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
AT3G20390.1	0.839431	endoribonuclease L-PSP family protein	OMAT3P106750	-	-	-
AT1G80350.1	0.82253	ERH3 (ECTOPIC ROOT HAIR 3)	-	-	-	-
AT1G12840.1	0.808089	DET3 (DE-ETIOLATED 3)	-	-	-	-
AT2G43350.1	0.805192	ATGPX3 (GLUTATHIONE PEROXIDASE 3)	-	-	-	-
AT1G56590.1	0.804562	clathrin adaptor complexes medium subunit family protein	OMAT1P114130	-	-	-
AT3G62120.1	0.802554	tRNA synthetase class II (G, H, P and S) family protein	OMAT3P115480	-	-	-
AT5G13980.1	0.798645	glycosyl hydrolase family 38 protein	OMAT5P004760	-	-	-
AT3G12600.1	0.7965	atnudt16 (Arabidopsis thaliana Nudix hydrolase homolog 16)	OMAT3P004410	-	-	-
AT1G34010.1	0.793153	unknown protein	OMAT1P110600	-	-	-
AT2G39960.1	0.787245	microsomal signal peptidase 25 kDa subunit, putative (SPC25)	-	-	-	-
Negatively Correlated Genes
Gens	PCC	Definition	Overlap gene	Definition	Overlap gene(antisense)	Definition
AT1G44414.1	-0.890345	unknown protein	OMAT1P012610	-	-	-
AT3G14700.1	-0.889743	FUNCTIONS IN: molecular_function unknown	OMAT3P005245	-	-	-
AT1G09400.1	-0.868733	12-oxophytodienoate reductase, putative	-	-	-	-
AT3G01990.1	-0.864565	ACR6	OMAT3P000470	-	-	-
AT3G42990.1	-0.861984	unknown protein	-	-	-	-
AT5G59400.2	-0.858876	unknown protein	OMAT5P018070	-	-	-
AT4G21323.1	-0.858629	subtilase family protein	OMAT4P006500	-	-	-
AT1G23050.1	-0.857165	hydroxyproline-rich glycoprotein family protein	OMAT1P008490	-	OMAT1P107430	-
AT2G29950.1	-0.847453	ELF4-L1 (ELF4-Like 1)	OMAT2P006960	-	-	-
AT3G52770.1	-0.845144	ZPR3 (LITTLE ZIPPER 3)	OMAT3P112420	-	-	-

Get whole results

Over-Representation Analysis Result

	p-value	<= 2.09e-34	:20 terms with high significance
2.09e-34 <	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:0044281	small molecule metabolic process	37/200	4.12	4.14e-14	-	yes
B	5	GO:0044271	cellular nitrogen compound biosynthetic process	17/200	6.42	2.25e-10	-	no
B	5	GO:0010038	response to metal ion	16/200	6.67	3.91e-10	-	yes
B	4	GO:0010035	response to inorganic substance	17/200	5.96	7.37e-10	-	yes
B	4	GO:0044283	small molecule biosynthetic process	21/200	4.62	1.28e-09	-	no
B	5	GO:0044106	cellular amine metabolic process	15/200	6.60	1.44e-09	-	no
B	5	GO:0006520	cellular amino acid metabolic process	14/200	6.65	4.03e-09	-	no
B	5	GO:0043436	oxoacid metabolic process	20/200	4.54	4.10e-09	-	no
B	4	GO:0006082	organic acid metabolic process	20/200	4.53	4.30e-09	-	no
B	4	GO:0009308	amine metabolic process	15/200	6.00	5.62e-09	-	no
B	4	GO:0042180	cellular ketone metabolic process	20/200	4.46	5.70e-09	-	no
B	4	GO:0008104	protein localization	14/200	6.05	1.44e-08	-	no
B	3	GO:0044237	cellular metabolic process	82/200	1.74	1.53e-08	-	yes
B	3	GO:0051649	establishment of localization in cell	15/200	5.57	1.59e-08	-	no
B	4	GO:0046907	intracellular transport	14/200	5.89	2.03e-08	-	no
B	4	GO:0015031	protein transport	13/200	5.95	5.03e-08	-	no
B	3	GO:0045184	establishment of protein localization	13/200	5.95	5.03e-08	-	no
B	3	GO:0051641	cellular localization	15/200	5.10	5.32e-08	-	no
B	5	GO:0006886	intracellular protein transport	11/200	6.90	8.30e-08	-	no
B	4	GO:0006091	generation of precursor metabolites and energy	11/200	6.88	8.64e-08	-	yes
B	4	GO:0006519	cellular amino acid and derivative metabolic process	16/200	4.60	9.30e-08	-	no
B	3	GO:0006810	transport	29/200	2.83	1.31e-07	-	no
B	3	GO:0051234	establishment of localization	29/200	2.82	1.39e-07	-	no
B	5	GO:0034613	cellular protein localization	11/200	6.49	1.63e-07	-	no
B	4	GO:0070727	cellular macromolecule localization	11/200	6.10	3.16e-07	-	no
B	4	GO:0055086	nucleobase, nucleoside and nucleotide metabolic process	10/200	6.55	4.53e-07	-	no
B	3	GO:0033036	macromolecule localization	15/200	4.34	4.70e-07	-	no
B	4	GO:0006066	alcohol metabolic process	10/200	6.42	5.49e-07	-	yes
B	3	GO:0009058	biosynthetic process	55/200	1.89	6.28e-07	-	no
B	5	GO:0009651	response to salt stress	12/200	5.22	6.32e-07	-	yes
B	3	GO:0009628	response to abiotic stimulus	22/200	2.97	1.65e-06	-	yes
B	4	GO:0006970	response to osmotic stress	12/200	4.78	1.68e-06	-	yes
B	3	GO:0044238	primary metabolic process	78/200	1.57	2.95e-06	-	yes
B	3	GO:0042221	response to chemical stimulus	28/200	2.46	3.65e-06	-	yes
B	4	GO:0044249	cellular biosynthetic process	51/200	1.81	5.96e-06	-	no
B	4	GO:0044262	cellular carbohydrate metabolic process	12/200	3.88	1.59e-05	-	yes
B	4	GO:0046483	heterocycle metabolic process	10/200	3.70	9.72e-05	-	no
B	4	GO:0034641	cellular nitrogen compound metabolic process	35/200	1.80	2.19e-04	-	no
B	4	GO:0005975	carbohydrate metabolic process	14/200	2.69	2.58e-04	-	yes
B	3	GO:0006807	nitrogen compound metabolic process	35/200	1.76	3.19e-04	-	no
B	5	GO:0006796	phosphate metabolic process	15/200	2.26	1.11e-03	-	no
B	4	GO:0006793	phosphorus metabolic process	15/200	2.26	1.12e-03	-	no
B	3	GO:0006950	response to stress	22/200	1.77	3.23e-03	-	yes
B	5	GO:0044267	cellular protein metabolic process	31/200	1.52	6.93e-03	-	yes
B	3	GO:0048856	anatomical structure development	16/200	1.79	8.75e-03	-	no

C	4	GO:0005737	cytoplasm	108/200	2.88	9.37e-30	-	yes
C	4	GO:0044444	cytoplasmic part	99/200	2.85	3.49e-26	-	yes
C	3	GO:0044424	intracellular part	119/200	2.33	4.92e-25	-	yes
C	3	GO:0005622	intracellular	121/200	2.27	1.52e-24	-	yes
C	3	GO:0043229	intracellular organelle	109/200	2.36	1.63e-22	-	yes
C	4	GO:0043231	intracellular membrane-bounded organelle	105/200	2.39	7.55e-22	-	yes
C	3	GO:0043227	membrane-bounded organelle	105/200	2.39	7.64e-22	-	yes
C	3	GO:0016020	membrane	76/200	2.77	1.93e-18	3.64E-21	yes
C	3	GO:0044464	cell part	148/200	1.62	1.08e-16	-	yes
C	4	GO:0005886	plasma membrane	42/200	3.39	5.68e-13	3.64E-21	yes
C	5	GO:0005773	vacuole	22/200	6.37	9.34e-13	7.27E-21	yes
C	5	GO:0005740	mitochondrial envelope	14/200	11.70	1.47e-12	-	no
C	5	GO:0005739	mitochondrion	29/200	4.53	2.16e-12	3.64E-21	yes
C	4	GO:0044429	mitochondrial part	14/200	10.03	1.34e-11	-	no
C	3	GO:0044446	intracellular organelle part	43/200	3.00	1.77e-11	-	yes
C	3	GO:0044422	organelle part	43/200	3.00	1.82e-11	-	yes
C	3	GO:0031090	organelle membrane	19/200	6.51	1.85e-11	-	no
C	4	GO:0031966	mitochondrial membrane	12/200	10.73	1.22e-10	-	no
C	3	GO:0043234	protein complex	25/200	3.82	2.42e-09	-	no
C	4	GO:0019866	organelle inner membrane	11/200	8.67	6.69e-09	-	no
C	5	GO:0005743	mitochondrial inner membrane	10/200	9.90	6.70e-09	-	no
C	4	GO:0031967	organelle envelope	19/200	4.56	8.88e-09	-	no
C	3	GO:0031975	envelope	19/200	4.56	8.88e-09	-	no
C	3	GO:0044425	membrane part	25/200	3.16	1.08e-07	-	no
C	5	GO:0005730	nucleolus	10/200	5.83	1.40e-06	-	no
C	5	GO:0005783	endoplasmic reticulum	11/200	4.85	3.43e-06	-	no
C	5	GO:0009536	plastid	38/200	2.06	5.94e-06	3.64E-21	yes
C	5	GO:0005829	cytosol	14/200	3.38	2.02e-05	3.64E-21	yes
C	5	GO:0031981	nuclear lumen	10/200	4.14	3.55e-05	-	no
C	4	GO:0070013	intracellular organelle lumen	10/200	3.69	9.91e-05	-	no
C	3	GO:0043233	organelle lumen	10/200	3.68	1.01e-04	-	no
C	3	GO:0043228	non-membrane-bounded organelle	16/200	2.68	1.13e-04	-	no
C	4	GO:0043232	intracellular non-membrane-bounded organelle	16/200	2.68	1.13e-04	-	no
C	4	GO:0005618	cell wall	11/200	3.31	1.41e-04	-	yes
C	4	GO:0044428	nuclear part	11/200	3.31	1.44e-04	-	no
C	3	GO:0030312	external encapsulating structure	11/200	3.29	1.51e-04	-	yes
C	5	GO:0005634	nucleus	30/200	1.92	1.95e-04	2.33E-16	no

M	3	GO:0016491	oxidoreductase activity	20/200	2.37	1.19e-04	-	no
M	3	GO:0005515	protein binding	29/200	1.85	4.40e-04	-	no
M	3	GO:0016787	hydrolase activity	27/200	1.73	1.90e-03	-	no
M	3	GO:0016740	transferase activity	27/200	1.65	3.63e-03	-	no
M	3	GO:0022857	transmembrane transporter activity	12/200	2.14	4.49e-03	-	no
M	3	GO:0022892	substrate-specific transporter activity	11/200	2.13	6.07e-03	-	no
M	5	GO:0046872	metal ion binding	22/200	1.62	9.34e-03	-	yes

PS	5	PO:0020038	petiole	173/200	2.27	7.12e-47	-	yes
PS	5	PO:0020039	leaf lamina	176/200	2.14	1.98e-44	-	yes
PS	3	PO:0009013	meristem	170/200	2.12	3.09e-40	-	yes
PS	5	PO:0009052	pedicel	170/200	2.09	1.90e-39	-	yes
PS	5	PO:0000013	cauline leaf	166/200	2.15	4.20e-39	-	yes
PS	4	PO:0009025	leaf	178/200	1.94	9.37e-39	-	yes
PS	4	PO:0020030	cotyledon	159/200	2.17	3.87e-36	-	yes
PS	4	PO:0000037	shoot apex	170/200	1.98	1.01e-35	-	yes
PS	3	PO:0020091	male gametophyte	167/200	2.01	1.88e-35	-	yes
PS	5	PO:0009027	megasporophyll	167/200	1.99	1.14e-34	-	yes
PS	3	PO:0009005	root	172/200	1.91	1.45e-34	-	yes
PS	4	PO:0000230	inflorescence meristem	161/200	2.07	2.09e-34	-	yes
PS	3	PO:0009032	petal	168/200	1.92	8.49e-33	-	yes
PS	5	PO:0008037	seedling	168/200	1.90	2.40e-32	1.16E-17	yes
PS	3	PO:0006001	phyllome	179/200	1.75	4.45e-32	-	yes
PS	5	PO:0009028	microsporophyll	163/200	1.94	2.03e-31	-	yes
PS	3	PO:0009031	sepal	170/200	1.84	3.91e-31	-	yes
PS	4	PO:0009026	sporophyll	168/200	1.87	4.07e-31	-	yes
PS	4	PO:0009009	embryo	171/200	1.77	4.38e-29	-	yes
PS	5	PO:0008034	leaf whorl	169/200	1.79	5.29e-29	-	yes
PS	4	PO:0008033	phyllome whorl	169/200	1.79	5.29e-29	-	yes
PS	4	PO:0009047	stem	160/200	1.90	1.00e-28	-	yes
PS	3	PO:0009010	seed	171/200	1.75	2.71e-28	3.72E-17	yes
PS	3	PO:0009006	shoot	179/200	1.65	3.83e-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	4	PO:0000293	guard cell	56/200	5.20	5.17e-26	-	yes
PS	4	PO:0000351	guard mother cell	56/200	5.18	6.46e-26	-	yes
PS	3	PO:0000070	meristemoid	56/200	5.17	7.03e-26	-	yes
PS	5	PO:0000349	epidermal initial	57/200	5.05	7.63e-26	-	yes
PS	4	PO:0004011	initial cell	57/200	5.02	1.05e-25	-	yes
PS	3	PO:0004010	meristematic cell	57/200	5.01	1.14e-25	-	yes
PS	5	PO:0006016	leaf epidermis	56/200	5.04	2.67e-25	-	yes
PS	5	PO:0009046	flower	172/200	1.65	3.44e-25	-	yes
PS	5	PO:0006035	shoot epidermis	56/200	5.00	3.78e-25	-	yes
PS	4	PO:0009049	inflorescence	172/200	1.64	8.18e-25	-	yes
PS	3	PO:0004013	epidermal cell	57/200	4.78	1.28e-24	-	yes
PS	4	PO:0005679	epidermis	58/200	4.68	1.28e-24	-	yes
PS	3	PO:0009014	dermal tissue	58/200	4.68	1.31e-24	-	yes
PS	4	PO:0006345	pollen tube	71/200	2.44	3.89e-14	-	no
PS	3	PO:0000084	sperm cell	72/200	2.22	2.77e-12	-	yes
PS	3	PO:0020097	generative cell	72/200	2.22	2.77e-12	-	yes
PS	3	PO:0000034	vascular system	10/200	3.06	4.84e-04	-	no

PG	5	PO:0001081	F mature embryo stage	168/200	2.11	4.95e-39	-	yes
PG	5	PO:0004507	D bilateral stage	170/200	2.06	1.38e-38	-	yes
PG	5	PO:0001078	E expanded cotyledon stage	170/200	2.05	4.39e-38	-	yes
PG	5	PO:0001185	C globular stage	168/200	2.05	5.09e-37	-	yes
PG	4	PO:0001054	4 leaf senescence stage	163/200	2.12	1.01e-36	-	yes
PG	3	PO:0001050	leaf development stages	163/200	2.12	1.09e-36	-	yes
PG	5	PO:0007133	leaf production	167/200	1.99	1.51e-34	-	yes
PG	4	PO:0007112	1 main shoot growth	167/200	1.98	1.56e-34	-	yes
PG	3	PO:0001170	seed development stages	172/200	1.90	3.13e-34	-	yes
PG	3	PO:0007134	A vegetative growth	167/200	1.97	4.22e-34	-	yes
PG	4	PO:0007631	embryo development stages	170/200	1.89	9.15e-33	-	yes
PG	4	PO:0007600	3 floral organ development stages	178/200	1.75	1.31e-31	-	yes
PG	3	PO:0007615	flower development stages	178/200	1.70	1.03e-29	-	yes
PG	4	PO:0007616	4 anthesis	170/200	1.75	4.76e-28	-	yes
PG	5	PO:0007604	corolla developmental stages	170/200	1.72	6.31e-27	-	yes
PG	5	PO:0007605	androecium developmental stages	77/200	2.63	2.42e-17	-	no

KW	0	subunit	-	39/200	5.32	1.43e-18	-	no
KW	0	complex	-	38/200	4.49	1.15e-15	-	no
KW	0	golgi	-	15/200	9.04	1.42e-11	-	no
KW	0	membrane	-	62/200	2.33	2.09e-11	3.64E-21	no
KW	0	vacuole	-	19/200	6.03	7.31e-11	7.27E-21	no
KW	0	components	-	14/200	8.62	1.14e-10	-	yes
KW	0	dehydrogenase	-	17/200	5.86	9.60e-10	2.33E-16	no
KW	0	mitochondrial	-	15/200	6.65	1.28e-09	-	no
KW	0	cadmium	-	12/200	7.20	1.55e-08	-	no
KW	0	plasma	-	32/200	2.79	4.16e-08	3.64E-21	no
KW	0	stress	-	19/200	4.05	6.19e-08	-	no
KW	0	process	-	45/200	2.20	1.18e-07	-	no
KW	0	transport	-	28/200	2.88	1.50e-07	-	no
KW	0	mitochondrion	-	20/200	3.65	1.72e-07	3.64E-21	no
KW	0	chain	-	14/200	4.63	4.58e-07	-	no
KW	0	metabolic	-	29/200	2.52	1.42e-06	7.47E-16	no
KW	0	ipr016040	-	11/200	5.11	2.02e-06	-	no
KW	0	reticulum	-	11/200	4.96	2.75e-06	-	no
KW	0	endoplasmic	-	11/200	4.94	2.83e-06	-	no
KW	0	catalytic	-	24/200	2.36	3.18e-05	-	yes
KW	0	cytosol	-	10/200	4.06	4.24e-05	3.64E-21	no
KW	0	amino	-	21/200	2.44	5.64e-05	1.80E-15	no
KW	0	atpase	-	12/200	3.40	6.10e-05	-	no
KW	0	biosynthetic	-	18/200	2.52	1.11e-04	-	no
KW	0	terminal	-	35/200	1.82	1.83e-04	-	no
KW	0	intracellular	-	14/200	2.71	2.34e-04	-	no
KW	0	mediated	-	11/200	3.11	2.52e-04	-	no
KW	0	phosphate	-	10/200	3.30	2.59e-04	0	yes
KW	0	oxidoreductase	-	13/200	2.79	2.73e-04	-	no
KW	0	cytoplasm	-	10/200	3.23	3.11e-04	-	no
KW	0	conserved	-	26/200	1.92	4.79e-04	-	no
KW	0	synthase	-	12/200	2.73	5.14e-04	-	no
KW	0	alpha	-	16/200	2.19	1.12e-03	-	no
KW	0	hydrolase	-	16/200	2.19	1.12e-03	-	no
KW	0	encodes	-	40/200	1.57	1.38e-03	-	yes
KW	0	small	-	10/200	2.48	2.59e-03	-	no
KW	0	nucleotide	-	13/200	2.04	5.02e-03	-	no
KW	0	chloroplast	-	28/200	1.59	5.54e-03	8.00E-79	no
KW	0	putative	-	34/200	1.47	8.00e-03	2.87E-16	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.

Top Page

label http://www.w3.org/2000/01/rdf-schema#label