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
OMAT3P105910	0.875366	-	AT3G17510	CIPK1 (CBL-INTERACTING PROTEIN KINASE 1)	-	-
OMAT4P108370	0.860772	-	AT4G29905	unknown protein	-	-
OMAT1P006640	0.856556	-	AT1G17970	zinc finger (C3HC4-type RING finger) family protein	-	-
OMAT5P109700	0.852066	-	AT5G40890	ATCLC-A (CHLORIDE CHANNEL A)	-	-
OMAT5P105240	0.850369	-	AT5G17880	CSA1 (constitutive shade-avoidance1)	-	-
OMAT1P120720	0.847865	-	AT1G78830	curculin-like (mannose-binding) lectin family protein	-	-
OMAT3P104300	0.846712	-	AT3G13040	myb family transcription factor	-	-
OMAT3P002280	0.843018	-	AT3G06470	GNS1/SUR4 membrane family protein	-	-
OMAT2P111760	0.840554	-	AT2G45670	calcineurin B subunit-related	-	-
OMAT3P006880	0.838627	-	AT3G18060	transducin family protein / WD-40 repeat family protein	-	-
Negatively Correlated Genes
Gens	PCC	Definition	Overlap gene	Definition	Overlap gene(antisense)	Definition
OMAT3P107990	-0.832026	-	AT3G24150	unknown protein	-	-
OMAT4P005060	-0.829358	-	AT4G17180	glycosyl hydrolase family 17 protein	-	-
OMAT5P001520	-0.826973	-	AT5G04885	glycosyl hydrolase family 3 protein	-	-
OMAT5P109290	-0.817238	-	AT5G39410	binding / catalytic	-	-
OMAT3P007540	-0.815983	-	AT3G19970	unknown protein	-	-
OMAT3P000730	-0.809477	-	AT3G02600	LPP3 (LIPID PHOSPHATE PHOSPHATASE 3)	-	-
OMAT5P016960	-0.793399	-	AT5G56910	INVOLVED IN: biological_process unknown	-	-
OMAT1P002430	-0.781897	-	AT1G07510	ftsh10 (FtsH protease 10)	-	-
OMAT5P005980	-0.781627	-	AT5G17210	unknown protein	-	-
OMAT1P008800	-0.781194	-	AT1G23940	adaptin family protein	-	-

Get whole results

Over-Representation Analysis Result

	p-value	<= 2.16e-29	:20 terms with high significance
2.16e-29 <	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	38/200	3.06	1.55e-10	-	no
B	3	GO:0009607	response to biotic stimulus	17/200	4.70	2.92e-08	-	no
B	3	GO:0042221	response to chemical stimulus	32/200	2.81	3.68e-08	-	no
B	3	GO:0051707	response to other organism	16/200	4.78	5.48e-08	-	no
B	5	GO:0009651	response to salt stress	13/200	5.66	9.42e-08	-	no
B	3	GO:0009628	response to abiotic stimulus	24/200	3.24	1.20e-07	-	no
B	4	GO:0006970	response to osmotic stress	13/200	5.18	2.73e-07	-	no
B	4	GO:0006952	defense response	17/200	3.73	8.65e-07	-	no
B	4	GO:0044283	small molecule biosynthetic process	13/200	2.86	2.09e-04	-	no
B	3	GO:0006810	transport	22/200	2.15	2.57e-04	-	no
B	3	GO:0051234	establishment of localization	22/200	2.14	2.68e-04	-	no
B	4	GO:0010033	response to organic substance	16/200	2.39	4.30e-04	-	no
B	3	GO:0044281	small molecule metabolic process	18/200	2.00	1.78e-03	-	no
B	3	GO:0044237	cellular metabolic process	64/200	1.35	2.60e-03	-	yes
B	5	GO:0006796	phosphate metabolic process	14/200	2.11	2.92e-03	-	yes
B	4	GO:0006793	phosphorus metabolic process	14/200	2.11	2.95e-03	-	yes
B	3	GO:0051716	cellular response to stimulus	10/200	2.26	5.16e-03	-	no
B	3	GO:0009719	response to endogenous stimulus	11/200	2.13	5.96e-03	-	no
B	4	GO:0005975	carbohydrate metabolic process	11/200	2.11	6.45e-03	-	no
B	3	GO:0050789	regulation of biological process	27/200	1.56	7.75e-03	-	no
B	4	GO:0009725	response to hormone stimulus	10/200	2.12	8.35e-03	-	no
B	3	GO:0009056	catabolic process	10/200	2.10	8.89e-03	-	no

C	3	GO:0044424	intracellular part	92/200	1.81	1.01e-10	-	yes
C	4	GO:0005886	plasma membrane	38/200	3.07	1.51e-10	-	no
C	4	GO:0043231	intracellular membrane-bounded organelle	83/200	1.89	1.60e-10	-	no
C	3	GO:0043227	membrane-bounded organelle	83/200	1.89	1.61e-10	-	no
C	5	GO:0009536	plastid	48/200	2.60	1.64e-10	-	no
C	3	GO:0005622	intracellular	94/200	1.77	1.90e-10	-	yes
C	3	GO:0044464	cell part	134/200	1.46	4.06e-10	-	yes
C	4	GO:0005737	cytoplasm	73/200	1.95	9.22e-10	-	yes
C	3	GO:0043229	intracellular organelle	83/200	1.80	2.09e-09	-	no
C	3	GO:0016020	membrane	56/200	2.04	3.18e-08	-	no
C	4	GO:0044444	cytoplasmic part	65/200	1.87	5.83e-08	-	yes
C	5	GO:0005773	vacuole	15/200	4.35	4.60e-07	-	no
C	5	GO:0044434	chloroplast part	18/200	3.25	3.42e-06	-	no
C	4	GO:0044435	plastid part	18/200	3.16	5.01e-06	-	no
C	5	GO:0009532	plastid stroma	10/200	4.05	4.34e-05	-	no
C	3	GO:0044446	intracellular organelle part	26/200	1.81	1.13e-03	-	no
C	3	GO:0044422	organelle part	26/200	1.81	1.15e-03	-	no
C	4	GO:0031967	organelle envelope	10/200	2.40	3.34e-03	-	no
C	3	GO:0031975	envelope	10/200	2.40	3.34e-03	-	no

M	3	GO:0022892	substrate-specific transporter activity	18/200	3.48	1.24e-06	-	no
M	4	GO:0022891	substrate-specific transmembrane transporter activity	14/200	3.18	4.16e-05	-	no
M	5	GO:0016301	kinase activity	20/200	2.49	6.22e-05	3.95E-16	yes
M	4	GO:0016772	transferase activity, transferring phosphorus-containing groups	21/200	2.29	1.40e-04	-	yes
M	3	GO:0022857	transmembrane transporter activity	15/200	2.67	1.82e-04	-	no
M	3	GO:0016740	transferase activity	30/200	1.83	4.23e-04	-	yes
M	3	GO:0016491	oxidoreductase activity	18/200	2.13	8.56e-04	-	no
M	5	GO:0016773	phosphotransferase activity, alcohol group as acceptor	13/200	2.09	4.05e-03	-	yes
M	3	GO:0000166	nucleotide binding	22/200	1.67	6.83e-03	-	no
M	5	GO:0030554	adenyl nucleotide binding	16/200	1.77	9.66e-03	-	no
M	4	GO:0001883	purine nucleoside binding	16/200	1.77	9.66e-03	-	no
M	3	GO:0001882	nucleoside binding	16/200	1.76	9.90e-03	-	no

PS	4	PO:0020030	cotyledon	170/200	2.32	2.82e-46	-	no
PS	5	PO:0020038	petiole	168/200	2.21	6.53e-42	-	no
PS	5	PO:0000013	cauline leaf	169/200	2.19	6.75e-42	-	no
PS	5	PO:0020039	leaf lamina	170/200	2.06	1.52e-38	-	no
PS	4	PO:0009047	stem	170/200	2.02	5.13e-37	-	no
PS	4	PO:0009025	leaf	176/200	1.91	8.41e-37	-	no
PS	3	PO:0009013	meristem	166/200	2.07	1.36e-36	-	yes
PS	4	PO:0000230	inflorescence meristem	163/200	2.10	4.28e-36	-	yes
PS	5	PO:0009028	microsporophyll	168/200	2.00	1.28e-35	-	no
PS	5	PO:0008037	seedling	171/200	1.94	6.07e-35	-	no
PS	4	PO:0009026	sporophyll	170/200	1.89	8.45e-33	-	yes
PS	5	PO:0008034	leaf whorl	172/200	1.82	1.71e-31	-	no
PS	4	PO:0008033	phyllome whorl	172/200	1.82	1.71e-31	-	no
PS	3	PO:0009032	petal	164/200	1.87	1.53e-29	-	no
PS	3	PO:0006001	phyllome	176/200	1.72	2.16e-29	-	yes
PS	4	PO:0000037	shoot apex	162/200	1.88	4.32e-29	-	no
PS	4	PO:0009009	embryo	171/200	1.77	4.38e-29	-	no
PS	3	PO:0009010	seed	171/200	1.75	2.71e-28	-	no
PS	4	PO:0009001	fruit	171/200	1.74	5.81e-28	-	no
PS	3	PO:0006342	infructescence	171/200	1.74	5.81e-28	-	no
PS	3	PO:0009031	sepal	166/200	1.80	6.46e-28	-	no
PS	3	PO:0009005	root	161/200	1.79	9.86e-26	-	no
PS	3	PO:0009006	shoot	176/200	1.62	1.30e-25	-	yes
PS	5	PO:0009027	megasporophyll	155/200	1.85	2.25e-25	-	yes
PS	5	PO:0009046	flower	171/200	1.64	1.99e-24	-	yes
PS	4	PO:0009049	inflorescence	171/200	1.63	4.68e-24	-	yes
PS	3	PO:0020091	male gametophyte	152/200	1.83	5.39e-24	-	yes
PS	5	PO:0009052	pedicel	147/200	1.81	8.81e-22	-	no
PS	4	PO:0005679	epidermis	28/200	2.26	1.74e-05	-	no
PS	3	PO:0009014	dermal tissue	28/200	2.26	1.76e-05	-	no
PS	5	PO:0006016	leaf epidermis	26/200	2.34	1.87e-05	-	no
PS	5	PO:0006035	shoot epidermis	26/200	2.32	2.12e-05	-	no
PS	5	PO:0000349	epidermal initial	26/200	2.31	2.39e-05	-	no
PS	4	PO:0004011	initial cell	26/200	2.29	2.67e-05	-	no
PS	3	PO:0004010	meristematic cell	26/200	2.29	2.74e-05	-	no
PS	4	PO:0000293	guard cell	25/200	2.32	2.94e-05	-	no
PS	4	PO:0000351	guard mother cell	25/200	2.31	3.17e-05	-	no
PS	3	PO:0000070	meristemoid	25/200	2.31	3.26e-05	-	no
PS	3	PO:0004013	epidermal cell	26/200	2.18	6.23e-05	-	no
PS	3	PO:0000084	sperm cell	48/200	1.48	1.65e-03	-	no
PS	3	PO:0020097	generative cell	48/200	1.48	1.65e-03	-	no
PS	4	PO:0006345	pollen tube	43/200	1.48	2.99e-03	-	yes

PG	4	PO:0001054	4 leaf senescence stage	168/200	2.18	3.09e-41	-	no
PG	3	PO:0001050	leaf development stages	168/200	2.18	3.36e-41	-	no
PG	5	PO:0007133	leaf production	172/200	2.04	4.64e-39	-	no
PG	4	PO:0007112	1 main shoot growth	172/200	2.04	4.80e-39	-	no
PG	3	PO:0007134	A vegetative growth	172/200	2.03	1.38e-38	-	no
PG	4	PO:0007616	4 anthesis	170/200	1.75	4.76e-28	-	no
PG	5	PO:0007604	corolla developmental stages	168/200	1.70	2.14e-25	-	no
PG	3	PO:0007615	flower development stages	172/200	1.64	9.12e-25	-	yes
PG	5	PO:0004507	D bilateral stage	152/200	1.85	2.37e-24	-	no
PG	4	PO:0007600	3 floral organ development stages	169/200	1.66	3.21e-24	-	yes
PG	5	PO:0001185	C globular stage	151/200	1.84	6.90e-24	-	no
PG	5	PO:0001081	F mature embryo stage	148/200	1.86	1.63e-23	-	no
PG	5	PO:0001078	E expanded cotyledon stage	149/200	1.80	5.25e-22	-	no
PG	4	PO:0007631	embryo development stages	154/200	1.71	5.53e-21	-	no
PG	3	PO:0001170	seed development stages	154/200	1.70	9.27e-21	-	no
PG	5	PO:0007605	androecium developmental stages	47/200	1.61	3.03e-04	-	yes

KW	0	response	-	49/200	2.73	1.72e-11	-	no
KW	0	chloroplast	-	47/200	2.66	1.18e-10	-	no
KW	0	plasma	-	36/200	3.14	2.43e-10	-	no
KW	0	membrane	-	54/200	2.03	7.80e-08	-	no
KW	0	vacuole	-	15/200	4.76	1.36e-07	-	no
KW	0	class	-	19/200	3.17	2.80e-06	-	no
KW	0	subfamily	-	13/200	4.03	5.17e-06	-	no
KW	0	stress	-	16/200	3.41	5.60e-06	6.00E-17	no
KW	0	active	-	21/200	2.57	2.65e-05	-	yes
KW	0	major	-	11/200	3.85	3.41e-05	-	no
KW	0	ipr008271	-	15/200	3.07	3.61e-05	-	yes
KW	0	synthase	-	14/200	3.19	3.97e-05	0	no
KW	0	regulator	-	11/200	3.76	4.26e-05	-	no
KW	0	transport	-	23/200	2.36	4.43e-05	-	no
KW	0	encodes	-	45/200	1.76	4.57e-05	-	yes
KW	0	phosphate	-	11/200	3.63	6.03e-05	-	no
KW	0	ipr017441	-	13/200	3.03	1.18e-04	-	yes
KW	0	stimulus	-	13/200	3.02	1.21e-04	-	no
KW	0	resistance	-	10/200	3.52	1.50e-04	-	no
KW	0	kinase	-	23/200	2.18	1.54e-04	0	yes
KW	0	ipr000719	-	16/200	2.57	1.90e-04	-	yes
KW	0	mediated	-	11/200	3.11	2.52e-04	-	no
KW	0	ipr017442	-	14/200	2.66	2.92e-04	-	yes
KW	0	ipr011009	-	16/200	2.47	2.92e-04	-	yes
KW	0	metabolic	-	23/200	2.00	5.28e-04	-	no
KW	0	putative	-	38/200	1.65	7.17e-04	-	no
KW	0	defense	-	10/200	2.87	8.31e-04	-	no
KW	0	catalytic	-	20/200	1.97	1.36e-03	2.44E-16	no
KW	0	threonine	-	16/200	2.13	1.50e-03	1.00E-37	yes
KW	0	terminal	-	32/200	1.66	1.57e-03	-	no
KW	0	serine	-	18/200	2.02	1.63e-03	1.00E-37	yes
KW	0	process	-	33/200	1.61	2.21e-03	-	no
KW	0	biosynthetic	-	15/200	2.10	2.33e-03	-	no
KW	0	hydrolase	-	15/200	2.06	2.86e-03	-	no
KW	0	phosphorylation	-	13/200	2.12	3.72e-03	5.50E-16	yes
KW	0	dependent	-	23/200	1.72	4.06e-03	3.00E-37	no
KW	0	subunit	-	14/200	1.91	7.15e-03	1.00E-30	no

(*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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