CoP: Co-expressed Biological Processes

Gene omics information

Query gene ID At5g63420

Gene name emb2746 (embryo defective 2746)

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 At5g63420 836461 emb2746 (embryo defective 2746) F:hydrolase activity, DNA binding, catalytic activity;P:embryonic development ending in seed dormancy, metabolic process;C:chloroplast;OBMAPFV S.X. H.G.
0.70 83.5 At1g79560 844294 FTSH12 (FTSH PROTEASE 12) encodes an FtsH protease that is localized to the chloroplast S.X. H.G.
0.64 78.9 At3g48500 824009 RNA binding F:RNA binding;P:unknown;C:plastid chromosome, chloroplast, nucleoid;POVMFB S.X. H.G.
0.64 78.9 At1g63680 842672 MURE Encodes AtMurE, a homolog of the bacterial MurE that catalyze the ATP-dependent formation of UDP-N-acetylmuramic acid-tripeptide in bacterial peptidoglycan biosynthesis. Localized to plastids. AtMurE is involved in chloroplast biogenesis. S.X. H.G.
0.60 75.7 At2g34640 818029 PTAC12 (PLASTID TRANSCRIPTIONALLY ACTIVE12) Present in transcriptionally active plastid chromosomes. Involved in plastid gene expression. S.X. H.G.
0.59 74.7 At1g69200 843251 kinase F:kinase activity;P:acetate fermentation, sucrose biosynthetic process, sucrose catabolic process, using beta-fructofuranosidase;C:nucleoid;BOPAMF S.X. H.G.
0.58 73.8 At3g04260 819581 PTAC3 (PLASTID TRANSCRIPTIONALLY ACTIVE3) F:DNA binding, nucleic acid binding;P:unknown;C:plastid chromosome, nucleus, chloroplast, nucleoid, membrane;MOPFBVA S.X. H.G.
0.56 73.0 At3g16290 820876 EMB2083 (embryo defective 2083) F:in 8 functions;P:embryonic development ending in seed dormancy;C:chloroplast, chloroplast envelope;OBMFPAV S.X. H.G.
0.56 73.0 At1g06950 837205 TIC110 (TRANSLOCON AT THE INNER ENVELOPE MEMBRANE OF CHLOROPLASTS 110) Encodes a protein thought to be a part of the translocon at the chloroplast inner envelope. Involved in protein import into the chloroplast and chloroplast biogenesis. S.X. H.G.
0.54 69.5 At5g64580 836579 AAA-type ATPase family protein F:nucleoside-triphosphatase activity, metalloendopeptidase activity, nucleotide binding, zinc ion binding, ATP binding;P:unknown;C:chloroplast, chloroplast envelope;BOMFPAV 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
34.7 99.7 GSM284390 Arabidopsis GPE2 GSE11262 Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
32.2 99.7 GSM133307 RIKEN-NAKABAYASHI3A GSE5700 AtGenExpress: Effect of ABA during seed imbibition
26.7 99.7 GSM143300 Ts_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
22.9 99.6 GSM143302 Ts_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
22.3 99.6 GSM253648 Col-0-1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
22.2 99.6 GSM253646 Low_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
21.9 99.6 GSM131471 ATGE_7_A2 GSE5629 AtGenExpress: Developmental series (seedlings and whole plants)
21.0 99.6 GSM284391 Arabidopsis GPE3 GSE11262 Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
19.9 99.6 GSM253652 Ler 2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
19.1 99.6 GSM133306 RIKEN-NAKABAYASHI2B GSE5700 AtGenExpress: Effect of ABA during seed imbibition
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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
0.01 9e-2 40 At5g42030 834208 ABIL4 (ABL INTERACTOR-LIKE PROTEIN 4) F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P C.G. S.X.
0.01 3e-1 38 At5g26150 832684 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:cellular_component unknown;MPOBFVA C.G. S.X.
0.01 3e-1 38 At1g19025 838484 DNA cross-link repair protein-related F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFBOPA C.G. S.X.
0.01 1e+0 36 At5g64940 836618 ATATH13 Encodes a member of ATH subfamily of ATP-binding cassette (ABC) proteins. C.G. S.X.
0.01 1e+0 36 At4g19900 827735 glycosyl transferase-related F:transferase activity, transferring glycosyl groups;P:biological_process unknown;C:mitochondrion, Golgi stack;POMFBA C.G. S.X.
0.01 1e+0 36 At4g28210 828936 emb1923 (embryo defective 1923) F:molecular_function unknown;P:embryonic development ending in seed dormancy;C:chloroplast;P C.G. S.X.
0.01 1e+0 36 At1g09970 837531 LRR XI-23 F:protein serine/threonine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid autophosphorylation, transmembrane receptor protein tyrosine kinase signaling pathway, protein amino acid phosphorylation;C:plasma membrane;MPOBFVA 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
0.17 2e-31 139 Glycine max GmaAffx.87620.1.S1_at BQ273464 - - 2e-32 At5g63420 emb2746 (embryo defective 2746) C.G. S.X.
0.03 4e-5 50 Hordeum vulgare Contig13094_s_at Contig13094 - - 6e+0 At5g52750 heavy-metal-associated domain-containing protein C.G. S.X.
0.10 1e-11 73 Oryza sativa Os02g0539600 AK059666.1 - Myb, DNA-binding domain containing protein 3e-12 At5g63420 emb2746 (embryo defective 2746) C.G. S.X.
0.36 1e-93 345 Populus trichocarpa PtpAffx.212864.1.S1_at pmrna25170 hypothetical protein - 5e-94 At5g63420 emb2746 (embryo defective 2746) C.G. S.X.
0.05 6e-3 44 Triticum aestivum Ta.27220.1.S1_at BT009374.1 - - 3e-3 At5g63420 emb2746 (embryo defective 2746) C.G. S.X.
0.02 4e-1 36 Vitis vinifera 1610639_at CF206618.1 - - 8e-33 At3g54660 GR (GLUTATHIONE REDUCTASE) C.G. S.X.
0.20 2e-10 67 Zea mays Zm.13112.1.A1_at AY110231.1 - - 3e-10 At5g63420 emb2746 (embryo defective 2746) 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:0008152 The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.
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
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