Co-expression analysis

Gene ID At1g80270
Gene name DNA-binding protein, putative
Module size 10 genes
NF 0.33
%ile 42.1



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
0.9597.01.00At1g80270844367DNA-binding protein, putativeF:DNA binding;P:biological_process unknown;C:chloroplast envelope;POMFO.I.H.G.S.X.
0.5368.60.87At2g28600817408ATP binding / ATP-dependent helicase/ nucleic acid bindingF:nucleic acid binding, ATP binding, ATP-dependent helicase activity;P:biological_process unknown;C:cellular_component unknown;BOMFPAVO.I.H.G.S.X.
0.3846.70.91At2g40360818629transducin family protein / WD-40 repeat family proteinF:nucleotide binding;P:rRNA processing;C:nucleus;BMOFPVAO.I.H.G.S.X.
0.3541.60.89At1g03360839521ATRRP4 (ARABIDOPSIS THALIANA RIBOSOMAL RNA PROCESSING 4)F:RNA binding, exonuclease activity;P:unknown;C:mitochondrion;OMAFPO.I.H.G.S.X.
0.3235.70.88At5g52380835314zinc knuckle (CCHC-type) family proteinF:zinc ion binding, nucleic acid binding;P:biological_process unknown;C:cellular_component unknown;MFVOPO.I.H.G.S.X.
0.2930.30.87At4g25630828668FIB2 (FIBRILLARIN 2)encodes a fibrillarin, a key nucleolar protein in eukaryotes which associates with box C/D small nucleolar RNAs (snoRNAs) directing 2'-O-ribose methylation of the rRNA. This gene also encodes a novel box C/D snoRNA, U60.2f in its fifth intron that accumulates in seedlings and that their targeted residue on the 25 S rRNA is methylated.O.I.H.G.S.X.
0.2319.30.87At3g12270820407PRMT3 (PROTEIN ARGININE METHYLTRANSFERASE 3)F:methyltransferase activity, zinc ion binding;P:metabolic process;C:intracellular;MBOFPAO.I.H.G.S.X.
0.2014.40.88At5g57280835833methyltransferaseF:methyltransferase activity;P:metabolic process;C:unknown;BOMFPAO.I.H.G.S.X.
0.1811.40.89At3g03920821062Gar1 RNA-binding region family proteinF:RNA binding, rRNA binding;P:rRNA processing;C:chloroplast thylakoid membrane, nucleolus;MPBOFVAO.I.H.G.S.X.
0.168.80.89At3g18600821391DEAD/DEAH box helicase, putativeF:helicase activity, ATP binding, ATP-dependent helicase activity, nucleic acid binding;P:unknown;C:nucleolus;BOMFPAVO.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
95.599.9GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
76.999.9GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
76.499.9GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
76.099.9GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
73.999.9GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
72.999.9GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
68.899.9GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
63.299.8GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
63.299.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
62.199.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
59.899.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
59.799.8GSM13783Dexamethasone plus cycloheximide - replicateGSE911Identification of LEAFY targets during reproductive transitionLink to GEO
56.599.8GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
56.499.8GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
56.299.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
56.199.8GSM13780CycloheximideGSE911Identification of LEAFY targets during reproductive transitionLink to GEO
56.099.8GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
53.399.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
51.499.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
50.599.8GSM13784Cycloheximide - replicateGSE911Identification of LEAFY targets during reproductive transitionLink to GEO
50.499.8GSM13779Dexamethasone plus cycloheximideGSE911Identification of LEAFY targets during reproductive transitionLink to GEO
47.899.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
47.299.8GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
45.499.8E-MEXP-807-raw-cel-1173273144
44.399.8E-MEXP-807-raw-cel-1173273252
40.399.8GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
30.199.7GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
25.499.6E-MEXP-807-raw-cel-1173272948
25.099.6GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
24.699.6E-MEXP-807-raw-cel-1173273116
22.499.6E-MEXP-807-raw-cel-1173273088
21.799.6E-MEXP-807-raw-cel-1173273170
18.999.5E-MEXP-807-raw-cel-1173273196
17.999.5GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
17.299.5GSM142649MC002_ATH1_A9.3-dubos-aahGSE6151The mechanisms involved in the interplay between dormancy and secondary growth in ArabidopsisLink to GEO
17.299.5GSM131325AtGen_6-3521_Saltstress-Roots-12.0h_Rep1GSE5623AtGenExpress: Stress Treatments (Salt stress)Link to GEO
16.299.5GSM142648MC002_ATH1_A9.2-dubos-aahGSE6151The mechanisms involved in the interplay between dormancy and secondary growth in ArabidopsisLink to GEO
16.099.5GSM142647MC002_ATH1_A9.1-dubos-aahGSE6151The mechanisms involved in the interplay between dormancy and secondary growth in ArabidopsisLink to GEO
14.799.4GSM184517Pericycle root cells 2hr continuous KCl and MSX control treated, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
12.599.3GSM184516Pericycle root cells 2hr continuous KCl and MSX control treated, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
11.599.3GSM184497Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
11.599.3GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
10.899.2GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
10.799.2GSM131329AtGen_6-3621_Saltstress-Roots-24.0h_Rep1GSE5623AtGenExpress: Stress Treatments (Salt stress)Link to GEO
10.699.2GSM131321AtGen_6-3421_Saltstress-Roots-6.0h_Rep1GSE5623AtGenExpress: Stress Treatments (Salt stress)Link to GEO
10.399.2GSM184521Pericycle root cells 2hr continuous KNO3 and MSX treated, biological rep3GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
9.699.1GSM184518Pericycle root cells 2hr continuous KCl and MSX control treated, biological rep3GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
9.399.1GSM131322AtGen_6-3422_Saltstress-Roots-6.0h_Rep2GSE5623AtGenExpress: Stress Treatments (Salt stress)Link to GEO
8.999.0GSM142644MC002_ATH1_A8.1-dubos-aihGSE6151The mechanisms involved in the interplay between dormancy and secondary growth in ArabidopsisLink to GEO
8.999.0E-MEXP-807-raw-cel-1173273060
8.699.0GSM184519Pericycle root cells 2hr continuous KNO3 and MSX treated, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.1671GO:0001510Posttranscriptional addition of a methyl group to either a nucleotide or 2'-O ribose in a polyribonucleotide. Usually uses S-adenosylmethionine as a cofactor.Link to AmiGO
0.1433GO:0006364Any process involved in the conversion of a primary ribosomal RNA (rRNA) transcript into one or more mature rRNA molecules.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.034103018RNA degradationLink 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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