CoP: Co-expressed Biological Processes

Gene omics information

Query gene ID At3g12860

Gene name nucleolar protein Nop56, putative

Organism Arabidopsis thaliana

Co-expressed genes

As this page just shows up to 10 genes to the query, if you wish to have the complete list of co-expressed genes, click Gene/Probe ID.

VF %ile Gene/Probe ID Repr.ID Gene Name Functional Description S.X. H.G. Other DB
1.00 100.0 At3g12860 820468 nucleolar protein Nop56, putative F:unknown;P:biological_process unknown;C:unknown;MOFPBAV S.X. H.G.
0.71 84.2 At3g12270 820407 PRMT3 (PROTEIN ARGININE METHYLTRANSFERASE 3) F:methyltransferase activity, zinc ion binding;P:metabolic process;C:intracellular;MBOFPA S.X. H.G.
0.67 81.6 At4g25340 828637 immunophilin-related / FKBP-type peptidyl-prolyl cis-trans isomerase-related F:FK506 binding, peptidyl-prolyl cis-trans isomerase activity;P:protein folding;C:nucleolus;MOBFPVA S.X. H.G.
0.65 79.6 At1g02370 837735 pentatricopeptide (PPR) repeat-containing protein F:unknown;P:unknown;C:unknown;POMFB S.X. H.G.
0.61 76.7 At5g48240 834877 unknown protein F:molecular_function unknown;P:biological_process unknown;C:nucleolus;MOFPB S.X. H.G.
0.59 74.7 At3g05060 819668 SAR DNA-binding protein, putative SAR DNA-binding protein, putative, strong similarity to SAR DNA-binding protein-1 (Pisum sativum) GI:3132696; contains Pfam profile PF01798: Putative snoRNA binding domain; encodes NOP58-like protein S.X. H.G.
0.58 73.8 At1g13160 837874 SDA1 family protein F:binding;P:biological_process unknown;C:cellular_component unknown;BMOFPVA S.X. H.G.
0.57 73.8 At1g56110 842063 NOP56 (Arabidopsis homolog of nucleolar protein Nop56) NOP56-like protein S.X. H.G.
0.57 73.8 At2g19670 816486 PRMT1A (PROTEIN ARGININE METHYLTRANSFERASE 1A) F:protein-arginine N-methyltransferase activity;P:unknown;C:unknown;MBOPFA S.X. H.G.
0.56 73.0 At2g19385 816457 zinc ion binding F:zinc ion binding;P:biological_process unknown;C:intracellular;MOFPB S.X. H.G.
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Specifically expressed experiments

As this page just shows up to 10 assays to the query, if you wish to have the complete list of assays that the query gene/probe was specifically expressed, click here.
Std2 GX %ile GSM ID Assay Name GSE ID Experiment Title
212.2 100.0 E-MEXP-849-raw-cel-1181981030
157.6 99.9 E-MEXP-849-raw-cel-1181981006
155.4 99.9 GSM133120 RIKEN-YAMAUCHI2B GSE5687 AtGenExpress: Different temperature treatment of seeds
129.7 99.9 GSM133119 RIKEN-YAMAUCHI2A GSE5687 AtGenExpress: Different temperature treatment of seeds
112.8 99.9 E-MEXP-849-raw-cel-1181981046
101.3 99.9 E-MEXP-849-raw-cel-1181981038
93.6 99.9 E-MEXP-849-raw-cel-1181981022
91.6 99.9 GSM133976 Birnbaum_1-6_StageI-3_Rep3_ATH1 GSE5749 A gene expression map of the Arabidopsis root
87.2 99.9 GSM133975 Birnbaum_1-5_StageI-2_Rep2_ATH1 GSE5749 A gene expression map of the Arabidopsis root
81.4 99.9 E-MEXP-849-raw-cel-1181981014
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Homologous genes

Paralogous genes

Click Gene ID to show a list of homologous genes.

HF Ev BS Gene ID Repr. ID Gene Name Functional description C.G. S.X. Other DB
0.69 0 997 At1g56110 842063 NOP56 (Arabidopsis homolog of nucleolar protein Nop56) NOP56-like protein C.G. S.X.
0.05 5e-5 50 At3g12850 820467 COP9 signalosome complex-related / CSN complex-related F:unknown;P:biological_process unknown;C:cellular_component unknown;MPO C.G. S.X.
0.01 5e-2 40 At5g23390 832403 unknown protein F:molecular_function unknown;P:unknown;C:cellular_component unknown;P C.G. S.X.
0.01 5e-2 40 At2g01720 814701 ribophorin I family protein F:oligosaccharyl transferase activity, dolichyl-diphosphooligosaccharide-protein glycotransferase activity;P:protein amino acid glycosylation;C:endoplasmic reticulum, plasma membrane, plant-type cell wall;MFOP C.G. S.X.
0.01 2e-1 38 At2g33190 817880 F-box family protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P C.G. S.X.
0.01 7e-1 36 At5g51770 835251 protein kinase family protein F:protein serine/threonine kinase activity, protein tyrosine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:chloroplast;PMOFBVA C.G. S.X.
0.02 7e-1 36 At5g41960 834201 unknown protein F:molecular_function unknown;P:biological_process unknown;C:chloroplast;P C.G. S.X.
0.01 7e-1 36 At5g27120 832770 SAR DNA-binding protein, putative SAR DNA-binding protein, putative, strong similarity to SAR DNA-binding protein-1 (Pisum sativum) GI:3132696; contains Pfam profile PF01798: Putative snoRNA binding domain; has similarity to MAR binding NOP58 protein C.G. S.X.
0.01 7e-1 36 At4g18780 827612 IRX1 (IRREGULAR XYLEM 1) Encodes a member of the cellulose synthase family involved in secondary cell wall biosynthesis. Mutants have abnormal xylem formation, reduced cellulose content, and enhanced drought and osmotic stress tolerance. Mediates resistance towards bacterial pathogens via ABA. Confers resistance towards bacterial and fungal pathogens, independent of salicylic acid, ethylene and jasmonate signaling. C.G. S.X.
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Orthologous genes

Click Gene ID to show a list of orthologous genes.

HF Ev BS Species Gene ID Repr. ID Gene Name Functional description Ev AGI code Arabidopsis gene name C.G. S.X. Other DB
0.29 2e-29 131 Glycine max Gma.2258.2.S1_a_at BG237280 - - 1e-29 At3g12860 nucleolar protein Nop56, putative C.G. S.X.
0.35 5e-31 135 Hordeum vulgare Contig3757_at Contig3757 - - 1e-30 At3g12860 nucleolar protein Nop56, putative C.G. S.X.
0.25 2e-33 145 Oryza sativa Os07g0661800 AK107041.1 - Nucleolar protein 8e-26 At3g12860 nucleolar protein Nop56, putative C.G. S.X.
0.64 4e-80 299 Populus trichocarpa PtpAffx.212858.1.S1_x_at pmrna25162 hypothetical protein - 3e-80 At3g12860 nucleolar protein Nop56, putative C.G. S.X.
0.32 3e-31 137 Triticum aestivum Ta.9201.2.S1_x_at CK211090 - - 4e-31 At3g12860 nucleolar protein Nop56, putative C.G. S.X.
0.17 4e-46 184 Vitis vinifera 1614048_at CF514124 hypothetical protein LOC100267928 - 1e-45 At3g12860 nucleolar protein Nop56, putative C.G. S.X.
0.19 5e-31 135 Zea mays Zm.7010.1.A1_a_at CF049770 nucleolar protein Nop56 - 1e-30 At3g12860 nucleolar protein Nop56, putative C.G. S.X.
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Biological processes

Click GO ID to show a list of genes that are associated with the GO ID.

ECC GO ID Process Name
N GO:0008150 Any process specifically pertinent to the functioning of integrated living units: cells, tissues, organs, and organisms. A process is a collection of molecular events with a defined beginning and end.
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Metabolic pathways

Click KaPPA-View ID to show a list of genes that are assigned to the KaPPA-View ID.

KaPPA-View ID Link to Kappa-View Pathway Name

Click KEGG PATHWAY ID to show a list of genes that are assigned to the KEGG PATHWAY ID.

KEGG PATHWAY ID Link to KEGG PATHWAY Pathway Name
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