CoP: Co-expressed Biological Processes

Gene omics information

Query gene ID At4g17090

Gene name CT-BMY (CHLOROPLAST BETA-AMYLASE)

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 At4g17090 827419 CT-BMY (CHLOROPLAST BETA-AMYLASE) Encodes a beta-amylase targeted to the chloroplast. Transgenic BMY8 RNAi lines fail to accumulate maltose during cold shock suggesting that maltose accumulation coincides with BMY8 expression. Apart from maltose, the sugar content of the RNAi lines were similar to wildtype (glucose and sucrose unaffected). S.X. H.G.
0.41 52.4 At4g18810 827615 binding / catalytic/ transcription repressor F:transcription repressor activity, binding, catalytic activity;P:regulation of nitrogen utilization, metabolic process;C:chloroplast, vacuole;BOPFAM S.X. H.G.
0.40 50.8 At4g39800 830139 MIPS1 (MYO-INOSITOL-1-PHOSTPATE SYNTHASE 1) ** Referred to as MIPS2 in Mitsuhashi et al 2008. myo-inositol-1-phosphate synthase isoform 1.Expressed in leaf, root and silique. Immunolocaliazation experiments with an antibody recognizing MIPS1, MIPS2, and MIPS3 showed endosperm localization. S.X. H.G.
0.36 43.6 At3g24190 822005 ABC1 family protein F:protein kinase activity, ATP binding;P:protein amino acid phosphorylation;C:chloroplast;OBMPFAV S.X. H.G.
0.34 39.8 At3g25690 822157 CHUP1 (CHLOROPLAST UNUSUAL POSITIONING 1) actin binding protein required for normal chloroplast positioning S.X. H.G.
0.31 33.8 At1g62750 842573 SCO1 (SNOWY COTYLEDON 1) Nuclear encoded protein consists of the five domains conserved in EF-G proteins, with two GTP-binding sites in the first domain, and an additional transit peptide at the N-terminus. Localized in chloroplasts. Point mutation results in a delay in the onset of germination. At early developmental stage embryos still contain undifferentiated proplastids. The greening of cotyledons is severely impaired in light-grown mutant sco1 seedlings, whereas the following true leaves develop normally as in wild-type plants. S.X. H.G.
0.31 33.8 At1g01790 837332 KEA1 (K EFFLUX ANTIPORTER 1) K efflux antiporter KEA1 S.X. H.G.
0.31 33.8 At1g07010 837211 calcineurin-like phosphoesterase family protein F:hydrolase activity, protein serine/threonine phosphatase activity;P:biological_process unknown;C:peroxisome;OBPFAV S.X. H.G.
0.31 33.8 At5g10470 830911 kinesin motor protein-related F:microtubule motor activity, ATP binding;P:microtubule-based movement;C:plasma membrane, membrane, chloroplast envelope;MOFPBAV S.X. H.G.
0.31 33.8 At5g42310 834236 pentatricopeptide (PPR) repeat-containing protein F:unknown;P:unknown;C:chloroplast;POMFBA 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
87.8 99.9 GSM128794 Zarka_1-6_MT-WT24HB_Rep2_ATH1 GSE5534 Response to cold, plate grown plants
67.6 99.9 E-MEXP-1345-raw-cel-1559561229
67.2 99.8 E-MEXP-1345-raw-cel-1559561259
59.5 99.8 E-MEXP-1345-raw-cel-1559561289
53.4 99.8 GSM131279 AtGen_6-1611_Cold(4°C)-Shoots-24.0h_Rep1 GSE5621 AtGenExpress: Stress Treatments (Cold stress)
49.3 99.8 GSM131280 AtGen_6-1612_Cold(4°C)-Shoots-24.0h_Rep2 GSE5621 AtGenExpress: Stress Treatments (Cold stress)
48.0 99.8 GSM128802 Zarka_2-6_MT-24HCB(SOIL)_Rep2_ATH1 GSE5535 Response to cold, soil grown plants
46.4 99.8 GSM131275 AtGen_6-1511_Cold(4°C)-Shoots-12.0h_Rep1 GSE5621 AtGenExpress: Stress Treatments (Cold stress)
43.5 99.8 GSM131276 AtGen_6-1512_Cold(4°C)-Shoots-12.0h_Rep2 GSE5621 AtGenExpress: Stress Treatments (Cold stress)
42.6 99.8 GSM128801 Zarka_2-5_MT-24HCA(SOIL)_Rep1_ATH1 GSE5535 Response to cold, soil grown plants
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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-4 46 At2g45880 819196 BAM7 (BETA-AMYLASE 7) F:cation binding, beta-amylase activity, catalytic activity;P:cellulose biosynthetic process, carbohydrate metabolic process, polysaccharide catabolic process;C:cellular_component unknown;PBOF C.G. S.X.
0.01 2e-1 38 At5g18670 831985 BMY3 putative beta-amylase BMY3 (BMY3) C.G. S.X.
0.01 2e-1 38 At3g13450 820547 DIN4 (DARK INDUCIBLE 4) branched chain alpha-keto acid dehydrogenase E1 beta C.G. S.X.
0.06 2e-1 38 At3g23920 821975 BAM1 (BETA-AMYLASE 1) Encodes a chloroplast beta-amylase. Is necessary for leaf starch breakdown in the absence of BAM3. C.G. S.X.
0.01 2e-1 38 At2g36490 818224 DML1 (DEMETER-LIKE 1) A repressor of transcriptional gene silencing. Functions by demethylating the target promoter DNA. Interacts physically with RPA2/ROR1. In the ros1 mutants, an increase in methylation is observed in a number of gene promoters. Among the loci affected by ros1, a few (RD29A and At1g76930) are affected in cytosine methylation in all sequence contexts (CpG, CpNpG or CpNpN), although many others are affected primarily in non-CpG contexts. C.G. S.X.
0.01 2e-1 38 At2g41290 818728 strictosidine synthase family protein F:strictosidine synthase activity;P:alkaloid biosynthetic process, biosynthetic process;C:endomembrane system;PMBOFA C.G. S.X.
0.01 8e-1 36 At4g23950 828495 - F:molecular_function unknown;P:biological_process unknown;C:anchored to plasma membrane;OMFBP C.G. S.X.
0.01 8e-1 36 At4g32420 829377 peptidyl-prolyl cis-trans isomerase cyclophilin-type family protein F:peptidyl-prolyl cis-trans isomerase activity;P:protein folding;C:unknown;MOBFPVA 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
0.37 2e-20 101 Glycine max Gma.16670.1.S1_at AW350266 beta-amylase - 2e-20 At4g17090 CT-BMY (CHLOROPLAST BETA-AMYLASE) C.G. S.X.
0.10 1e-7 57 Hordeum vulgare Contig8246_at Contig8246 - - 2e-7 At4g17090 CT-BMY (CHLOROPLAST BETA-AMYLASE) C.G. S.X.
0.08 5e-10 67 Oryza sativa Os03g0141200 AK068968.1 - Glycoside hydrolase, family 14B, plant protein 3e-10 At4g17090 CT-BMY (CHLOROPLAST BETA-AMYLASE) C.G. S.X.
0.49 2e-73 278 Populus trichocarpa Ptp.5279.1.S1_at BU808930 hypothetical protein - 9e-74 At4g17090 CT-BMY (CHLOROPLAST BETA-AMYLASE) C.G. S.X.
0.09 2e-7 57 Triticum aestivum Ta.4494.1.S1_x_at BE516748 - - 2e-7 At4g17090 CT-BMY (CHLOROPLAST BETA-AMYLASE) C.G. S.X.
0.44 2e-51 202 Vitis vinifera 1616107_s_at CB340793 hypothetical protein LOC100247246 - 5e-51 At4g17090 CT-BMY (CHLOROPLAST BETA-AMYLASE) C.G. S.X.
0.06 9e-2 38 Zea mays Zm.3883.1.S1_at AY105500.1 beta-amylase - 2e-1 At4g17090 CT-BMY (CHLOROPLAST BETA-AMYLASE) 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:0009409 A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a cold stimulus, a temperature stimulus below the optimal temperature for that organism.
X GO:0000024 The chemical reactions and pathways resulting in the formation of the disaccharide maltose (4-O-alpha-D-glucopyranosyl-D-glucopyranose).
X GO:0005983 The chemical reactions and pathways resulting in the breakdown of starch, the most important reserve polysaccharide in plants.
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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
00005 Starch and maltose degradation

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
00500 Starch and sucrose metabolism
01100 Metabolic pathways
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