CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID PtpAffx.208227.1.S1_at

Gene name ammonium transporter
Homology with Arabidopsis Similar to At1g64780: ATAMT1 (HF=2e-20)

Module size 7 genes

NF 0.02

%ile 4.1

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
0.75 94.1 0.85 PtpAffx.208227.1.S1_at pmrna16371 ammonium transporter - 2e-20 At1g64780 ATAMT1 O.I. H.G. S.X.
0.14 23.5 0.88 PtpAffx.143501.1.S1_at BU883274 hypothetical protein - 1e+0 At2g31380 STH O.I. H.G. S.X.
0.03 5.2 0.86 PtpAffx.5765.1.A1_at CV244528 hypothetical protein - 2e-13 At1g55140 RNA binding / ribonuclease III O.I. H.G. S.X.
0.02 3.6 0.88 PtpAffx.26424.2.S1_a_at CK097746 hypothetical protein - 2e-4 At1g22690 gibberellin-responsive protein, putative O.I. H.G. S.X.
0.02 3.6 0.88 PtpAffx.903.2.S1_a_at DN487155 hypothetical protein - 8e-6 At1g04290 thioesterase family protein O.I. H.G. S.X.
0.02 3.6 0.85 PtpAffx.152922.1.A1_at CV278271 - - 1e+0 At3g26870 self-incompatibility protein-related O.I. H.G. S.X.
0.01 2.2 0.85 PtpAffx.62182.1.S1_a_at CV261082 hypothetical protein - 3e-2 At1g18170 immunophilin / FKBP-type peptidyl-prolyl cis-trans isomerase family protein O.I. H.G. S.X.

Click More genes

Specific experiments for the module

Std2 GX %ile GSM ID Assay name GSE ID Experiment title Link to GEO
4.9 96.5 GSM328533 Populus x canescens root hypoxia_rep_03 GSE13109 Effect of hypoxia on gene expression in Grey poplar
3.8 94.9 GSM328484 Populus x canescens root hypoxia_rep_01 GSE13109 Effect of hypoxia on gene expression in Grey poplar
3.3 93.7 GSM328532 Populus x canescens root hypoxia_rep_02 GSE13109 Effect of hypoxia on gene expression in Grey poplar
3.0 92.9 GSM328564 Populus x canescens root hypoxia_rep_06 GSE13109 Effect of hypoxia on gene expression in Grey poplar
2.7 91.8 GSM328567 Populus x canescens root hypoxia_rep_09 GSE13109 Effect of hypoxia on gene expression in Grey poplar
2.5 90.9 GSM328277 Populus x canescens root control_rep_01 GSE13109 Effect of hypoxia on gene expression in Grey poplar
2.4 90.4 GSM328559 Populus x canescens root control_rep_10 GSE13109 Effect of hypoxia on gene expression in Grey poplar
2.2 89.3 GSM328565 Populus x canescens root hypoxia_rep_07 GSE13109 Effect of hypoxia on gene expression in Grey poplar
2.2 89.3 GSM328562 Populus x canescens root hypoxia_rep_04 GSE13109 Effect of hypoxia on gene expression in Grey poplar
2.1 88.6 GSM327657 Populus balsamifera_Female_Catkin_midday_2 GSE13990 Populus balsamifera developmental tissue series

Inter-species module comparison

A co-expression module including the Arabidopsis gene, At1g64780, orthologous to the query gene, PtpAffx.208227.1.S1_at

VF %ile Gene ID Repr. ID Gene Name Func. O.I. H.G. S.X. Other DB
0.22 17.5 At1g64780 842786 ATAMT1 encodes an ammonium transporter protein believed to act as a high affinity transporter. It is expressed in the root, primarily in endodermal and cortical cells, and contributes to ammonium uptake in the root. O.I. H.G. S.X.
0.60 75.7 At2g27420 817287 cysteine proteinase, putative F:cysteine-type peptidase activity, cysteine-type endopeptidase activity;P:proteolysis;C:endomembrane system;MOPBVAF O.I. H.G. S.X.
0.33 38.1 At5g24120 832477 SIGE (SIGMA FACTOR E) Encodes a specialized sigma factor that functions in regulation of plastid genes and is responsible for the light-dependent transcription at the psbD LRP. Activation of SIG5 is dependent upon blue light and mediated by cryptochromes. O.I. H.G. S.X.
0.29 30.3 At3g56290 824796 unknown protein F:molecular_function unknown;P:biological_process unknown;C:unknown;P O.I. H.G. S.X.
0.16 8.8 At1g32900 840184 starch synthase, putative F:transferase activity, transferring glycosyl groups;P:biosynthetic process, glucan biosynthetic process;C:chloroplast;PBOAFM O.I. H.G. S.X.

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

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