CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID Zm.1140.1.S1_at

Gene name hypothetical protein LOC100279272
Homology with Arabidopsis Similar to At3g49670: BAM2 (BARELY ANY MERISTEM 2) (HF=4e-14)

Module size 6 genes

NF 0.33

%ile 32.2

Co-expressed genes

Click gene/probe ID to show a list of genes that are co-expressed with the gene.

VF %ile CC Gene ID Repr. ID Gene name Func. Ev AGI code Arabidopsis gene name O.I. H.G. S.X. Other DB
0.57 75.1 0.82 Zm.1140.1.S1_at BM073428 hypothetical protein LOC100279272 - 4e-14 At3g49670 BAM2 (BARELY ANY MERISTEM 2) O.I. H.G. S.X.
0.73 89.9 0.81 Zm.3132.1.A1_at BE512386 hypothetical protein LOC100273996 - 1e-7 At3g02510 regulator of chromosome condensation (RCC1) family protein O.I. H.G. S.X.
0.67 85.8 0.81 Zm.18381.1.A1_s_at CO523274 Hypothetical protein LOC100216796 - 4e-1 At3g03720 CAT4 (CATIONIC AMINO ACID TRANSPORTER 4) O.I. H.G. S.X.
0.55 71.6 0.83 ZmAffx.1187.1.A1_at BE012211 - - 3e+0 At4g29033 - O.I. H.G. S.X.
0.55 71.6 0.86 ZmAffx.160.1.A1_at AI668152 - - 8e-1 At4g24380 unknown protein O.I. H.G. S.X.
0.06 2.3 0.82 Zm.782.1.A1_at CA404412 hypothetical protein LOC100273031 - 4e-30 At2g27680 aldo/keto reductase family protein O.I. H.G. S.X.

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Specific experiments for the module

Std2 GX %ile GSM ID Assay name GSE ID Experiment title Link to GEO
10.3 98.4 GSM320450 protocol: Cot filtration (CF) - genotype: Mo17 maize inbred - rep1 GSE12770 Evaluation of Target Preparation Methods for Single-Feature Polymorphism Detection in Large Complex Plant Genomes
9.2 98.2 GSM320455 protocol: Cot filtration (CF) - genotype: CML69 maize inbred - rep3 GSE12770 Evaluation of Target Preparation Methods for Single-Feature Polymorphism Detection in Large Complex Plant Genomes
9.2 98.2 GSM320451 protocol: Cot filtration (CF) - genotype: Mo17 maize inbred - rep2 GSE12770 Evaluation of Target Preparation Methods for Single-Feature Polymorphism Detection in Large Complex Plant Genomes
8.6 98.1 GSM320452 protocol: Cot filtration (CF) - genotype: Mo17 maize inbred - rep3 GSE12770 Evaluation of Target Preparation Methods for Single-Feature Polymorphism Detection in Large Complex Plant Genomes
8.5 98.1 GSM320453 protocol: Cot filtration (CF) - genotype: CML69 maize inbred - rep1 GSE12770 Evaluation of Target Preparation Methods for Single-Feature Polymorphism Detection in Large Complex Plant Genomes
7.8 97.9 GSM320454 protocol: Cot filtration (CF) - genotype: CML69 maize inbred - rep2 GSE12770 Evaluation of Target Preparation Methods for Single-Feature Polymorphism Detection in Large Complex Plant Genomes
7.5 97.8 GSM320447 protocol: Cot filtration (CF) - genotype: B73 maize inbred - rep1 GSE12770 Evaluation of Target Preparation Methods for Single-Feature Polymorphism Detection in Large Complex Plant Genomes
7.2 97.8 GSM320448 protocol: Cot filtration (CF) - genotype: B73 maize inbred - rep2 GSE12770 Evaluation of Target Preparation Methods for Single-Feature Polymorphism Detection in Large Complex Plant Genomes
7.0 97.7 GSM320449 protocol: Cot filtration (CF) - genotype: B73 maize inbred - rep3 GSE12770 Evaluation of Target Preparation Methods for Single-Feature Polymorphism Detection in Large Complex Plant Genomes
2.7 93.2 GSM202290 Mo17 immature ear tissue, biological replicate 1 GSE8176 Cis-transcriptional variation in maize inbred lines B73 and Mo17 leads to additive expression - Immature ear data

Inter-species module comparison

A co-expression module including the Arabidopsis gene, At3g49670, orthologous to the query gene, Zm.1140.1.S1_at

VF %ile Gene ID Repr. ID Gene Name Func. O.I. H.G. S.X. Other DB
0.33 38.1 At3g49670 824129 BAM2 (BARELY ANY MERISTEM 2) Encodes a CLAVATA1-related receptor kinase-like protein required for both shoot and flower meristem function. Very similar to BAM1,with more than 85% a.a. identity. It has a broad expression pattern and is involved in vascular strand development in the leaf, control of leaf shape, size and symmetry, male gametophyte development and ovule specification and function. Anthers of double mutants (bam1bam2) appeared abnormal at a very early stage and lack the endothecium, middle, and tapetum layers. Further analyses revealed that cells interior to the epidermis (in anther tissue) acquire some characteristics of pollen mother cells (PMCs), suggesting defects in cell fate specification. The pollen mother-like cells degenerate before the completion of meiosis, suggesting that these cells are defective. In addition, the BAM2 expression pattern supports both an early role in promoting somatic cell fates and a subsequent function in the PMCs. O.I. H.G. S.X.
0.80 89.8 At3g26920 822308 - F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMF O.I. H.G. S.X.
0.77 88.0 At5g45590 834597 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;BPO O.I. H.G. S.X.
0.75 86.9 At1g24340 839050 emb2421 (embryo defective 2421) F:oxidoreductase activity, monooxygenase activity;P:embryonic development ending in seed dormancy;C:unknown;BOFPM O.I. H.G. S.X.
0.73 85.5 At1g50510 841473 indigoidine synthase A family protein F:unknown;P:biological_process unknown;C:plasma membrane;OBFMP O.I. H.G. S.X.
0.44 57.2 At2g32910 817853 - F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPOBF O.I. H.G. S.X.

Select a plant to compare co-expressed genes between species.
Glycine_max
Hordeum_vulgare
Oryza_sativa
Populus_trichocarpa
Triticum_aestivum
Vitis_vinifera

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