Co-expression analysis

Gene ID At3g25910
Gene name zinc ion binding
Module size 10 genes
NF 0.30
%ile 38.0



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
0.9597.01.00At3g25910822188zinc ion bindingF:zinc ion binding;P:biological_process unknown;C:intracellular;MPOFBVO.I.H.G.S.X.
0.4355.30.93At5g04910830373unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMOO.I.H.G.S.X.
0.3846.70.93At2g45620819170nucleotidyltransferase family proteinF:nucleotidyltransferase activity;P:biological_process unknown;C:cellular_component unknown;MOFPBO.I.H.G.S.X.
0.3846.70.93At4g21450826300vesicle-associated membrane family protein / VAMP family proteinF:structural molecule activity;P:biological_process unknown;C:plasma membrane;MOFPBVO.I.H.G.S.X.
0.3235.70.92At2g29400817489TOPP1 (TYPE ONE PROTEIN PHOSPHATASE 1)Type 1 protein phosphatase, expressed in roots, rosettes and flowersO.I.H.G.S.X.
0.3133.80.93At5g18110831929NCBP (NOVEL CAP-BINDING PROTEIN)F:RNA binding, translation initiation factor activity;P:translational initiation;C:cytoplasm;MOFPO.I.H.G.S.X.
0.2930.30.94At3g13200820510EMB2769 (EMBRYO DEFECTIVE 2769)F:molecular_function unknown;P:nuclear mRNA splicing, via spliceosome;C:spliceosome;MOFPBVAO.I.H.G.S.X.
0.2319.30.93At5g06140830501SNX1 (SORTING NEXIN 1)Homolog of yeast retromer subunit VPS5. Part of a retromer-like protein complex involved in endosome to lysosome protein transport. In roots it co-localizes with the PIN2 auxin efflux carrier. Involved in endocytic sorting of membrane proteins including PIN2, BOR1 and BRI1.O.I.H.G.S.X.
0.168.80.93At2g21240816663BPC4 (BASIC PENTACYSTEINE 4)F:transcription factor activity, DNA binding;P:regulation of transcription, DNA-dependent;C:nucleus;PMBO.I.H.G.S.X.
0.114.10.93At5g12120831085ubiquitin-associated (UBA)/TS-N domain-containing proteinF:unknown;P:biological_process unknown;C:plasma membrane;OMFPBO.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
59.799.8GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
59.499.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
55.899.8GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
54.499.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
53.599.8E-ATMX-35-raw-cel-1574334832
52.099.8GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
51.299.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
50.599.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
48.799.8GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
47.299.8GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
44.699.8GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
44.699.8GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
43.999.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
43.999.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
43.399.8GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
41.599.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
40.699.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
38.399.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
37.399.7GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
36.999.7GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
36.299.7E-ATMX-35-raw-cel-1574334816
36.099.7GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
35.899.7E-ATMX-35-raw-cel-1574334800
31.599.7GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
31.199.7GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
29.299.7GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
20.999.6GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
15.899.5GSM284394Arabidopsis GCE3GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
15.499.5E-MEXP-509-raw-cel-829148090
14.999.4GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
14.899.4E-MEXP-509-raw-cel-829148597
13.799.4E-MEXP-509-raw-cel-829148772
12.799.3GSM311280Laser 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
12.099.3GSM184497Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
11.899.3E-MEXP-509-raw-cel-829148165
11.099.2E-MEXP-509-raw-cel-829148913
9.499.1GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
8.899.0GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
8.699.0E-ATMX-33-raw-cel-1562596241

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.1431GO:0008333The directed movement of substances from endosomes to lysosomes.Link to AmiGO
0.1331GO:0006896The directed movement of substances from the Golgi to the vacuole.Link to AmiGO
0.0771GO:0009958The orientation of plant parts towards gravity.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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