CoP: Co-expressed Biological Processes

Gene omics information

Query gene ID At3g48930

Gene name EMB1080 (embryo defective 1080)

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 At3g48930 824054 EMB1080 (embryo defective 1080) F:structural constituent of ribosome;P:embryonic development ending in seed dormancy, translation;C:cytosolic small ribosomal subunit, cytosolic ribosome, cell wall, membrane;MOBAFP S.X. H.G.
0.87 93.5 At5g47930 834844 40S ribosomal protein S27 (RPS27D) F:structural constituent of ribosome;P:translation, ribosome biogenesis;C:cytosolic small ribosomal subunit, cytosolic ribosome, ribosome, plasma membrane;MOPFA S.X. H.G.
0.82 90.9 At2g36160 818188 40S ribosomal protein S14 (RPS14A) F:structural constituent of ribosome;P:translation;C:cytosolic small ribosomal subunit, cytosolic ribosome, plasma membrane, chloroplast, membrane;BOPMAF S.X. H.G.
0.82 90.9 At5g27850 832848 60S ribosomal protein L18 (RPL18C) F:structural constituent of ribosome;P:translation;C:cytosolic ribosome, cytosolic large ribosomal subunit, vacuole, large ribosomal subunit, membrane;MOFPA S.X. H.G.
0.81 90.4 At1g08360 837356 60S ribosomal protein L10A (RPL10aA) F:structural constituent of ribosome, RNA binding;P:translation, RNA processing;C:cytosolic ribosome, cytosolic large ribosomal subunit, ribosome, plasma membrane;BOMPAF S.X. H.G.
0.81 90.4 At1g69620 843298 RPL34 (RIBOSOMAL PROTEIN L34) putative 60S ribosomal protein L34 S.X. H.G.
0.80 89.8 At2g27720 817318 60S acidic ribosomal protein P2 (RPP2A) F:structural constituent of ribosome;P:translational elongation, response to cold;C:cytosol, cytosolic ribosome, ribosome, nucleus, membrane;MFPOA S.X. H.G.
0.80 89.8 At1g04270 839564 RPS15 (CYTOSOLIC RIBOSOMAL PROTEIN S15) Encodes cytosolic ribosomal protein S15. S.X. H.G.
0.80 89.8 At3g23390 821920 60S ribosomal protein L36a/L44 (RPL36aA) F:structural constituent of ribosome;P:translation;C:cytosolic large ribosomal subunit, ribosome;MOFAPB S.X. H.G.
0.80 89.8 At1g67430 843063 60S ribosomal protein L17 (RPL17B) F:structural constituent of ribosome;P:translation;C:in 6 components;MOBAFP 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
25.1 99.6 GSM133761 Lindsey_1-13_torpedo-cotyledon_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
11.4 99.3 GSM218589 Protoplasted root cells 2hr transitory KNO3 treated, biological rep2 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
9.8 99.1 GSM252663 Arabidopsis Root from tip to 130 mm proximal to tip (cut 4dpg) rep1 GSE9996 Organ regeneration in plants is independent of stem cell niche activity
9.7 99.1 GSM184532 Protoplasted root cells 2hr KCl control treated, biological rep2 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
9.6 99.1 GSM184535 Protoplasted root cells 2hr continuous KNO3 treated, biological rep2 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
9.1 99.1 GSM252673 Regenerating Stump of Root Tip Cut at 130 mm first and then Recut after 5 hrs Taking 70 mm of Stump (4dpg) rep3 GSE9996 Organ regeneration in plants is independent of stem cell niche activity
9.1 99.1 GSM184552 Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep2 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
9.0 99.1 GSM252683 Regenerating Stump of Root Tip Cut at 130 mm first and then Recut after 22 hrs Taking 70 mm of Stump (4dpg) rep5 GSE9996 Organ regeneration in plants is independent of stem cell niche activity
8.3 99.0 GSM252664 Arabidopsis Root from tip to 130 mm proximal to tip (cut 4dpg) rep2 GSE9996 Organ regeneration in plants is independent of stem cell niche activity
7.9 98.9 GSM252669 Regenerating Stump of Root Tip Cut at 130 mm first and then Recut after 0 hrs Taking 70 mm of Stump (4dpg) rep3 GSE9996 Organ regeneration in plants is independent of stem cell niche activity
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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
0.82 2e-146 517 At5g23740 832439 RPS11-BETA (RIBOSOMAL PROTEIN S11-BETA) Encodes a putative ribosomal protein S11 (RPS11-beta). C.G. S.X.
0.73 1e-64 246 At4g30800 829203 40S ribosomal protein S11 (RPS11B) F:structural constituent of ribosome;P:translation;C:cytosolic small ribosomal subunit;MOBAFP C.G. S.X.
0.02 2e-1 36 At5g60580 836179 zinc finger (C3HC4-type RING finger) family protein F:protein binding, zinc ion binding;P:biological_process unknown;C:cellular_component unknown;OMPFVB C.G. S.X.
0.01 2e-1 36 At4g23270 828426 protein kinase family protein F:protein serine/threonine kinase activity, protein tyrosine kinase activity, protein kinase activity, ATP binding;P:protein amino acid phosphorylation;C:plasma membrane;MPOBFVA C.G. S.X.
0.01 9e-1 34 At5g39960 833993 GTP-binding family protein F:GTP binding;P:unknown;C:intracellular;BOMFPA 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
0.63 2e-48 192 Glycine max GmaAffx.92522.1.S1_at CF808247 Ribosomal protein S11 mRNA, 3' end - 1e-24 At5g23740 RPS11-BETA (RIBOSOMAL PROTEIN S11-BETA) C.G. S.X.
0.40 1e-35 149 Hordeum vulgare Contig14638_at Contig14638 - - 4e-35 At4g30800 40S ribosomal protein S11 (RPS11B) C.G. S.X.
0.55 2e-68 260 Oryza sativa Os.12042.1.S1_at - - - 0 C.G. S.X.
0.55 2e-89 329 Populus trichocarpa Ptp.5621.1.S1_s_at CV231534 hypothetical protein - 2e-89 At3g48930 EMB1080 (embryo defective 1080) C.G. S.X.
0.44 3e-28 125 Triticum aestivum TaAffx.112443.2.S1_at CA627380 - - 4e-28 At3g48930 EMB1080 (embryo defective 1080) C.G. S.X.
0.52 2e-51 200 Vitis vinifera 1609509_at CF206236.1 - - 1e-50 At3g48930 EMB1080 (embryo defective 1080) C.G. S.X.
0.55 9e-67 252 Zea mays Zm.2157.7.S1_at CF019402 ribosomal protein S11 - 1e-38 At4g30800 40S ribosomal protein S11 (RPS11B) 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
C GO:0006412 The cellular metabolic process by which a protein is formed, using the sequence of a mature mRNA molecule to specify the sequence of amino acids in a polypeptide chain. Translation is mediated by the ribosome, and begins with the formation of a ternary complex between aminoacylated initiator methionine tRNA, GTP, and initiation factor 2, which subsequently associates with the small subunit of the ribosome and an mRNA. Translation ends with the release of a polypeptide chain from the ribosome.
N GO:0009793 The process whose specific outcome is the progression of the embryo over time, from zygote formation to the end of seed dormancy. An example of this process is found in Arabidopsis thaliana.
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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
03010 Ribosome
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