Co-expression analysis

Gene ID At1g55060
Gene name UBQ12 (UBIQUITIN 12)
Module size 30 genes
NF 0.54
%ile 75.9



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
0.7989.11.00At1g55060841949UBQ12 (UBIQUITIN 12)Ubiquitin-like gene, believed to be a pseudogene because of amino acid substitutions in 3 of the 5 ubiquitin repeats found in the UBQ12 gene productO.I.H.G.S.X.
0.8190.40.86At4g29710829092phosphodiesterase/nucleotide pyrophosphatase-relatedF:catalytic activity;P:metabolic process;C:cellular_component unknown;MBFPOVO.I.H.G.S.X.
0.7687.40.86At3g01580821107pentatricopeptide (PPR) repeat-containing proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POFMO.I.H.G.S.X.
0.7184.20.89At3g49440824106F-box family protein-relatedF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.7083.50.85At2g07728815401unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.6781.60.87At1g34140840313PAB1 (POLY(A) BINDING PROTEIN 1)polyadenylate-binding protein, putative / PABP, putative, non-consensus splice donor TA at exon 1; similar to polyadenylate-binding protein (poly(A)-binding protein) from (Triticum aestivum) GI:1737492, (Nicotiana tabacum) GI:7673355, {Arabidopsis thaliana} SP:P42731; contains InterPro entry IPR000504: RNA-binding region RNP-1 (RNA recognition motif) (RRM). Only member of the class IV PABP family.O.I.H.G.S.X.
0.6680.10.87At2g07713815387unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;PO.I.H.G.S.X.
0.6478.90.87At5g37030833673tRNA-splicing endonuclease positive effector-relatedF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MBOFPAVO.I.H.G.S.X.
0.6378.10.85At1g350503766928transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.5773.80.85At3g47240823877transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.5673.00.87At1g18310838411glycosyl hydrolase family 81 proteinF:hydrolase activity, acting on glycosyl bonds, endo-1,3(4)-beta-glucanase activity;P:cell wall macromolecule catabolic process;C:unknown;FOBPMO.I.H.G.S.X.
0.5570.60.86At1g370603767055transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.5570.60.86At3g429003769508transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.5469.50.86At2g19420816461unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.5368.60.84At1g49100841333leucine-rich repeat protein kinase, putativeF:kinase activity;P:protein amino acid phosphorylation;C:endomembrane system;PMOBFVAO.I.H.G.S.X.
0.5368.60.87At2g076853768050transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.5267.40.86At1g349043766926transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.5267.40.86At4g19770827721glycosyl hydrolase family 18 proteinF:cation binding, hydrolase activity, hydrolyzing O-glycosyl compounds, chitinase activity, catalytic activity;P:carbohydrate metabolic process;C:cellular_component unknown;MBFOVPAO.I.H.G.S.X.
0.5065.30.87At5g65330836658AGL78 (AGAMOUS-LIKE 78)F:transcription factor activity;P:regulation of transcription, DNA-dependent;C:nucleus;POFMO.I.H.G.S.X.
0.4963.50.87At1g57906842163-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.4963.50.87At4g073603770409transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.4862.50.87At3g43470823432nucleic acid binding / zinc ion bindingF:zinc ion binding, nucleic acid binding;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.4761.20.85At2g07738815411unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.4761.20.87At2g111803768078transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.4659.80.86At2g077363768150transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.4558.30.86At2g07691815367unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.4457.20.85At3g45570823699zinc finger (C3HC4-type RING finger) family proteinF:protein binding, zinc ion binding;P:unknown;C:unknown;MPOFVO.I.H.G.S.X.
0.4355.30.86At2g116503767819transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.4355.30.85At1g19460838530kelch repeat-containing F-box family proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMBVOAFO.I.H.G.S.X.
0.3643.60.85At3g55650824731pyruvate kinase, putativeF:pyruvate kinase activity, potassium ion binding, magnesium ion binding, catalytic activity;P:glycolysis;C:mitochondrion;BOMPFAO.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
97.599.9GSM133757Lindsey_1-8_heart-stage-cotyledon_Rep2_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
56.199.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
54.499.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
52.699.8GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
52.699.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
52.499.8GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
51.299.8E-MEXP-807-raw-cel-1173273196
49.699.8GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
46.999.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
46.799.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
44.499.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
44.099.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
41.499.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
41.199.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
41.199.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
40.099.8E-MEXP-509-raw-cel-829148561
39.399.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
36.899.7GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
35.599.7GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
34.599.7GSM184478Lateral Root Cap root cells 2hr KCl control treated, biological rep3GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
33.099.7E-MEXP-807-raw-cel-1173273088
31.899.7GSM184477Lateral Root Cap root cells 2hr KCl control treated, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
30.999.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
29.199.7GSM184483Lateral Root Cap root cells 2hr continuous KNO3 treated, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
29.099.7GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
28.299.7GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
28.099.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
27.399.7GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
27.299.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
26.699.7GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
25.799.7GSM133775Lindsey_1-27_torpedo-meristem_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
24.299.6GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
23.499.6GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
23.399.6GSM184904Arabidopsis, root cells, protophloem, standard conditions, replicate 1GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
22.999.6GSM133303RIKEN-NAKABAYASHI1AGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO
22.699.6E-MEXP-509-raw-cel-829148348
21.899.6GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
19.299.6E-MEXP-807-raw-cel-1173273116
19.199.6E-MEXP-509-raw-cel-829148525
18.799.5GSM184923Arabidopsis, root cells, protophloem, 140 mM NaCl, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
18.699.5E-MEXP-807-raw-cel-1173273170
17.999.5E-MEXP-509-raw-cel-829148597
17.999.5GSM184905Arabidopsis, root cells, protophloem, standard conditions, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
17.399.5E-MEXP-509-raw-cel-829148456
17.399.5GSM142737DH001_ATH1_A4-UNM2GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
17.099.5E-MEXP-509-raw-cel-829148420
16.099.5GSM133304RIKEN-NAKABAYASHI1BGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO
15.599.5GSM142734DH001_ATH1_A1-UNM1GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
15.299.4GSM131703ATGE_83_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
15.099.4GSM131705ATGE_83_CGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
14.599.4GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
14.499.4GSM184906Arabidopsis, root cells, protophloem, standard conditions, replicate 3GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
14.299.4GSM131704ATGE_83_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
13.999.4E-MEXP-509-raw-cel-829148201
13.899.4GSM142735DH001_ATH1_A2-BCP1GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
13.799.4GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
13.499.4GSM184480Lateral Root Cap root cells 2hr transitory KNO3 treated, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
13.299.4GSM131706ATGE_84_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
12.999.3GSM142738DH001_ATH1_A5-BCP2GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
12.299.3GSM131702ATGE_82_CGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
11.899.3E-MEXP-807-raw-cel-1173273223
11.599.3GSM131708ATGE_84_DGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
10.999.2GSM142902WW001_ATH1_A1-WILLA-CONGSE6181Assembly of the cell wall pectic matrix.Link to GEO
10.899.2E-MEXP-509-raw-cel-829148492
10.899.2E-MEXP-509-raw-cel-829148129
10.699.2GSM131707ATGE_84_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
10.699.2GSM131700ATGE_82_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
10.499.2GSM176876AWP_AL_Txed_1GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO
10.399.2E-MEXP-509-raw-cel-829148632
9.999.1GSM131701ATGE_82_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
8.899.0E-MEXP-509-raw-cel-829148165
8.799.0E-MEXP-807-raw-cel-1173273060
8.699.0GSM142904WW002_ATH1_A1-willa-CON-REP2GSE6181Assembly of the cell wall pectic matrix.Link to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0361GO:0016998The chemical reactions and pathways resulting in the breakdown of macromolecules that form part of a cell wall.Link to AmiGO
0.0261GO:0006096The chemical reactions and pathways resulting in the breakdown of a monosaccharide (generally glucose) into pyruvate, with the concomitant production of a small amount of ATP. Pyruvate may be converted to ethanol, lactate, or other small molecules, or fed into the TCA cycle.Link to AmiGO
0.0151GO:0006464The covalent alteration of one or more amino acids occurring in proteins, peptides and nascent polypeptides (co-translational, post-translational modifications). Includes the modification of charged tRNAs that are destined to occur in a protein (pre-translation modification).Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.021100620Pyruvate metabolismLink to KEGG PATHWAY
0.019100710Carbon fixation in photosynthetic organismsLink to KEGG PATHWAY
0.017100010Glycolysis / GluconeogenesisLink 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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