CoP: Co-expressed Biological Processes

Gene omics information

Query gene ID At3g48110

Gene name EDD1 (EMBRYO-DEFECTIVE-DEVELOPMENT 1)

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
0.48 62.5 At3g48110 823966 EDD1 (EMBRYO-DEFECTIVE-DEVELOPMENT 1) glycine-tRNA ligase S.X. H.G.
0.67 81.6 At3g10160 820179 DFC (DHFS-FPGS HOMOLOG C) Encodes a protein with tetrahydrofolylpolyglutamate synthase activity that is located in the mitochondrial matrix. S.X. H.G.
0.50 65.3 At5g35210 833475 peptidase M50 family protein / sterol-regulatory element binding protein (SREBP) site 2 protease family protein F:protein binding, DNA binding, metalloendopeptidase activity, zinc ion binding;P:proteolysis, regulation of transcription, DNA-dependent;C:nucleus, chloroplast envelope;MPOFBA S.X. H.G.
0.44 57.2 At5g16715 831533 EMB2247 (embryo defective 2247) F:valine-tRNA ligase activity, nucleotide binding, aminoacyl-tRNA ligase activity, ATP binding;P:embryonic development ending in seed dormancy, tRNA aminoacylation for protein translation;C:chloroplast stroma, chloroplast;OBMAFP S.X. H.G.
0.43 55.3 At2g41720 818771 EMB2654 (EMBRYO DEFECTIVE 2654) F:unknown;P:embryonic development ending in seed dormancy;C:unknown;POMFBA S.X. H.G.
0.40 50.8 At3g02450 821139 cell division protein ftsH, putative F:in 6 functions;P:unknown;C:integral to membrane, chloroplast;BOMFPAV S.X. H.G.
0.33 38.1 At3g03710 821181 RIF10 (resistant to inhibition with FSM 10) Mutants impaired in the expression of this gene have been selected through their resistance to fosmidomycin, a strong inhibitor of DXR, an enzyme of the methylerythritol-dependent IPP biosynthesis pathway. The pathway enzymes were upregulated in the mutant seedlings. 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
17.5 99.5 GSM131471 ATGE_7_A2 GSE5629 AtGenExpress: Developmental series (seedlings and whole plants)
14.3 99.4 GSM131472 ATGE_7_B2 GSE5629 AtGenExpress: Developmental series (seedlings and whole plants)
13.5 99.4 GSM318621 Apex_mir-3TCP_14DAS_2 GSE12691 Knockdown and overexpression of CIN-TCP genes
11.8 99.3 GSM318619 Apex_Col_14DAS_2 GSE12691 Knockdown and overexpression of CIN-TCP genes
11.5 99.3 GSM318620 Apex_mir-3TCP_14DAS_1 GSE12691 Knockdown and overexpression of CIN-TCP genes
11.1 99.2 GSM131473 ATGE_7_C2 GSE5629 AtGenExpress: Developmental series (seedlings and whole plants)
10.6 99.2 GSM318331 EL_14DAS_2 GSE12676 Arabidopsis thaliana Ler developmental series
9.9 99.1 GSM183511 MYB76_OE_rep1 GSE7570 ATR1_like_Clade_OE_and_miR
9.9 99.1 GSM183514 MYB29_OE_rep2 GSE7570 ATR1_like_Clade_OE_and_miR
9.8 99.1 GSM318618 Apex_Col_14DAS_1 GSE12691 Knockdown and overexpression of CIN-TCP genes
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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 4e-1 38 At5g50280 835093 EMB1006 (embryo defective 1006) F:unknown;P:embryonic development ending in seed dormancy;C:chloroplast;POMFBA C.G. S.X.
0.01 4e-1 38 At3g60530 825224 zinc finger (GATA type) family protein F:transcription factor activity;P:regulation of transcription, DNA-dependent;C:nucleus;PFOM C.G. S.X.
0.01 4e-1 38 At3g60350 825206 armadillo/beta-catenin repeat family protein / F-box family protein ARABIDILLO-2 and its homolog, ARABIDILLO -1, are unique among Arabidopsis Arm-repeat proteins in having an F-box motif and fall into a phylogenetically distinct subgroup from other plant Arm-repeat proteins Similar to arm repeat protein in rice and armadillo/beta-catenin repeat family protein / F-box family protein in Dictyostelium. ARABIDILLO-2 promote lateral root development. Mutant plants form fewer lateral roots, while ARABIDILLO-2-overexpressing lines produce more lateral roots than wild-type seedlings. C.G. S.X.
0.01 2e+0 36 At5g58630 835977 unknown protein F:molecular_function unknown;P:biological_process unknown;C:unknown;OMPF C.G. S.X.
0.01 2e+0 36 At5g60680 836189 unknown protein F:molecular_function unknown;P:biological_process unknown;C:unknown;PM C.G. S.X.
0.01 2e+0 36 At5g66770 836810 scarecrow transcription factor family protein F:transcription factor activity;P:regulation of transcription;C:cellular_component unknown;PMBFO C.G. S.X.
0.01 2e+0 36 At4g35120 829664 kelch repeat-containing F-box family protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPVBOFA C.G. S.X.
0.01 2e+0 36 At3g25500 822136 AFH1 (FORMIN HOMOLOGY 1) Poly-L-proline-containing (PLP) protein that form part of the signal-transduction cascade that leads to rearrangement of the actin cytoskeleton. AFH1 is a nonprocessive formin that moves from the barbered end to the side of an actin filament after the nucleation event. C.G. S.X.
0.01 2e+0 36 At3g51990 824362 protein kinase family protein F:protein serine/threonine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:unknown;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
0.02 1e-5 54 Glycine max Gma.16326.1.S1_at CD401278 - - 4e+0 At5g55893 unknown protein C.G. S.X.
0.01 5e-2 40 Hordeum vulgare HV08I08u_at HV08I08u - - 4e+0 At5g10310 unknown protein C.G. S.X.
0.22 1e-45 186 Oryza sativa Os06g0103600 AK072800.1 - Aminoacyl-t-RNA synthetase precursor 8e-46 At3g48110 EDD1 (EMBRYO-DEFECTIVE-DEVELOPMENT 1) C.G. S.X.
0.07 7e-13 77 Populus trichocarpa PtpAffx.24990.1.A1_at CV235351 - - 1e-13 At3g48110 EDD1 (EMBRYO-DEFECTIVE-DEVELOPMENT 1) C.G. S.X.
0.01 2e+0 36 Triticum aestivum Ta.13960.1.A1_at BQ752812 - - 2e+0 At5g64110 peroxidase, putative C.G. S.X.
0.10 4e-26 119 Vitis vinifera 1613561_at CF513104 hypothetical protein LOC100246137 - 4e-26 At3g48110 EDD1 (EMBRYO-DEFECTIVE-DEVELOPMENT 1) C.G. S.X.
0.01 7e-1 36 Zea mays Zm.12428.1.S1_at CK145039 Growth-regulating factor 4-like - 5e-2 At2g45480 AtGRF9 (GROWTH-REGULATING FACTOR 9) 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
X 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.
X GO:0045995 Any process that modulates the frequency, rate or extent of embryonic development.
C GO:0006426 The process of coupling glycine to glycyl-tRNA, catalyzed by glycyl-tRNA synthetase. In tRNA aminoacylation, the amino acid is first activated by linkage to AMP and then transferred to either the 2'- or the 3'-hydroxyl group of the 3'-adenosine residue of the tRNA.
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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
00067 tRNA-charging-pathway

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
00970 Aminoacyl-tRNA biosynthesis
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