (TUBBY LIKE PROTEIN 10)Member of TLP familyO.I.H.G.S.X.
0.2115.80.90At4g23640828464TRH1 (TINY ROOT HAIR 1)Functions as a potassium transporter and is required for the establishment of root tip growth.O.I.H.G.S.X.
0.2014.40.90At1g09270837448IMPA-4 (IMPORTIN ALPHA ISOFORM 4)Protein interacts with Agrobacterium proteins VirD2 and VirE2.O.I.H.G.S.X.
0.1912.70.89At3g27240822343cytochrome c1, putativeF:electron carrier activity, iron ion binding, heme binding, electron transporter, transferring electrons within CoQH2-cytochrome c reductase complex activity;P:unknown;C:in 6 components;OBMFPO.I.H.G.S.X.
0.1811.40.89At3g51310824294VPS35C (VPS35 HOMOLOG C)Homolog of yeast retromer subunit VPS35. Part of a retromer-like protein complex involved in endosome to lysosome protein transport.O.I.H.G.S.X.
0.1710.20.89At3g50590824223nucleotide bindingF:nucleotide binding;P:biological_process unknown;C:plasma membrane;MBFOPVO.I.H.G.S.X.
0.168.80.90At1g22300838837GRF10 (GENERAL REGULATORY FACTOR 10)Encodes a 14-3-3 protein. This protein is reported to interact with the BZR1 transcription factor involved in brassinosteroid signaling and may affect the nucleocytoplasmic shuttling of BZR1O.I.H.G.S.X.
0.157.80.89At5g66510836783GAMMA CA3 (GAMMA CARBONIC ANHYDRASE 3)Encodes mitochondrial gamma carbonic anhydrase. Component of the NADH dehydrogenase complex.O.I.H.G.S.X.
0.124.90.90At3g19980821536ATFYPP3 (FLOWER-SPECIFIC, PHYTOCHROME-ASSOCIATED PROTEIN PHOSPHATASE 3)Encodes catalytic subunit of serine/threonine protein phosphatase 2A. It can associate with phytochromes A and B in vitro. Mutant plants display an accelerated flowering phenotype.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
53.999.8GSM133761Lindsey_1-13_torpedo-cotyledon_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
52.699.8GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
46.699.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
45.799.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
45.099.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
45.099.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
44.599.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
44.299.8GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
44.199.8GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
43.599.8GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
43.499.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
42.999.8GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
42.699.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
42.099.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
41.899.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
41.299.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
40.299.8GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
39.299.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
38.699.8GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
38.599.8GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
37.399.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
36.599.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
35.499.7GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
34.199.7GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
33.099.7GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
30.099.7GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
27.299.7GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
24.899.6GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
23.999.6E-ATMX-35-raw-cel-1574334832
22.799.6E-ATMX-35-raw-cel-1574334816
22.799.6E-ATMX-35-raw-cel-1574334800
18.199.5GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
11.599.3E-MEXP-807-raw-cel-1173273196
10.799.2E-MEXP-285-raw-cel-440782725
10.099.2GSM176876AWP_AL_Txed_1GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO
9.899.1GSM133766Lindsey_1-18_torpedo-root_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
9.799.1GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
9.499.1GSM184497Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
9.099.1E-MEXP-285-raw-cel-440782791
8.699.0GSM142734DH001_ATH1_A1-UNM1GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0738GO: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
0.0565GO:0016192The directed movement of substances into, out of or within a cell by a cellular process that begins with the formation of membrane-bounded vesicles in which the transported substances are enclosed or located in the vesicle membrane. Vesicles are then targeted to, and fuse with, an acceptor membrane.Link to AmiGO
0.0412GO:0006486The addition of a sugar unit to a protein amino acid, e.g. the addition of glycan chains to proteins.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.066300510N-Glycan biosynthesisLink to KEGG PATHWAY
0.064300052Galactose metabolismLink to KEGG PATHWAY
0.045300520Amino sugar and nucleotide sugar metabolismLink 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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