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
OMAT1P119840	0.917471	-	AT1G76380	DNA-binding bromodomain-containing protein	-	-
OMAT1P000840	0.911866	-	-	-	AT1G03080	FUNCTIONS IN: molecular_function unknown
OMAT4P102340	0.902957	-	AT4G11800	hydrolase/ protein serine/threonine phosphatase	-	-
OMAT5P115420	0.898136	-	AT5G58380	SIP1 (SOS3-INTERACTING PROTEIN 1)	-	-
OMAT3P114790	0.89236	-	AT3G59770	SAC9	-	-
OMAT1P111390	0.890399	-	AT1G45249	ABF2 (ABSCISIC ACID RESPONSIVE ELEMENTS-BINDING FACTOR 2)	-	-
OMAT1P121440	0.886156	-	AT1G80610	unknown protein	-	-
OMAT5P106040	0.875531	-	AT5G20360	octicosapeptide/Phox/Bem1p (PB1) domain-containing protein / tetratricopeptide repeat (TPR)-containing protein	-	-
OMAT1P022930	0.872055	-	AT1G77740	1-phosphatidylinositol-4-phosphate 5-kinase, putative / PIP kinase, putative / PtdIns(4)P-5-kinase, putative / diphosphoinositide kinase, putative	-	-
OMAT2P003170	0.869048	-	AT2G19160	unknown protein	-	-
Negatively Correlated Genes
Gens	PCC	Definition	Overlap gene	Definition	Overlap gene(antisense)	Definition
OMAT4P001410	-0.666329	-	AT4G04200	peptidase	-	-
OMAT2P012160	-0.651684	-	AT2G44080	ARL (ARGOS-LIKE)	-	-
OMAT5P020200	-0.647125	-	AT5G65410	HB25 (HOMEOBOX PROTEIN 25)	-	-
OMAT3P114810	-0.641227	-	AT3G59840	unknown protein	-	-
OMAT3P003400	-0.636208	-	AT3G09860	unknown protein	-	-
OMAT2P112460	-0.628067	-	AT2G47840	tic20 protein-related	-	-
OMAT3P102050	-0.623395	-	AT3G06050	PRXIIF (PEROXIREDOXIN IIF)	-	-
OMAT5P015370	-0.623213	-	AT5G52960	unknown protein	-	-
OMAT4P004460	-0.618749	-	AT4G15630	integral membrane family protein	-	-
OMAT4P011100	-0.60029	-	AT4G32930	unknown protein	-	-

Get whole results

Over-Representation Analysis Result

	p-value	<= 2.38e-19	:20 terms with high significance
2.38e-19 <	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	4	GO:0010033	response to organic substance	20/200	2.99	4.04e-06	-	no
B	3	GO:0042221	response to chemical stimulus	27/200	2.37	1.05e-05	-	no
B	3	GO:0006810	transport	24/200	2.34	3.63e-05	-	no
B	3	GO:0051234	establishment of localization	24/200	2.34	3.81e-05	-	no
B	4	GO:0048513	organ development	14/200	3.16	4.36e-05	-	no
B	4	GO:0048731	system development	14/200	3.16	4.42e-05	-	no
B	5	GO:0006464	protein modification process	24/200	2.31	4.68e-05	-	no
B	4	GO:0006970	response to osmotic stress	10/200	3.99	4.94e-05	-	no
B	3	GO:0019222	regulation of metabolic process	25/200	2.12	1.29e-04	-	no
B	4	GO:0043412	macromolecule modification	24/200	2.12	1.80e-04	-	no
B	4	GO:0031323	regulation of cellular metabolic process	23/200	2.13	2.21e-04	-	no
B	4	GO:0009725	response to hormone stimulus	13/200	2.75	3.14e-04	-	no
B	4	GO:0080090	regulation of primary metabolic process	22/200	2.09	3.77e-04	-	no
B	5	GO:0006796	phosphate metabolic process	16/200	2.41	3.96e-04	-	no
B	4	GO:0006793	phosphorus metabolic process	16/200	2.41	4.00e-04	-	no
B	3	GO:0044238	primary metabolic process	70/200	1.41	4.51e-04	-	no
B	4	GO:0009889	regulation of biosynthetic process	21/200	2.09	4.88e-04	-	no
B	5	GO:0031326	regulation of cellular biosynthetic process	21/200	2.09	4.88e-04	-	no
B	3	GO:0009628	response to abiotic stimulus	17/200	2.29	4.97e-04	-	no
B	3	GO:0050789	regulation of biological process	31/200	1.79	5.19e-04	-	no
B	4	GO:0051171	regulation of nitrogen compound metabolic process	21/200	2.07	5.45e-04	-	no
B	3	GO:0044237	cellular metabolic process	67/200	1.42	5.56e-04	-	no
B	3	GO:0050794	regulation of cellular process	28/200	1.84	6.35e-04	-	no
B	4	GO:0060255	regulation of macromolecule metabolic process	22/200	2.01	6.41e-04	-	no
B	3	GO:0009719	response to endogenous stimulus	13/200	2.52	7.34e-04	-	no
B	5	GO:0010556	regulation of macromolecule biosynthetic process	20/200	2.03	9.27e-04	-	no
B	5	GO:0010468	regulation of gene expression	21/200	1.97	1.06e-03	-	no
B	5	GO:0019219	regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	20/200	1.99	1.15e-03	-	no
B	5	GO:0006350	transcription	20/200	1.96	1.44e-03	-	no
B	3	GO:0048856	anatomical structure development	18/200	2.01	1.70e-03	-	no
B	3	GO:0007275	multicellular organismal development	20/200	1.88	2.32e-03	-	no
B	5	GO:0051252	regulation of RNA metabolic process	12/200	2.30	2.45e-03	-	no
B	4	GO:0044260	cellular macromolecule metabolic process	50/200	1.42	3.22e-03	-	no
B	4	GO:0034641	cellular nitrogen compound metabolic process	31/200	1.59	3.46e-03	-	no
B	5	GO:0032774	RNA biosynthetic process	12/200	2.19	3.65e-03	-	no
B	3	GO:0006807	nitrogen compound metabolic process	31/200	1.56	4.64e-03	-	no
B	3	GO:0043170	macromolecule metabolic process	53/200	1.37	5.16e-03	-	no
B	5	GO:0090304	nucleic acid metabolic process	24/200	1.60	8.50e-03	-	no

C	3	GO:0016020	membrane	43/200	1.57	8.81e-04	3.64E-21	yes
C	4	GO:0005886	plasma membrane	21/200	1.70	6.53e-03	3.64E-21	yes
C	3	GO:0044464	cell part	108/200	1.18	7.86e-03	-	yes

M	3	GO:0005515	protein binding	42/200	2.68	9.93e-10	3.00E-08	no
M	5	GO:0016301	kinase activity	22/200	2.73	6.45e-06	-	no
M	5	GO:0016773	phosphotransferase activity, alcohol group as acceptor	18/200	2.90	1.69e-05	-	no
M	4	GO:0016772	transferase activity, transferring phosphorus-containing groups	22/200	2.40	5.02e-05	-	no
M	3	GO:0016740	transferase activity	31/200	1.90	1.92e-04	-	no
M	4	GO:0003677	DNA binding	26/200	1.88	6.78e-04	3.00E-08	no
M	5	GO:0030554	adenyl nucleotide binding	19/200	2.10	7.90e-04	-	no
M	4	GO:0001883	purine nucleoside binding	19/200	2.10	7.90e-04	-	no
M	3	GO:0001882	nucleoside binding	19/200	2.09	8.16e-04	-	no
M	5	GO:0032555	purine ribonucleotide binding	20/200	2.04	8.85e-04	-	no
M	4	GO:0032553	ribonucleotide binding	20/200	2.04	8.85e-04	-	no
M	4	GO:0017076	purine nucleotide binding	20/200	1.93	1.76e-03	-	no
M	3	GO:0022892	substrate-specific transporter activity	12/200	2.32	2.22e-03	-	no
M	5	GO:0016818	hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides	10/200	2.25	5.42e-03	-	no
M	4	GO:0016817	hydrolase activity, acting on acid anhydrides	10/200	2.23	5.81e-03	-	no
M	3	GO:0000166	nucleotide binding	22/200	1.67	6.83e-03	-	no

PS	5	PO:0009028	microsporophyll	158/200	1.88	1.39e-27	-	yes
PS	4	PO:0009026	sporophyll	159/200	1.77	2.61e-24	-	yes
PS	4	PO:0009047	stem	151/200	1.79	1.88e-22	-	yes
PS	3	PO:0006001	phyllome	167/200	1.63	2.16e-22	-	yes
PS	4	PO:0009025	leaf	157/200	1.71	8.52e-22	-	yes
PS	4	PO:0020030	cotyledon	139/200	1.89	9.89e-22	-	yes
PS	3	PO:0009005	root	154/200	1.71	5.06e-21	-	yes
PS	5	PO:0009027	megasporophyll	148/200	1.76	8.15e-21	-	yes
PS	3	PO:0009031	sepal	155/200	1.68	2.73e-20	-	yes
PS	4	PO:0009049	inflorescence	165/200	1.58	7.25e-20	-	yes
PS	3	PO:0009006	shoot	168/200	1.55	9.72e-20	-	yes
PS	3	PO:0020091	male gametophyte	145/200	1.75	1.29e-19	-	yes
PS	5	PO:0009046	flower	164/200	1.58	1.48e-19	-	yes
PS	3	PO:0009013	meristem	142/200	1.77	2.38e-19	-	yes
PS	5	PO:0020039	leaf lamina	144/200	1.75	2.55e-19	-	yes
PS	4	PO:0000230	inflorescence meristem	139/200	1.79	3.71e-19	-	yes
PS	5	PO:0008034	leaf whorl	154/200	1.63	1.26e-18	-	yes
PS	4	PO:0008033	phyllome whorl	154/200	1.63	1.26e-18	-	yes
PS	4	PO:0009009	embryo	156/200	1.61	1.42e-18	-	yes
PS	5	PO:0008037	seedling	148/200	1.68	2.20e-18	-	yes
PS	4	PO:0009001	fruit	157/200	1.60	2.92e-18	-	yes
PS	3	PO:0006342	infructescence	157/200	1.60	2.92e-18	-	yes
PS	3	PO:0009010	seed	156/200	1.59	6.13e-18	-	yes
PS	5	PO:0020038	petiole	132/200	1.73	3.13e-16	-	yes
PS	5	PO:0000013	cauline leaf	133/200	1.72	3.77e-16	-	yes
PS	3	PO:0009032	petal	142/200	1.62	1.86e-15	-	yes
PS	4	PO:0006345	pollen tube	73/200	2.51	3.27e-15	-	no
PS	4	PO:0000037	shoot apex	137/200	1.59	9.30e-14	-	yes
PS	5	PO:0009052	pedicel	132/200	1.62	1.26e-13	-	yes
PS	3	PO:0000084	sperm cell	56/200	1.73	8.61e-06	-	no
PS	3	PO:0020097	generative cell	56/200	1.73	8.61e-06	-	no
PS	3	PO:0004013	epidermal cell	22/200	1.84	1.98e-03	-	no
PS	5	PO:0000349	epidermal initial	21/200	1.86	2.15e-03	-	no
PS	4	PO:0004011	initial cell	21/200	1.85	2.33e-03	-	no
PS	3	PO:0004010	meristematic cell	21/200	1.85	2.37e-03	-	no
PS	4	PO:0000293	guard cell	20/200	1.86	2.70e-03	-	no
PS	4	PO:0000351	guard mother cell	20/200	1.85	2.84e-03	-	no
PS	3	PO:0000070	meristemoid	20/200	1.85	2.90e-03	-	no
PS	4	PO:0005679	epidermis	22/200	1.78	3.17e-03	-	no
PS	3	PO:0009014	dermal tissue	22/200	1.78	3.19e-03	-	no
PS	5	PO:0006016	leaf epidermis	20/200	1.80	3.95e-03	-	no
PS	5	PO:0006035	shoot epidermis	20/200	1.79	4.28e-03	-	no

PG	4	PO:0007616	4 anthesis	161/200	1.66	1.62e-21	-	yes
PG	3	PO:0007615	flower development stages	167/200	1.59	3.73e-21	-	yes
PG	3	PO:0007134	A vegetative growth	147/200	1.74	8.92e-20	-	yes
PG	5	PO:0007133	leaf production	146/200	1.74	1.59e-19	-	yes
PG	4	PO:0007112	1 main shoot growth	146/200	1.74	1.63e-19	-	yes
PG	4	PO:0007600	3 floral organ development stages	162/200	1.59	1.93e-19	-	yes
PG	5	PO:0007604	corolla developmental stages	157/200	1.59	4.60e-18	-	yes
PG	5	PO:0001185	C globular stage	140/200	1.71	2.77e-17	-	yes
PG	4	PO:0007631	embryo development stages	147/200	1.63	6.98e-17	-	yes
PG	3	PO:0001170	seed development stages	147/200	1.63	1.11e-16	-	yes
PG	4	PO:0001054	4 leaf senescence stage	132/200	1.72	8.13e-16	-	yes
PG	3	PO:0001050	leaf development stages	132/200	1.72	8.55e-16	-	yes
PG	5	PO:0007605	androecium developmental stages	73/200	2.49	4.31e-15	-	no
PG	5	PO:0004507	D bilateral stage	134/200	1.63	4.57e-14	-	yes
PG	5	PO:0001078	E expanded cotyledon stage	134/200	1.61	9.12e-14	-	yes
PG	5	PO:0001081	F mature embryo stage	128/200	1.61	1.28e-12	-	yes

KW	0	ipr016024	-	11/200	5.96	4.03e-07	-	no
KW	0	helical	-	14/200	4.65	4.35e-07	-	no
KW	0	armadillo	-	11/200	5.88	4.63e-07	-	no
KW	0	ubiquitin	-	16/200	3.56	3.17e-06	-	no
KW	0	amino	-	22/200	2.55	1.90e-05	-	no
KW	0	finger	-	23/200	2.49	1.98e-05	9.00E-06	no
KW	0	kinase	-	25/200	2.37	2.12e-05	3.00E-18	yes
KW	0	ipr013083	-	11/200	3.51	8.25e-05	-	no
KW	0	response	-	34/200	1.90	9.73e-05	-	no
KW	0	region	-	29/200	2.01	1.12e-04	1.00E-09	no
KW	0	transport	-	22/200	2.26	1.22e-04	-	no
KW	0	threonine	-	18/200	2.40	2.05e-04	-	no
KW	0	processes	-	10/200	3.30	2.59e-04	-	no
KW	0	transcription	-	28/200	1.93	2.86e-04	-	no
KW	0	ipr001841	-	10/200	3.26	2.86e-04	-	no
KW	0	ipr011009	-	16/200	2.47	2.92e-04	-	no
KW	0	membrane	-	43/200	1.62	4.84e-04	3.64E-21	yes
KW	0	phosphorylation	-	15/200	2.44	4.91e-04	-	no
KW	0	mediated	-	10/200	2.83	9.28e-04	-	no
KW	0	ipr017441	-	11/200	2.56	1.37e-03	-	no
KW	0	serine	-	18/200	2.02	1.63e-03	-	no
KW	0	transporter	-	15/200	2.16	1.77e-03	-	no
KW	0	ligase	-	10/200	2.56	2.02e-03	-	no
KW	0	ipr017442	-	12/200	2.28	2.62e-03	-	no
KW	0	related	-	42/200	1.50	2.62e-03	-	no
KW	0	stress	-	11/200	2.34	2.84e-03	-	no
KW	0	active	-	16/200	1.95	3.70e-03	-	no
KW	0	ipr008271	-	11/200	2.25	3.92e-03	-	no
KW	0	ipr000719	-	13/200	2.09	4.19e-03	-	no
KW	0	plasma	-	20/200	1.74	5.56e-03	3.64E-21	yes
KW	0	encodes	-	37/200	1.45	7.61e-03	-	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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