Other supporting information

Gene Model

Correlation Plot

Expression profile (Values are plotted in Log(2) values.)

Genes with related expresssion profiles.

Positively Correlated Genes
Gens	PCC	Definition	Overlap gene	Definition	Overlap gene(antisense)	Definition
AT2G06530.1	0.91552	VPS2.1	OMAT2P101270	-	-	-
AT3G50830.1	0.845565	COR413-PM2 (COLD-REGULATED 413-PLASMA MEMBRANE 2)	OMAT3P111830	-	-	-
AT4G39780.1	0.832147	AP2 domain-containing transcription factor, putative	OMAT4P112140	-	-	-
AT2G33120.2	0.828503	SAR1 (SYNAPTOBREVIN-RELATED PROTEIN 1)	OMAT2P107165	-	-	-
AT3G14810.1	0.825952	MSL5 (MECHANOSENSITIVE CHANNEL OF SMALL CONDUCTANCE-LIKE 5)	OMAT3P104990	-	OMAT3P005290	-
AT2G45820.1	0.825495	DNA-binding protein, putative	OMAT2P111790	-	OMAT2P012910	-
AT4G28240.1	0.825042	wound-responsive protein-related	OMAT4P107900	-	OMAT4P009110	-
AT5G22360.1	0.824536	ATVAMP714 (VESICLE-ASSOCIATED MEMBRANE PROTEIN 714)	OMAT5P106490	-	-	-
AT5G50430.1	0.823112	UBC33 (ubiquitin-conjugating enzyme 33)	OMAT5P113030	-	-	-
AT5G13190.1	0.818537	INVOLVED IN: biological_process unknown	OMAT5P103660	-	OMAT5P004380	-
Negatively Correlated Genes
Gens	PCC	Definition	Overlap gene	Definition	Overlap gene(antisense)	Definition
AT4G19590.1	-0.851866	DNAJ heat shock N-terminal domain-containing protein	-	-	-	-
AT1G23180.1	-0.824806	armadillo/beta-catenin repeat family protein	OMAT1P008550	-	-	-
AT2G43860.1	-0.824253	polygalacturonase, putative / pectinase, putative	-	-	-	-
AT1G30600.1	-0.817022	subtilase family protein	-	-	-	-
AT3G45890.1	-0.802218	RUS1 (ROOT UVB SENSITIVE 1)	OMAT3P011820	-	-	-
AT1G19410.1	-0.796488	FUNCTIONS IN: molecular_function unknown	-	-	-	-
AT5G60040.1	-0.795741	NRPC1	-	-	-	-
AT1G36620.1	-0.789195	transposable element gene	-	-	-	-
AT1G24200.1	-0.786477	paired amphipathic helix repeat-containing protein	-	-	-	-
AT2G33240.1	-0.784186	XID	-	-	-	-

Get whole results

Over-Representation Analysis Result

	p-value	<= 2.82e-28	:20 terms with high significance
2.82e-28 <	p-value	<= 8.76e-06	:With considering multiple testing correction; p <= 1.00e-02 / 1142
8.76e-06 <	p-value	<= 1.00e-02

Type of term (*1)	Depth of the term in ontology tree	ID/Term	Description	Number of genes	Over-Representative rate (*2)	p-value (*3)	PosMed p-value (*4) (Link to PosMed)	Found on gene annotation
B	3	GO:0006950	response to stress	40/200	3.23	1.01e-11	2.45E-15	no
B	4	GO:0009409	response to cold	13/200	8.35	6.93e-10	-	no
B	4	GO:0010033	response to organic substance	26/200	3.89	8.20e-10	-	no
B	4	GO:0009266	response to temperature stimulus	15/200	6.58	1.49e-09	-	no
B	3	GO:0009628	response to abiotic stimulus	26/200	3.51	7.25e-09	-	yes
B	3	GO:0042221	response to chemical stimulus	33/200	2.89	1.06e-08	-	no
B	3	GO:0009719	response to endogenous stimulus	21/200	4.07	1.27e-08	-	no
B	4	GO:0009725	response to hormone stimulus	20/200	4.23	1.41e-08	-	no
B	5	GO:0009737	response to abscisic acid stimulus	12/200	7.10	1.84e-08	-	no
B	4	GO:0006970	response to osmotic stress	14/200	5.58	4.13e-08	-	no
B	5	GO:0006464	protein modification process	29/200	2.79	1.83e-07	-	no
B	3	GO:0016192	vesicle-mediated transport	10/200	6.93	2.58e-07	-	yes
B	5	GO:0009651	response to salt stress	12/200	5.22	6.32e-07	2.45E-15	no
B	5	GO:0042157	lipoprotein metabolic process	13/200	4.79	6.96e-07	-	no
B	4	GO:0043412	macromolecule modification	29/200	2.56	1.10e-06	-	no
B	3	GO:0009607	response to biotic stimulus	13/200	3.60	1.86e-05	-	yes
B	4	GO:0070887	cellular response to chemical stimulus	10/200	4.40	2.03e-05	-	no
B	3	GO:0051707	response to other organism	12/200	3.58	3.64e-05	-	yes
B	5	GO:0006796	phosphate metabolic process	17/200	2.56	1.33e-04	-	no
B	4	GO:0006793	phosphorus metabolic process	17/200	2.56	1.35e-04	-	no
B	3	GO:0023033	signaling pathway	11/200	3.25	1.67e-04	-	no
B	4	GO:0006952	defense response	13/200	2.86	2.15e-04	-	no
B	3	GO:0050789	regulation of biological process	31/200	1.79	5.19e-04	-	no
B	3	GO:0051716	cellular response to stimulus	12/200	2.71	5.48e-04	-	no
B	4	GO:0044248	cellular catabolic process	10/200	2.77	1.09e-03	-	no
B	3	GO:0006810	transport	20/200	1.95	1.51e-03	8.46E-16	yes
B	3	GO:0051234	establishment of localization	20/200	1.95	1.56e-03	8.04E-17	yes
B	5	GO:0044267	cellular protein metabolic process	33/200	1.62	2.06e-03	-	no
B	4	GO:0080090	regulation of primary metabolic process	19/200	1.80	4.60e-03	-	no
B	4	GO:0044260	cellular macromolecule metabolic process	49/200	1.39	5.33e-03	-	no
B	3	GO:0050794	regulation of cellular process	25/200	1.64	5.39e-03	-	no
B	5	GO:0051252	regulation of RNA metabolic process	11/200	2.10	6.63e-03	-	no
B	3	GO:0019222	regulation of metabolic process	20/200	1.70	7.47e-03	-	no
B	3	GO:0009056	catabolic process	10/200	2.10	8.89e-03	-	no
B	5	GO:0032774	RNA biosynthetic process	11/200	2.01	9.43e-03	-	no

C	4	GO:0005886	plasma membrane	39/200	3.15	3.91e-11	3.64E-21	yes
C	3	GO:0016020	membrane	54/200	1.97	2.02e-07	3.64E-21	yes
C	4	GO:0005737	cytoplasm	62/200	1.66	9.61e-06	2.55E-16	yes
C	3	GO:0005622	intracellular	80/200	1.50	1.31e-05	8.12E-16	yes
C	3	GO:0044424	intracellular part	77/200	1.51	1.74e-05	-	yes
C	3	GO:0044464	cell part	117/200	1.28	1.10e-04	2.86E-16	yes
C	5	GO:0005773	vacuole	11/200	3.19	2.03e-04	8.04E-17	no
C	4	GO:0043231	intracellular membrane-bounded organelle	65/200	1.48	2.04e-04	-	yes
C	3	GO:0043227	membrane-bounded organelle	65/200	1.48	2.05e-04	-	yes
C	4	GO:0044444	cytoplasmic part	53/200	1.53	4.30e-04	-	yes
C	3	GO:0043229	intracellular organelle	66/200	1.43	5.01e-04	-	yes
C	5	GO:0005634	nucleus	28/200	1.79	9.33e-04	-	no

M	5	GO:0016773	phosphotransferase activity, alcohol group as acceptor	19/200	3.06	4.75e-06	-	no
M	5	GO:0016301	kinase activity	21/200	2.61	2.05e-05	2.45E-15	no
M	3	GO:0005515	protein binding	32/200	2.04	3.60e-05	1.67E-15	yes
M	4	GO:0016772	transferase activity, transferring phosphorus-containing groups	21/200	2.29	1.40e-04	-	no
M	3	GO:0016740	transferase activity	28/200	1.71	1.84e-03	-	no
M	3	GO:0003700	transcription factor activity	19/200	1.88	2.88e-03	-	no

PS	4	PO:0020030	cotyledon	165/200	2.25	1.93e-41	-	yes
PS	4	PO:0000230	inflorescence meristem	166/200	2.14	9.79e-39	-	yes
PS	4	PO:0009047	stem	170/200	2.02	5.13e-37	2.45E-15	yes
PS	3	PO:0009013	meristem	166/200	2.07	1.36e-36	2.45E-15	yes
PS	5	PO:0009028	microsporophyll	169/200	2.02	1.66e-36	-	yes
PS	3	PO:0020091	male gametophyte	166/200	2.00	1.37e-34	-	yes
PS	5	PO:0008037	seedling	170/200	1.93	4.63e-34	8.04E-17	yes
PS	5	PO:0020038	petiole	158/200	2.08	3.57e-33	-	yes
PS	5	PO:0000013	cauline leaf	159/200	2.06	4.09e-33	-	yes
PS	3	PO:0009005	root	170/200	1.89	8.20e-33	1.43E-16	yes
PS	4	PO:0009026	sporophyll	170/200	1.89	8.45e-33	-	yes
PS	5	PO:0020039	leaf lamina	163/200	1.98	1.84e-32	-	yes
PS	4	PO:0009025	leaf	169/200	1.84	1.37e-30	4.19E-17	yes
PS	4	PO:0009009	embryo	170/200	1.76	2.82e-28	2.90E-16	yes
PS	5	PO:0008034	leaf whorl	168/200	1.78	3.31e-28	-	yes
PS	4	PO:0008033	phyllome whorl	168/200	1.78	3.31e-28	-	yes
PS	3	PO:0009032	petal	162/200	1.85	5.28e-28	-	yes
PS	4	PO:0009001	fruit	171/200	1.74	5.81e-28	-	yes
PS	3	PO:0006342	infructescence	171/200	1.74	5.81e-28	-	yes
PS	3	PO:0009031	sepal	166/200	1.80	6.46e-28	-	yes
PS	4	PO:0000037	shoot apex	160/200	1.86	1.39e-27	-	yes
PS	5	PO:0009027	megasporophyll	158/200	1.88	1.63e-27	-	yes
PS	3	PO:0009010	seed	170/200	1.74	1.71e-27	2.45E-15	yes
PS	3	PO:0006001	phyllome	173/200	1.69	6.82e-27	-	yes
PS	5	PO:0009052	pedicel	153/200	1.88	1.00e-25	-	yes
PS	5	PO:0009046	flower	172/200	1.65	3.44e-25	-	yes
PS	4	PO:0009049	inflorescence	172/200	1.64	8.18e-25	2.45E-15	yes
PS	3	PO:0009006	shoot	173/200	1.59	2.85e-23	2.45E-15	yes
PS	4	PO:0006345	pollen tube	78/200	2.68	4.64e-18	-	yes
PS	3	PO:0000084	sperm cell	59/200	1.82	8.10e-07	-	no
PS	3	PO:0020097	generative cell	59/200	1.82	8.10e-07	-	no

PG	5	PO:0007133	leaf production	166/200	1.97	1.08e-33	-	yes
PG	4	PO:0007112	1 main shoot growth	166/200	1.97	1.11e-33	-	yes
PG	3	PO:0007134	A vegetative growth	166/200	1.96	2.97e-33	2.45E-15	yes
PG	4	PO:0001054	4 leaf senescence stage	158/200	2.05	1.43e-32	-	yes
PG	3	PO:0001050	leaf development stages	158/200	2.05	1.54e-32	-	yes
PG	4	PO:0007600	3 floral organ development stages	176/200	1.73	7.91e-30	-	yes
PG	3	PO:0007615	flower development stages	176/200	1.68	5.53e-28	-	yes
PG	4	PO:0007616	4 anthesis	169/200	1.74	2.93e-27	-	yes
PG	5	PO:0004507	D bilateral stage	156/200	1.89	3.92e-27	-	yes
PG	5	PO:0007604	corolla developmental stages	170/200	1.72	6.31e-27	-	yes
PG	4	PO:0007631	embryo development stages	159/200	1.77	2.80e-24	-	yes
PG	3	PO:0001170	seed development stages	159/200	1.76	4.88e-24	-	yes
PG	5	PO:0001078	E expanded cotyledon stage	151/200	1.82	2.73e-23	-	yes
PG	5	PO:0001185	C globular stage	150/200	1.83	3.13e-23	-	yes
PG	5	PO:0001081	F mature embryo stage	146/200	1.84	3.10e-22	-	yes
PG	5	PO:0007605	androecium developmental stages	66/200	2.25	1.63e-11	-	no

KW	0	vesicle	-	14/200	9.54	2.74e-11	7.29E-17	yes
KW	0	plasma	-	37/200	3.23	6.18e-11	3.64E-21	yes
KW	0	stress	-	22/200	4.69	4.19e-10	7.86E-16	no
KW	0	processes	-	16/200	5.28	1.29e-08	5.73E-16	no
KW	0	induced	-	15/200	5.48	1.97e-08	3.73E-15	no
KW	0	membrane	-	51/200	1.92	1.15e-06	3.64E-21	yes
KW	0	myristoylation	-	12/200	4.73	1.91e-06	-	no
KW	0	threonine	-	22/200	2.93	2.02e-06	-	no
KW	0	ipr008271	-	17/200	3.48	2.32e-06	-	no
KW	0	amino	-	23/200	2.67	6.12e-06	1.80E-15	no
KW	0	response	-	37/200	2.06	7.42e-06	3.49E-15	yes
KW	0	ipr017441	-	15/200	3.49	7.56e-06	-	no
KW	0	serine	-	23/200	2.58	1.08e-05	-	no
KW	0	responsive	-	12/200	4.01	1.14e-05	2.45E-15	no
KW	0	ipr000719	-	18/200	2.89	1.79e-05	-	no
KW	0	ipr017442	-	16/200	3.04	2.48e-05	-	no
KW	0	ipr011009	-	18/200	2.78	2.95e-05	-	no
KW	0	conserved	-	28/200	2.07	8.65e-05	3.05E-16	no
KW	0	which	-	10/200	3.73	8.98e-05	6.34E-15	no
KW	0	phosphorylation	-	16/200	2.60	1.62e-04	2.45E-15	no
KW	0	terminal	-	35/200	1.82	1.83e-04	2.45E-15	no
KW	0	ubiquitin	-	13/200	2.89	1.88e-04	-	no
KW	0	encodes	-	43/200	1.68	1.94e-04	1.59E-16	no
KW	0	cytoplasm	-	10/200	3.23	3.11e-04	2.55E-16	no
KW	0	vacuole	-	10/200	3.17	3.60e-04	8.04E-17	no
KW	0	kinase	-	22/200	2.08	3.89e-04	2.45E-15	no
KW	0	stimulus	-	12/200	2.79	4.29e-04	-	yes
KW	0	nucleus	-	25/200	1.94	5.26e-04	-	no
KW	0	associated	-	16/200	2.34	5.46e-04	0	no
KW	0	active	-	18/200	2.20	6.02e-04	2.45E-15	no
KW	0	member	-	22/200	2.01	6.51e-04	2.05E-16	no
KW	0	mediated	-	10/200	2.83	9.28e-04	1.52E-15	yes
KW	0	transcription	-	25/200	1.72	2.82e-03	2.45E-15	no
KW	0	expression	-	11/200	2.27	3.62e-03	-	no
KW	0	factor	-	28/200	1.60	4.90e-03	2.45E-15	yes
KW	0	leucine	-	11/200	2.10	6.86e-03	2.45E-15	no
KW	0	transport	-	17/200	1.75	9.14e-03	8.46E-16	yes

(*1)	[B]:Biological process(Gene ontology), [C]:Cellular component(Gene ontology), [M]:Molecular function(Gene ontology), [PS]:Plant Structure(Plant ontology), [PG]:Growth and developmental stages(Plant ontology), [KW]:words found in gene description.
(*2)	([# of genes with the term] / [# of sampling (200)]) / ([# of genes with the term among whole genes] / [# of whole genes])
(*3)	P-values were calculated on hypergeometric distribution in which we found n genes with a annotation term during 200 highly correlated genes, while we had N genes with the term in the whole genes.
(*4)	PosMed is a system which serve a p-values showing a relationship between the gene and the annotation term based on literature information and Gene-Gene interaction suchas co-expression or protein-protein interactions.

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