CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID Contig16955_at

Gene name
Homology with Arabidopsis Similar to At5g06160: ATO (ATROPOS) (HF=1e-1)

Module size 6 genes

NF 0.03

%ile 3.7

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
0.46 61.0 0.90 Contig16955_at Contig16955 - - 1e-1 At5g06160 ATO (ATROPOS) O.I. H.G. S.X.
0.67 84.7 0.89 Contig14217_at Contig14217 - - 1e+0 At1g77480 nucellin protein, putative O.I. H.G. S.X.
0.40 53.1 0.91 Contig1557_at Contig1557 - - 3e-23 At3g60245 60S ribosomal protein L37a (RPL37aC) O.I. H.G. S.X.
0.09 7.4 0.91 Contig6213_x_at Contig6213 - - 8e-4 At1g05850 POM1 (POM-POM1) O.I. H.G. S.X.
0.03 2.6 0.90 Contig14457_s_at Contig14457 - - 6e-3 At2g44525 unknown protein O.I. H.G. S.X.
0.01 1.1 0.89 Contig15375_at Contig15375 - - 2e+0 At5g49410 unknown 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
5.5 97.6 GSM261045 after 3 days in mannitol medium rep1 GSE10330 Transcriptome analysis of barley anthers: effect of mannitol treatment on microspore embryogenesis
5.5 97.6 GSM419976 Palea_Rep2 GSE16754 Comparative transcriptional profiling of organs of the barley spike
5.5 97.6 GSM440964 Control palea_Rep2 GSE17669 Gene expression in the barley spike during drought stress
5.4 97.5 GSM261047 after 3 days in mannitol medium rep3 GSE10330 Transcriptome analysis of barley anthers: effect of mannitol treatment on microspore embryogenesis
4.3 96.4 GSM261046 after 3 days in mannitol medium rep2 GSE10330 Transcriptome analysis of barley anthers: effect of mannitol treatment on microspore embryogenesis
3.9 95.8 GSM419974 Lemma_Rep3 GSE16754 Comparative transcriptional profiling of organs of the barley spike
3.9 95.8 GSM440959 Control lemma_Rep3 GSE17669 Gene expression in the barley spike during drought stress
3.3 94.6 GSM238410 Pericarp 8DAF; seed development; Rep 1 GSE9365 Expression data from barley maturing and germinating grains
3.2 94.3 GSM419977 Palea_Rep3 GSE16754 Comparative transcriptional profiling of organs of the barley spike
3.2 94.3 GSM440965 Control palea_Rep3 GSE17669 Gene expression in the barley spike during drought stress

Inter-species module comparison

A co-expression module including the Arabidopsis gene, At5g06160, orthologous to the query gene, Contig16955_at

VF %ile Gene ID Repr. ID Gene Name Func. O.I. H.G. S.X. Other DB
0.73 85.5 At5g06160 830503 ATO (ATROPOS) Encodes a protein with similarity to pre-mRNA splicing factor SF3a60 that is involved in gametic cell fate determination. Loss of function results in the ectopic expression of egg cell makers suggesting a role in restriction of gametic cell fate. Expressed strongly in gametophytes and weakly in sporophytes. O.I. H.G. S.X.
0.67 81.6 At5g06460 830534 ATUBA2 Encodes a ubiquitin-activating enzyme (E1), involved in the first step in conjugating multiple ubiquitins to proteins targeted for degradation. Gene is expressed in most tissues examined. O.I. H.G. S.X.
0.67 81.6 At5g35910 833577 3'-5' exonuclease domain-containing protein / helicase and RNase D C-terminal domain-containing protein / HRDC domain-containing protein F:3'-5' exonuclease activity, nucleic acid binding;P:nucleobase, nucleoside, nucleotide and nucleic acid metabolic process;C:intracellular;BOMFP O.I. H.G. S.X.
0.50 65.3 At3g18640 821395 zinc finger protein-related F:zinc ion binding, nucleic acid binding;P:unknown;C:unknown;MOFPVBA O.I. H.G. S.X.
0.40 50.8 At3g18790 821412 - F:molecular_function unknown;P:biological_process unknown;C:chloroplast;OMFPBVA O.I. H.G. S.X.

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

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