Co-expression analysis

Gene ID At1g21880
Gene name LYM1 (LYSM DOMAIN GPI-ANCHORED PROTEIN 1 PRECURSOR)
Module size 9 genes
NF 0.30
%ile 37.3



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
0.5368.61.00At1g21880838790LYM1 (LYSM DOMAIN GPI-ANCHORED PROTEIN 1 PRECURSOR)F:molecular_function unknown;P:cell wall macromolecule catabolic process;C:anchored to plasma membrane, plasma membrane, anchored to membrane;PBOFO.I.H.G.S.X.
0.5773.80.89At1g63470842653DNA-binding family proteinF:DNA binding;P:biological_process unknown;C:cellular_component unknown;PMFBOO.I.H.G.S.X.
0.5065.30.84At1g63480842654DNA-binding family proteinF:DNA binding;P:biological_process unknown;C:unknown;PMFOBVO.I.H.G.S.X.
0.4659.80.87At5g37010833671unknown proteinF:molecular_function unknown;P:N-terminal protein myristoylation;C:unknown;MOFBPVAO.I.H.G.S.X.
0.3846.70.85At1g16070838177AtTLP8 (TUBBY LIKE PROTEIN 8)Member of TLP familyO.I.H.G.S.X.
0.2930.30.86At1g04020839329BARD1 (BREAST CANCER ASSOCIATED RING 1)Encodes a protein containing two tandem BRCA1 C-Terminal (BRCT) domains, which function in phosphorylation-dependent protein–protein interactions.Loss of function mutations cause defects in meristem organization due to failure to repress WUS. BARD1 binds to WUS promoter and over expression of BARD reduces the extent of WUS expression.O.I.H.G.S.X.
0.2420.70.86At5g51910835266TCP family transcription factor, putativeF:transcription factor activity;P:regulation of transcription;C:cellular_component unknown;PO.I.H.G.S.X.
0.1811.40.87At3g55660824732ROPGEF6Encodes a member of KPP-like gene family, homolog of KPP (kinase partner protein) gene in tomato. Also a member of the RopGEF (guanine nucleotide exchange factor) family, containing the novel PRONE domain (plant-specific Rop nucleotide exchanger), which is exclusively active towards members of the Rop subfamily.O.I.H.G.S.X.
0.1710.20.85At2g25270817065unknown proteinF:unknown;P:unknown;C:plasma membrane;POBMO.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
204.6100.0GSM133760Lindsey_1-12_heart-stage-root_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
153.799.9GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
137.899.9GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
124.199.9GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
123.299.9GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
117.099.9GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
116.099.9GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
110.399.9GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
99.299.9GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
97.999.9GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
96.199.9GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
88.699.9GSM133757Lindsey_1-8_heart-stage-cotyledon_Rep2_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
85.099.9GSM311282Laser capture microdissected (LCM) chalazal seed coat at the pre-globular stage, biological replicate 2GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
84.999.9GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
84.699.9GSM311281Laser capture microdissected (LCM) chalazal seed coat at the pre-globular stage, biological replicate 1GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
81.499.9GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
77.899.9GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
71.399.9GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
65.399.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
59.399.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
56.699.8GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
52.899.8GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
49.399.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
44.999.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
44.299.8GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
43.299.8GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
40.399.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
39.299.8GSM131322AtGen_6-3422_Saltstress-Roots-6.0h_Rep2GSE5623AtGenExpress: Stress Treatments (Salt stress)Link to GEO
37.299.7GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
34.399.7GSM284396Arabidopsis GPSc2GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
32.199.7GSM131321AtGen_6-3421_Saltstress-Roots-6.0h_Rep1GSE5623AtGenExpress: Stress Treatments (Salt stress)Link to GEO
31.199.7GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
29.599.7GSM284395Arabidopsis GPSc1GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
28.999.7GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
28.099.7GSM176876AWP_AL_Txed_1GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO
26.299.7GSM131318AtGen_6-3322_Saltstress-Roots-3.0h_Rep2GSE5623AtGenExpress: Stress Treatments (Salt stress)Link to GEO
24.699.6GSM311294Laser capture microdissected (LCM) chalazal seed coat at the linear-cotyledon stage, biological replicate 2GSE12403Expression data from Arabidopsis seed compartments at the linear-cotyledon stageLink to GEO
23.099.6GSM133766Lindsey_1-18_torpedo-root_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
21.999.6GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
18.899.5GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
15.799.5GSM133894Schroeder_1-12_JS44-starve-96h_Rep1_ATH1GSE5744Response to potassium starvation in rootsLink to GEO
11.599.3GSM142593DB001_ATH1_A3-Brown-calGSE6148The trans-differentiation of cultured Arabidopsis cellsLink to GEO
11.199.2GSM142596DB001_ATH1_A6-Brown-calGSE6148The trans-differentiation of cultured Arabidopsis cellsLink to GEO
11.099.2GSM142592DB001_ATH1_A2-Brown-calGSE6148The trans-differentiation of cultured Arabidopsis cellsLink to GEO
10.999.2GSM131346AtGen_6-4322_Droughtstress-Roots-3.0h_Rep2GSE5624AtGenExpress: Stress Treatments (Drought stress)Link to GEO
10.799.2GSM142594DB001_ATH1_A4-Brown-calGSE6148The trans-differentiation of cultured Arabidopsis cellsLink to GEO
10.699.2GSM184497Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
10.599.2GSM131433AtGen_6-8524_Woundingstress-Roots-12.0h_Rep1GSE5627AtGenExpress: Stress Treatments (Wounding stress)Link to GEO
9.999.1GSM131317AtGen_6-3321_Saltstress-Roots-3.0h_Rep1GSE5623AtGenExpress: Stress Treatments (Salt stress)Link to GEO
9.999.1GSM131334AtGen_6-4722_Droughtstress-Roots-0.25h_Rep2GSE5624AtGenExpress: Stress Treatments (Drought stress)Link to GEO
9.899.1GSM133892Schroeder_1-6_JS43-control-96h_Rep1_ATH1GSE5744Response to potassium starvation in rootsLink to GEO
9.099.1GSM311293Laser capture microdissected (LCM) chalazal seed coat at the linear-cotyledon stage, biological replicate 1GSE12403Expression data from Arabidopsis seed compartments at the linear-cotyledon stageLink to GEO
8.999.0GSM131242AtGen_6-0322_Control-Roots-3.0h_Rep2GSE5620AtGenExpress: Stress Treatments (Control plants)Link to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0741GO:0009934Any process that modulates the frequency, rate or extent of meristem organization.Link to AmiGO
0.0591GO:0016998The chemical reactions and pathways resulting in the breakdown of macromolecules that form part of a cell wall.Link to AmiGO
0.0211GO:0048366The process whose specific outcome is the progression of the leaf over time, from its formation to the mature structure.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.
Glycine_max
Hordeum_vulgare
Oryza_sativa
Populus_trichocarpa
Triticum_aestivum
Vitis_vinifera
Zea_mays



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