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
AT5G47690.3	0.924483	binding	OMAT5P013520	-	-	-
AT3G24660.1	0.906634	TMKL1 (transmembrane kinase-like 1)	OMAT3P009280	-	-	-
AT4G04970.1	0.895992	GSL1 (GLUCAN SYNTHASE-LIKE 1)	OMAT4P001640	-	-	-
AT5G41020.1	0.895658	myb family transcription factor	OMAT5P109740	-	-	-
AT1G04010.1	0.890651	phosphatidate-sterol O-acyltransferase/ phosphatidylcholine-sterol O-acyltransferase/ phosphatidylethanolamine-sterol O-acyltransferase	-	-	-	-
AT1G45160.2	0.883568	kinase	OMAT1P111360	-	-	-
AT3G51075.1	0.882457	other RNA	-	-	OMAT3P013600	-
AT2G01130.1	0.881202	ATP binding / ATP-dependent helicase/ RNA binding / double-stranded RNA binding / helicase/ nucleic acid binding	OMAT2P100050	-	-	-
AT5G10200.1	0.879342	binding	OMAT5P003440	-	-	-
AT5G47100.1	0.872722	CBL9	OMAT5P111810	-	-	-
Negatively Correlated Genes
Gens	PCC	Definition	Overlap gene	Definition	Overlap gene(antisense)	Definition
AT1G62510.1	-0.754672	protease inhibitor/seed storage/lipid transfer protein (LTP) family protein	OMAT1P115300	-	OMAT1P017040	-
AT4G00416.1	-0.753899	MBD3	-	-	-	-
AT4G07680.1	-0.75227	transposable element gene	-	-	-	-
AT4G07516.1	-0.748322	transposable element gene	-	-	-	-
AT2G23120.1	-0.743637	FUNCTIONS IN: molecular_function unknown	OMAT2P004580	-	-	-
AT5G13475.1	-0.737653	transposable element gene	-	-	-	-
AT1G45063.1	-0.732266	copper ion binding / electron carrier	-	-	-	-
AT2G19893.1	-0.723815	Encodes a defensin-like (DEFL) family protein.	-	-	-	-
AT4G09360.1	-0.717789	disease resistance protein (NBS-LRR class), putative	-	-	-	-
AT5G37200.1	-0.708065	zinc finger (C3HC4-type RING finger) family protein	-	-	-	-

Get whole results

Over-Representation Analysis Result

	p-value	<= 4.22e-20	:20 terms with high significance
4.22e-20 <	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:0044260	cellular macromolecule metabolic process	62/200	1.76	1.23e-06	-	no
B	5	GO:0006796	phosphate metabolic process	20/200	3.01	3.62e-06	-	no
B	4	GO:0006793	phosphorus metabolic process	20/200	3.01	3.67e-06	-	no
B	3	GO:0019222	regulation of metabolic process	28/200	2.38	6.78e-06	-	no
B	3	GO:0043170	macromolecule metabolic process	64/200	1.65	6.80e-06	-	no
B	4	GO:0080090	regulation of primary metabolic process	26/200	2.47	7.09e-06	-	no
B	5	GO:0010468	regulation of gene expression	26/200	2.44	8.79e-06	-	no
B	4	GO:0060255	regulation of macromolecule metabolic process	26/200	2.38	1.42e-05	-	no
B	5	GO:0019219	regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	24/200	2.39	2.54e-05	-	no
B	3	GO:0044237	cellular metabolic process	72/200	1.52	2.80e-05	-	no
B	4	GO:0051171	regulation of nitrogen compound metabolic process	24/200	2.37	3.00e-05	-	no
B	4	GO:0031323	regulation of cellular metabolic process	25/200	2.31	3.20e-05	-	no
B	5	GO:0006350	transcription	24/200	2.35	3.40e-05	-	no
B	5	GO:0006464	protein modification process	24/200	2.31	4.68e-05	-	no
B	5	GO:0010556	regulation of macromolecule biosynthetic process	23/200	2.33	5.37e-05	-	no
B	4	GO:0043412	macromolecule modification	25/200	2.20	7.05e-05	-	no
B	4	GO:0009889	regulation of biosynthetic process	23/200	2.29	7.25e-05	-	no
B	5	GO:0031326	regulation of cellular biosynthetic process	23/200	2.29	7.25e-05	-	no
B	3	GO:0050789	regulation of biological process	33/200	1.91	1.09e-04	-	yes
B	3	GO:0044238	primary metabolic process	72/200	1.45	1.45e-04	-	no
B	4	GO:0006139	nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	32/200	1.90	1.53e-04	-	no
B	3	GO:0007275	multicellular organismal development	23/200	2.17	1.69e-04	-	no
B	5	GO:0090304	nucleic acid metabolic process	29/200	1.93	2.23e-04	-	no
B	3	GO:0009791	post-embryonic development	15/200	2.53	3.26e-04	-	no
B	4	GO:0034641	cellular nitrogen compound metabolic process	33/200	1.70	9.30e-04	-	no
B	3	GO:0006807	nitrogen compound metabolic process	33/200	1.66	1.30e-03	-	no
B	3	GO:0050794	regulation of cellular process	26/200	1.70	2.75e-03	-	yes
B	3	GO:0006810	transport	19/200	1.85	3.41e-03	-	no
B	3	GO:0051234	establishment of localization	19/200	1.85	3.52e-03	-	no
B	3	GO:0048856	anatomical structure development	17/200	1.90	3.97e-03	-	no
B	5	GO:0016070	RNA metabolic process	16/200	1.88	5.39e-03	-	no
B	4	GO:0010467	gene expression	31/200	1.52	6.76e-03	-	no
B	5	GO:0044267	cellular protein metabolic process	31/200	1.52	6.93e-03	-	no
B	5	GO:0034645	cellular macromolecule biosynthetic process	32/200	1.48	8.82e-03	-	no
B	4	GO:0009059	macromolecule biosynthetic process	32/200	1.48	9.22e-03	-	no
B	5	GO:0032774	RNA biosynthetic process	11/200	2.01	9.43e-03	-	no

C	4	GO:0005886	plasma membrane	41/200	3.31	2.40e-12	-	no
C	3	GO:0016020	membrane	54/200	1.97	2.02e-07	-	no
C	5	GO:0005634	nucleus	33/200	2.11	1.43e-05	-	no
C	3	GO:0044464	cell part	119/200	1.30	3.43e-05	-	yes
C	3	GO:0005622	intracellular	72/200	1.35	1.32e-03	-	yes
C	3	GO:0044424	intracellular part	69/200	1.35	1.70e-03	-	yes
C	4	GO:0043231	intracellular membrane-bounded organelle	59/200	1.34	4.87e-03	-	yes
C	3	GO:0043227	membrane-bounded organelle	59/200	1.34	4.88e-03	-	yes
C	3	GO:0043234	protein complex	13/200	1.99	6.37e-03	-	no
C	3	GO:0043229	intracellular organelle	60/200	1.30	9.43e-03	-	yes

M	4	GO:0016772	transferase activity, transferring phosphorus-containing groups	24/200	2.62	5.65e-06	-	no
M	4	GO:0003677	DNA binding	31/200	2.24	7.96e-06	1.00E-06	no
M	3	GO:0003700	transcription factor activity	25/200	2.48	9.90e-06	-	no
M	5	GO:0016773	phosphotransferase activity, alcohol group as acceptor	18/200	2.90	1.69e-05	-	no
M	5	GO:0016301	kinase activity	21/200	2.61	2.05e-05	-	no
M	3	GO:0016740	transferase activity	32/200	1.96	8.45e-05	-	no
M	3	GO:0005515	protein binding	31/200	1.98	8.59e-05	1.00E-06	no
M	4	GO:0022804	active transmembrane transporter activity	11/200	3.24	1.72e-04	-	no
M	3	GO:0022892	substrate-specific transporter activity	14/200	2.71	2.37e-04	-	no
M	3	GO:0003676	nucleic acid binding	40/200	1.69	3.17e-04	-	no
M	5	GO:0015075	ion transmembrane transporter activity	10/200	3.19	3.43e-04	-	no
M	4	GO:0022891	substrate-specific transmembrane transporter activity	12/200	2.72	5.34e-04	-	no
M	3	GO:0022857	transmembrane transporter activity	13/200	2.31	1.65e-03	-	no
M	5	GO:0030554	adenyl nucleotide binding	17/200	1.88	4.43e-03	-	no
M	4	GO:0001883	purine nucleoside binding	17/200	1.88	4.43e-03	-	no
M	3	GO:0001882	nucleoside binding	17/200	1.87	4.55e-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	5	GO:0032555	purine ribonucleotide binding	17/200	1.73	9.93e-03	-	no
M	4	GO:0032553	ribonucleotide binding	17/200	1.73	9.93e-03	-	no

PS	3	PO:0009013	meristem	154/200	1.92	4.49e-27	-	yes
PS	4	PO:0000230	inflorescence meristem	151/200	1.94	9.06e-27	-	yes
PS	5	PO:0009052	pedicel	150/200	1.84	1.06e-23	-	yes
PS	5	PO:0000013	cauline leaf	146/200	1.89	1.08e-23	-	yes
PS	5	PO:0020039	leaf lamina	151/200	1.83	1.19e-23	-	yes
PS	4	PO:0009047	stem	151/200	1.79	1.88e-22	-	yes
PS	5	PO:0009027	megasporophyll	149/200	1.77	1.97e-21	-	yes
PS	4	PO:0000037	shoot apex	150/200	1.74	8.03e-21	-	yes
PS	5	PO:0008037	seedling	152/200	1.72	9.12e-21	-	yes
PS	3	PO:0009010	seed	160/200	1.64	2.20e-20	-	yes
PS	4	PO:0009001	fruit	160/200	1.63	4.22e-20	-	yes
PS	3	PO:0006342	infructescence	160/200	1.63	4.22e-20	-	yes
PS	4	PO:0009025	leaf	154/200	1.67	6.60e-20	-	yes
PS	3	PO:0009005	root	152/200	1.69	8.64e-20	-	yes
PS	3	PO:0009031	sepal	154/200	1.67	1.12e-19	-	yes
PS	5	PO:0008034	leaf whorl	155/200	1.64	3.19e-19	-	yes
PS	4	PO:0008033	phyllome whorl	155/200	1.64	3.19e-19	-	yes
PS	4	PO:0009009	embryo	157/200	1.62	3.55e-19	-	yes
PS	3	PO:0009032	petal	148/200	1.69	1.00e-18	-	yes
PS	4	PO:0009026	sporophyll	150/200	1.67	1.35e-18	-	yes
PS	3	PO:0006001	phyllome	160/200	1.56	7.32e-18	-	yes
PS	5	PO:0009046	flower	161/200	1.55	1.07e-17	-	yes
PS	4	PO:0009049	inflorescence	161/200	1.54	2.21e-17	-	yes
PS	3	PO:0009006	shoot	164/200	1.51	3.29e-17	-	yes
PS	5	PO:0009028	microsporophyll	140/200	1.67	2.46e-16	-	yes
PS	5	PO:0020038	petiole	130/200	1.71	3.21e-15	-	yes
PS	4	PO:0020030	cotyledon	126/200	1.72	1.21e-14	-	yes
PS	3	PO:0020091	male gametophyte	134/200	1.62	8.43e-14	-	yes
PS	4	PO:0005679	epidermis	26/200	2.10	1.16e-04	-	no
PS	3	PO:0009014	dermal tissue	26/200	2.10	1.17e-04	-	no
PS	3	PO:0004013	epidermal cell	24/200	2.01	3.82e-04	-	no
PS	5	PO:0006035	shoot epidermis	21/200	1.88	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: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	5	PO:0006016	leaf epidermis	20/200	1.80	3.95e-03	-	no
PS	4	PO:0000293	guard cell	19/200	1.77	5.80e-03	-	no

PG	5	PO:0001078	E expanded cotyledon stage	153/200	1.84	1.27e-24	-	yes
PG	4	PO:0001054	4 leaf senescence stage	146/200	1.90	6.55e-24	-	yes
PG	3	PO:0001050	leaf development stages	146/200	1.90	6.98e-24	-	yes
PG	4	PO:0007631	embryo development stages	158/200	1.75	1.35e-23	-	yes
PG	3	PO:0001170	seed development stages	158/200	1.75	2.34e-23	-	yes
PG	5	PO:0001185	C globular stage	148/200	1.80	5.93e-22	-	yes
PG	5	PO:0004507	D bilateral stage	148/200	1.80	9.24e-22	-	yes
PG	5	PO:0001081	F mature embryo stage	144/200	1.81	5.30e-21	-	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	159/200	1.61	2.86e-19	-	yes
PG	4	PO:0007616	4 anthesis	156/200	1.61	2.17e-18	-	yes
PG	3	PO:0007615	flower development stages	162/200	1.55	6.10e-18	-	yes
PG	3	PO:0007134	A vegetative growth	143/200	1.69	1.71e-17	-	yes
PG	5	PO:0007133	leaf production	142/200	1.69	2.89e-17	-	yes
PG	4	PO:0007112	1 main shoot growth	142/200	1.69	2.96e-17	-	yes
PG	5	PO:0007605	androecium developmental stages	44/200	1.50	1.89e-03	-	no

KW	0	plasma	-	42/200	3.66	4.11e-14	-	no
KW	0	phosphorylation	-	22/200	3.58	6.44e-08	-	no
KW	0	membrane	-	54/200	2.03	7.80e-08	-	no
KW	0	amino	-	25/200	2.90	5.53e-07	-	no
KW	0	threonine	-	21/200	2.80	6.93e-06	-	no
KW	0	transcription	-	32/200	2.20	7.96e-06	-	no
KW	0	ipr002290	-	12/200	4.07	9.58e-06	-	no
KW	0	nucleus	-	29/200	2.25	1.40e-05	-	no
KW	0	ipr000719	-	18/200	2.89	1.79e-05	-	no
KW	0	regulation	-	29/200	2.19	2.22e-05	-	no
KW	0	transporter	-	19/200	2.73	2.45e-05	-	no
KW	0	development	-	19/200	2.72	2.57e-05	-	no
KW	0	ipr011009	-	18/200	2.78	2.95e-05	-	no
KW	0	superfamily	-	13/200	3.43	3.11e-05	-	no
KW	0	serine	-	22/200	2.47	3.24e-05	-	no
KW	0	dimerisation	-	10/200	4.16	3.39e-05	-	no
KW	0	ipr008271	-	15/200	3.07	3.61e-05	-	no
KW	0	ipr017441	-	12/200	2.79	4.18e-04	-	no
KW	0	region	-	27/200	1.87	5.86e-04	-	yes
KW	0	kinase	-	21/200	1.99	9.37e-04	-	no
KW	0	tyrosine	-	10/200	2.82	9.54e-04	-	no
KW	0	transmembrane	-	16/200	2.20	1.06e-03	-	no
KW	0	factor	-	30/200	1.71	1.30e-03	4.00E-05	no
KW	0	complex	-	17/200	2.01	2.22e-03	-	no
KW	0	encodes	-	39/200	1.53	2.51e-03	-	no
KW	0	ipr017442	-	12/200	2.28	2.62e-03	-	no
KW	0	terminal	-	31/200	1.61	3.00e-03	-	no
KW	0	receptor	-	11/200	2.31	3.18e-03	-	no
KW	0	active	-	16/200	1.95	3.70e-03	-	no
KW	0	leucine	-	11/200	2.10	6.86e-03	-	no
KW	0	containing	-	26/200	1.56	8.82e-03	2.00E-99	no
KW	0	expression	-	10/200	2.07	9.78e-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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