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
AT2G28290.1	0.931031	SYD (SPLAYED)	OMAT2P006325,OMAT2P006330	[OMAT2P006325]-, [OMAT2P006330]-	-	-
AT1G08190.1	0.878687	vacuolar assembly protein, putative (VPS41)	OMAT1P002680	-	-	-
AT2G35630.1	0.87736	MOR1 (MICROTUBULE ORGANIZATION 1)	OMAT2P008930	-	-	-
AT4G00450.1	0.865408	CRP (CRYPTIC PRECOCIOUS)	OMAT4P000180	-	-	-
AT5G02310.1	0.854931	PRT6 (PROTEOLYSIS 6)	OMAT5P000550	-	-	-
AT5G12400.1	0.845121	PHD finger transcription factor, putative	OMAT5P004230,OMAT5P004235	[OMAT5P004230]-, [OMAT5P004235]-	-	-
AT5G23630.1	0.842777	ATPase E1-E2 type family protein / haloacid dehalogenase-like hydrolase familiy protein	OMAT5P106930	-	-	-
AT5G24350.1	0.832104	FUNCTIONS IN: molecular_function unknown	OMAT5P008310	-	-	-
AT4G15180.1	0.828202	SDG2 (SET DOMAIN-CONTAINING PROTEIN 2)	OMAT4P004220,OMAT4P004225	[OMAT4P004220]-, [OMAT4P004225]-	-	-
AT2G36850.1	0.814946	GSL8 (GLUCAN SYNTHASE-LIKE 8)	OMAT2P108500	-	-	-
Negatively Correlated Genes
Gens	PCC	Definition	Overlap gene	Definition	Overlap gene(antisense)	Definition
AT4G21860.1	-0.799479	MSRB2 (methionine sulfoxide reductase B 2)	OMAT4P105580	-	-	-
AT2G33720.1	-0.794233	transcription factor	-	-	-	-
AT1G73965.1	-0.74725	CLE13 (CLAVATA3/ESR-RELATED 13)	OMAT1P021450	-	-	-
AT4G06518.1	-0.710682	transposable element gene	-	-	-	-
AT5G07000.1	-0.705378	ST2B (SULFOTRANSFERASE 2B)	OMAT5P101890	-	-	-
AT4G08076.1	-0.696888	transposable element gene	-	-	-	-
AT2G45190.1	-0.696506	AFO (ABNORMAL FLORAL ORGANS)	OMAT2P111610	-	-	-
AT5G02021.1	-0.69334	unknown protein	-	-	-	-
AT4G09360.1	-0.680972	disease resistance protein (NBS-LRR class), putative	-	-	-	-
AT2G44080.1	-0.678033	ARL (ARGOS-LIKE)	OMAT2P012160	-	-	-

Get whole results

Over-Representation Analysis Result

	p-value	<= 2.98e-24	:20 terms with high significance
2.98e-24 <	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:0007275	multicellular organismal development	32/200	3.01	6.71e-09	-	no
B	3	GO:0009791	post-embryonic development	22/200	3.72	3.25e-08	-	no
B	3	GO:0022414	reproductive process	21/200	3.48	1.94e-07	-	no
B	4	GO:0048608	reproductive structure development	18/200	3.69	5.29e-07	-	no
B	3	GO:0003006	reproductive developmental process	19/200	3.45	7.84e-07	-	no
B	3	GO:0048856	anatomical structure development	25/200	2.79	1.13e-06	-	no
B	3	GO:0051641	cellular localization	12/200	4.08	9.38e-06	-	no
B	3	GO:0009790	embryonic development	11/200	4.17	1.58e-05	-	no
B	3	GO:0051649	establishment of localization in cell	11/200	4.08	1.93e-05	-	no
B	3	GO:0050789	regulation of biological process	35/200	2.02	2.00e-05	-	no
B	3	GO:0048316	seed development	11/200	4.04	2.15e-05	-	no
B	4	GO:0009793	embryonic development ending in seed dormancy	10/200	4.36	2.18e-05	-	no
B	4	GO:0046907	intracellular transport	10/200	4.21	3.03e-05	-	no
B	5	GO:0010154	fruit development	11/200	3.85	3.41e-05	-	no
B	3	GO:0006996	organelle organization	12/200	3.60	3.51e-05	-	no
B	5	GO:0010468	regulation of gene expression	24/200	2.25	6.81e-05	-	no
B	3	GO:0006810	transport	23/200	2.24	9.87e-05	-	no
B	3	GO:0051234	establishment of localization	23/200	2.24	1.03e-04	-	no
B	4	GO:0060255	regulation of macromolecule metabolic process	24/200	2.19	1.04e-04	-	no
B	3	GO:0019222	regulation of metabolic process	25/200	2.12	1.29e-04	-	no
B	5	GO:0016070	RNA metabolic process	19/200	2.23	3.66e-04	-	no
B	5	GO:0032774	RNA biosynthetic process	14/200	2.56	4.39e-04	-	no
B	5	GO:0090304	nucleic acid metabolic process	28/200	1.86	4.99e-04	-	no
B	5	GO:0006350	transcription	21/200	2.06	6.04e-04	-	no
B	3	GO:0009653	anatomical structure morphogenesis	10/200	2.97	6.15e-04	-	no
B	4	GO:0044260	cellular macromolecule metabolic process	53/200	1.50	6.18e-04	-	no
B	3	GO:0043170	macromolecule metabolic process	57/200	1.47	6.35e-04	-	no
B	4	GO:0048513	organ development	11/200	2.49	1.77e-03	-	no
B	4	GO:0048731	system development	11/200	2.48	1.79e-03	-	no
B	5	GO:0006464	protein modification process	20/200	1.92	1.83e-03	-	no
B	4	GO:0080090	regulation of primary metabolic process	20/200	1.90	2.10e-03	-	no
B	5	GO:0010556	regulation of macromolecule biosynthetic process	19/200	1.93	2.18e-03	-	no
B	4	GO:0043412	macromolecule modification	21/200	1.85	2.31e-03	-	no
B	5	GO:0051252	regulation of RNA metabolic process	12/200	2.30	2.45e-03	-	no
B	5	GO:0019219	regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	19/200	1.90	2.66e-03	-	no
B	4	GO:0009889	regulation of biosynthetic process	19/200	1.89	2.71e-03	-	no
B	5	GO:0031326	regulation of cellular biosynthetic process	19/200	1.89	2.71e-03	-	no
B	4	GO:0006139	nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	28/200	1.66	2.92e-03	-	no
B	4	GO:0051171	regulation of nitrogen compound metabolic process	19/200	1.88	2.98e-03	-	no
B	3	GO:0050794	regulation of cellular process	25/200	1.64	5.39e-03	-	no
B	4	GO:0031323	regulation of cellular metabolic process	19/200	1.76	6.12e-03	-	no
B	4	GO:0034641	cellular nitrogen compound metabolic process	30/200	1.54	6.35e-03	-	no
B	3	GO:0006807	nitrogen compound metabolic process	30/200	1.51	8.35e-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

C	3	GO:0043234	protein complex	24/200	3.67	1.09e-08	0	no
C	3	GO:0016020	membrane	53/200	1.94	4.91e-07	-	yes
C	4	GO:0005886	plasma membrane	31/200	2.50	7.67e-07	-	no
C	3	GO:0044464	cell part	124/200	1.36	1.32e-06	-	yes
C	3	GO:0044424	intracellular part	80/200	1.57	2.24e-06	-	no
C	3	GO:0005622	intracellular	82/200	1.54	3.38e-06	-	no
C	3	GO:0043229	intracellular organelle	72/200	1.56	1.25e-05	-	no
C	4	GO:0043231	intracellular membrane-bounded organelle	68/200	1.55	3.14e-05	-	no
C	3	GO:0043227	membrane-bounded organelle	68/200	1.55	3.15e-05	-	no
C	4	GO:0044428	nuclear part	12/200	3.61	3.38e-05	-	no
C	5	GO:0005634	nucleus	31/200	1.98	8.47e-05	-	no
C	4	GO:0005737	cytoplasm	55/200	1.47	8.61e-04	-	no
C	4	GO:0044444	cytoplasmic part	51/200	1.47	1.37e-03	-	no

M	5	GO:0016818	hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides	20/200	4.49	4.95e-09	-	no
M	4	GO:0016817	hydrolase activity, acting on acid anhydrides	20/200	4.45	5.83e-09	-	no
M	3	GO:0005515	protein binding	40/200	2.56	1.04e-08	-	no
M	3	GO:0016874	ligase activity	11/200	4.03	2.20e-05	-	no
M	5	GO:0046872	metal ion binding	27/200	1.99	2.17e-04	-	no
M	4	GO:0043169	cation binding	27/200	1.88	5.38e-04	-	no
M	3	GO:0043167	ion binding	27/200	1.88	5.38e-04	-	no
M	3	GO:0016787	hydrolase activity	28/200	1.79	9.16e-04	-	no
M	4	GO:0003677	DNA binding	23/200	1.66	6.11e-03	-	no

PS	3	PO:0009013	meristem	162/200	2.02	3.39e-33	-	yes
PS	4	PO:0000230	inflorescence meristem	156/200	2.01	1.99e-30	-	yes
PS	5	PO:0020039	leaf lamina	159/200	1.93	2.58e-29	-	yes
PS	5	PO:0009027	megasporophyll	159/200	1.89	2.98e-28	-	yes
PS	5	PO:0009052	pedicel	156/200	1.92	7.37e-28	-	yes
PS	4	PO:0009025	leaf	165/200	1.79	2.02e-27	-	yes
PS	5	PO:0020038	petiole	150/200	1.97	3.75e-27	-	yes
PS	5	PO:0008037	seedling	160/200	1.81	4.07e-26	-	yes
PS	3	PO:0020091	male gametophyte	155/200	1.87	4.77e-26	-	yes
PS	3	PO:0009005	root	161/200	1.79	9.86e-26	-	yes
PS	4	PO:0009026	sporophyll	160/200	1.78	5.23e-25	-	yes
PS	4	PO:0009047	stem	154/200	1.83	1.98e-24	-	yes
PS	5	PO:0000013	cauline leaf	147/200	1.90	2.40e-24	-	yes
PS	4	PO:0020030	cotyledon	143/200	1.95	2.98e-24	-	yes
PS	5	PO:0009028	microsporophyll	152/200	1.81	2.06e-23	-	yes
PS	3	PO:0009032	petal	155/200	1.77	4.67e-23	-	yes
PS	4	PO:0000037	shoot apex	153/200	1.78	1.02e-22	-	yes
PS	3	PO:0006001	phyllome	167/200	1.63	2.16e-22	-	yes
PS	4	PO:0009009	embryo	162/200	1.68	2.20e-22	-	yes
PS	3	PO:0009010	seed	162/200	1.66	1.10e-21	-	yes
PS	4	PO:0009001	fruit	162/200	1.65	2.14e-21	-	yes
PS	3	PO:0006342	infructescence	162/200	1.65	2.14e-21	-	yes
PS	3	PO:0009006	shoot	170/200	1.57	4.23e-21	-	yes
PS	5	PO:0008034	leaf whorl	158/200	1.68	4.34e-21	-	yes
PS	4	PO:0008033	phyllome whorl	158/200	1.68	4.34e-21	-	yes
PS	4	PO:0000293	guard cell	50/200	4.65	4.85e-21	-	yes
PS	4	PO:0000351	guard mother cell	50/200	4.63	5.89e-21	-	yes
PS	3	PO:0000070	meristemoid	50/200	4.62	6.33e-21	-	yes
PS	3	PO:0009031	sepal	156/200	1.69	6.46e-21	-	yes
PS	3	PO:0004013	epidermal cell	52/200	4.36	1.23e-20	-	yes
PS	5	PO:0006016	leaf epidermis	50/200	4.50	2.02e-20	-	yes
PS	5	PO:0006035	shoot epidermis	50/200	4.46	2.74e-20	-	yes
PS	5	PO:0000349	epidermal initial	50/200	4.43	3.69e-20	-	yes
PS	4	PO:0004011	initial cell	50/200	4.41	4.85e-20	-	yes
PS	3	PO:0004010	meristematic cell	50/200	4.40	5.20e-20	-	yes
PS	4	PO:0005679	epidermis	52/200	4.20	6.53e-20	-	yes
PS	3	PO:0009014	dermal tissue	52/200	4.20	6.67e-20	-	yes
PS	5	PO:0009046	flower	163/200	1.57	6.36e-19	-	yes
PS	4	PO:0009049	inflorescence	163/200	1.56	1.35e-18	-	yes
PS	3	PO:0000084	sperm cell	75/200	2.31	9.02e-14	-	yes
PS	3	PO:0020097	generative cell	75/200	2.31	9.02e-14	-	yes
PS	4	PO:0006345	pollen tube	62/200	2.13	9.07e-10	-	yes

PG	5	PO:0001185	C globular stage	156/200	1.90	2.38e-27	-	yes
PG	5	PO:0001081	F mature embryo stage	152/200	1.91	3.32e-26	-	yes
PG	5	PO:0001078	E expanded cotyledon stage	155/200	1.87	5.32e-26	-	yes
PG	5	PO:0004507	D bilateral stage	154/200	1.87	1.02e-25	-	yes
PG	4	PO:0001054	4 leaf senescence stage	148/200	1.92	3.10e-25	-	yes
PG	3	PO:0001050	leaf development stages	148/200	1.92	3.30e-25	-	yes
PG	5	PO:0007133	leaf production	153/200	1.82	6.55e-24	-	yes
PG	4	PO:0007112	1 main shoot growth	153/200	1.82	6.72e-24	-	yes
PG	4	PO:0007631	embryo development stages	158/200	1.75	1.35e-23	-	yes
PG	3	PO:0007134	A vegetative growth	153/200	1.81	1.54e-23	-	yes
PG	3	PO:0001170	seed development stages	158/200	1.75	2.34e-23	-	yes
PG	4	PO:0007600	3 floral organ development stages	166/200	1.63	4.44e-22	-	yes
PG	4	PO:0007616	4 anthesis	161/200	1.66	1.62e-21	-	yes
PG	5	PO:0007604	corolla developmental stages	162/200	1.64	3.51e-21	-	yes
PG	3	PO:0007615	flower development stages	166/200	1.58	1.76e-20	-	yes
PG	5	PO:0007605	androecium developmental stages	71/200	2.42	5.06e-14	-	yes

KW	0	ipr016024	-	24/200	13.00	5.39e-21	-	no
KW	0	armadillo	-	24/200	12.83	7.40e-21	-	no
KW	0	region	-	40/200	2.77	1.04e-09	-	no
KW	0	ipr014021	-	10/200	11.47	1.42e-09	-	no
KW	0	ipr001650	-	10/200	11.16	1.89e-09	-	no
KW	0	ipr014001	-	10/200	10.94	2.34e-09	-	no
KW	0	ipr015943	-	12/200	7.98	4.56e-09	-	no
KW	0	ipr011046	-	12/200	7.73	6.66e-09	-	no
KW	0	ipr001965	-	10/200	9.61	9.10e-09	-	no
KW	0	development	-	24/200	3.44	3.80e-08	-	no
KW	0	ipr001680	-	11/200	7.40	3.85e-08	-	no
KW	0	superfamily	-	17/200	4.49	5.92e-08	-	no
KW	0	ipr017986	-	10/200	7.46	1.23e-07	-	no
KW	0	plasma	-	31/200	2.70	1.38e-07	-	no
KW	0	vesicle	-	10/200	6.81	3.04e-07	-	no
KW	0	terminal	-	42/200	2.18	4.06e-07	-	no
KW	0	helicase	-	10/200	6.42	5.49e-07	-	no
KW	0	ipr013083	-	14/200	4.47	7.11e-07	-	no
KW	0	homology	-	11/200	5.54	8.64e-07	-	no
KW	0	mutants	-	12/200	4.80	1.63e-06	-	no
KW	0	finger	-	25/200	2.70	2.07e-06	-	no
KW	0	helical	-	13/200	4.31	2.38e-06	-	no
KW	0	membrane	-	50/200	1.88	2.67e-06	-	yes
KW	0	dependent	-	31/200	2.31	4.00e-06	-	no
KW	0	complex	-	23/200	2.72	4.61e-06	0	yes
KW	0	ubiquitin	-	15/200	3.34	1.32e-05	-	no
KW	0	atpase	-	13/200	3.69	1.41e-05	-	no
KW	0	calcium	-	11/200	4.13	1.73e-05	-	no
KW	0	encodes	-	46/200	1.80	2.13e-05	-	no
KW	0	ligase	-	13/200	3.33	4.29e-05	-	no
KW	0	transcription	-	30/200	2.07	5.13e-05	-	yes
KW	0	associated	-	18/200	2.63	6.17e-05	-	no
KW	0	nucleus	-	27/200	2.09	9.28e-05	-	no
KW	0	nuclear	-	10/200	3.25	2.91e-04	-	no
KW	0	regulation	-	24/200	1.82	1.65e-03	-	no
KW	0	intracellular	-	12/200	2.33	2.19e-03	-	no
KW	0	nucleic	-	14/200	2.14	2.52e-03	-	no
KW	0	subgroup	-	10/200	2.46	2.74e-03	-	no
KW	0	transport	-	18/200	1.85	4.26e-03	-	no
KW	0	nucleotide	-	13/200	2.04	5.02e-03	-	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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