CoP: Co-expressed Biological Processes

Specifically-expressed experiments

Gene ID At5g20730

Gene name NPH4 (NON-PHOTOTROPHIC HYPOCOTYL)

Functional description Encodes an auxin-regulated transcriptional activator. Activates expression of IAA1 and IAA9 in the presence of auxin. Mutants affect blue light and gravitropic and auxin mediated growth responses. Together with AUX19, it is involved in the response to ethylene. In the arf7 arf19 double mutant, several auxin-responsive genes (e.g. IAA5, LBD16, LBD29 and LBD33) are no longer upregulated by auxin.

Click GSM ID or Assay name to show a list of genes that are specifically expressed in the GSM.

Std2 GX %ile GSM ID Assay name GSE ID Experiment title Link to GEO
180.5 100.0 GSM205432 Col_ leaf_ wildtype_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
67.4 99.8 GSM205435 Col_ leaf_ wildtype_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
36.4 99.7 GSM205426 met1-3_leaf_second-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
20.7 99.6 GSM205364 met1-3_leaf_second-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
15.2 99.4 GSM131281 AtGen_6-1621_Cold(4°C)-Roots-24.0h_Rep1 GSE5621 AtGenExpress: Stress Treatments (Cold stress)
11.8 99.3 GSM131282 AtGen_6-1622_Cold(4°C)-Roots-24.0h_Rep2 GSE5621 AtGenExpress: Stress Treatments (Cold stress)
11.5 99.3 GSM265423 Arabidopsis, root, longitudinal zone 3, standard conditions, rep 2 GSE10497 Expression analysis of root developmental zones after iron deficiency (-Fe) treatment
11.2 99.2 GSM205430 met1-3_leaf_fourth-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
10.9 99.2 GSM142644 MC002_ATH1_A8.1-dubos-aih GSE6151 The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
10.7 99.2 GSM142643 MC002_ATH1_A7.3-dubos-wLh GSE6151 The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
10.6 99.2 GSM142628 MC002_ATH1_A2.3-dubos-wtc GSE6151 The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
10.2 99.2 GSM284396 Arabidopsis GPSc2 GSE11262 Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
9.8 99.1 GSM142625 MC002_ATH1_A1.3-dubos-wtx GSE6151 The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
9.8 99.1 GSM142641 MC002_ATH1_A7.1-dubos-wLh GSE6151 The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
9.7 99.1 GSM269817 T8 leaf-drought-rep1 GSE10670 Global expression profiling of wild type and transgenic Arabidopsis plants in response to water stress
9.6 99.1 GSM205428 met1-3_leaf_fourth-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
9.5 99.1 GSM142626 MC002_ATH1_A2.1-dubos-wtc GSE6151 The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
9.1 99.1 GSM142631 MC002_ATH1_A3.3-dubos-6kx GSE6151 The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
9.1 99.1 GSM269813 WT leaf-drought-rep1 GSE10670 Global expression profiling of wild type and transgenic Arabidopsis plants in response to water stress
8.9 99.0 GSM142634 MC002_ATH1_A4.3-dubos-6kc GSE6151 The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
8.9 99.0 GSM142642 MC002_ATH1_A7.2-dubos-wLh GSE6151 The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
8.7 99.0 GSM311281 Laser capture microdissected (LCM) chalazal seed coat at the pre-globular stage, biological replicate 1 GSE12402 Expression data from Arabidopsis seed compartments at the pre-globular stage
8.7 99.0 GSM142623 MC002_ATH1_A1.1-dubos-wtx GSE6151 The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
180.5	100.0	GSM205432	Col_ leaf_ wildtype_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
67.4	99.8	GSM205435	Col_ leaf_ wildtype_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
36.4	99.7	GSM205426	met1-3_leaf_second-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
20.7	99.6	GSM205364	met1-3_leaf_second-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
15.2	99.4	GSM131281	AtGen_6-1621_Cold(4°C)-Roots-24.0h_Rep1	GSE5621	AtGenExpress: Stress Treatments (Cold stress)
11.8	99.3	GSM131282	AtGen_6-1622_Cold(4°C)-Roots-24.0h_Rep2	GSE5621	AtGenExpress: Stress Treatments (Cold stress)
11.5	99.3	GSM265423	Arabidopsis, root, longitudinal zone 3, standard conditions, rep 2	GSE10497	Expression analysis of root developmental zones after iron deficiency (-Fe) treatment
11.2	99.2	GSM205430	met1-3_leaf_fourth-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
10.9	99.2	GSM142644	MC002_ATH1_A8.1-dubos-aih	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
10.7	99.2	GSM142643	MC002_ATH1_A7.3-dubos-wLh	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
10.6	99.2	GSM142628	MC002_ATH1_A2.3-dubos-wtc	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
10.2	99.2	GSM284396	Arabidopsis GPSc2	GSE11262	Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
9.8	99.1	GSM142625	MC002_ATH1_A1.3-dubos-wtx	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
9.8	99.1	GSM142641	MC002_ATH1_A7.1-dubos-wLh	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
9.7	99.1	GSM269817	T8 leaf-drought-rep1	GSE10670	Global expression profiling of wild type and transgenic Arabidopsis plants in response to water stress
9.6	99.1	GSM205428	met1-3_leaf_fourth-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
9.5	99.1	GSM142626	MC002_ATH1_A2.1-dubos-wtc	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
9.1	99.1	GSM142631	MC002_ATH1_A3.3-dubos-6kx	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
9.1	99.1	GSM269813	WT leaf-drought-rep1	GSE10670	Global expression profiling of wild type and transgenic Arabidopsis plants in response to water stress
8.9	99.0	GSM142634	MC002_ATH1_A4.3-dubos-6kc	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
8.9	99.0	GSM142642	MC002_ATH1_A7.2-dubos-wLh	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
8.7	99.0	GSM311281	Laser capture microdissected (LCM) chalazal seed coat at the pre-globular stage, biological replicate 1	GSE12402	Expression data from Arabidopsis seed compartments at the pre-globular stage
8.7	99.0	GSM142623	MC002_ATH1_A1.1-dubos-wtx	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis

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Gene ID	At5g20730
Gene name	NPH4 (NON-PHOTOTROPHIC HYPOCOTYL)
Functional description	Encodes an auxin-regulated transcriptional activator. Activates expression of IAA1 and IAA9 in the presence of auxin. Mutants affect blue light and gravitropic and auxin mediated growth responses. Together with AUX19, it is involved in the response to ethylene. In the arf7 arf19 double mutant, several auxin-responsive genes (e.g. IAA5, LBD16, LBD29 and LBD33) are no longer upregulated by auxin.