Specifically-expressed experiments

Gene ID	At1g57820
Gene name	VIM1 (VARIANT IN METHYLATION 1)
Functional description	Encodes a 645-amino acid methylcytosine-binding protein with a PHD domain, two RING finger domains, and an SRA domain that is involved in centromere heterochromatinization. This protein functions as an E3 ubiquitin ligase in vitro. The protein has been shown to bind to methylated cytosines of CG, CNG and CNN motifs via its SRA domain but has a preference for the former. It plays a role in the establishment/maintenance of chromatin structure during cell division and is localized in the nucleus. Plants over-expressing VIM1/ORTH2 show an inhibition in root growth and a delay in flowering. Both over-expression of GFP:ORTH2 and loss of ORTH2/VIM1 lead to decreased levels of DNA methylation. GFP:ORTH2 over-expressers also have increased levels of FWA transcripts.

Click GSM ID or Assay name to show a list of genes that are specifically expressed in the GSM.

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title	Link to GEO
54.1	99.8	GSM245913	csn5 (csn5a-2 csn5b) mutant light replicate 1	GSE9728	COP9 signalosome (csn) mutant analysis
52.6	99.8	GSM270870	Arabidopsis cell culture, 4 h_response to phytoprostane A1_rep3	GSE10719	Response of Arabidopsis cell culture to phytoprostane A1
52.0	99.8	GSM245914	csn5 (csn5a-2 csn5b) mutant light replicate 2	GSE9728	COP9 signalosome (csn) mutant analysis
50.7	99.8	GSM270868	Arabidopsis cell culture, 4 h_response to phytoprostane A1_rep2	GSE10719	Response of Arabidopsis cell culture to phytoprostane A1
46.6	99.8	GSM245915	csn5 (csn5a-2 csn5b) mutant light replicate 3	GSE9728	COP9 signalosome (csn) mutant analysis
44.8	99.8	GSM245910	csn3-1 mutant light replicate 1	GSE9728	COP9 signalosome (csn) mutant analysis
41.4	99.8	GSM270866	Arabidopsis cell culture, 4 h_response to phytoprostane A1_rep1	GSE10719	Response of Arabidopsis cell culture to phytoprostane A1
41.1	99.8	GSM245912	csn3-1 mutant light replicate 3	GSE9728	COP9 signalosome (csn) mutant analysis
40.5	99.8	GSM245919	csn3-1 mutant dark replicate 1	GSE9728	COP9 signalosome (csn) mutant analysis
40.3	99.8	GSM311274	Laser capture microdissected (LCM) embryo proper at the pre-globular stage, biological replicate 2	GSE12402	Expression data from Arabidopsis seed compartments at the pre-globular stage
38.9	99.8	GSM88051	csn4-1_mutant replicate 3	GSE3865	CSN4-1 mutant analysis
34.9	99.7	GSM245911	csn3-1 mutant light replicate 2	GSE9728	COP9 signalosome (csn) mutant analysis
34.8	99.7	GSM270865	Arabidopsis cell culture, 4 h_control_rep3	GSE10719	Response of Arabidopsis cell culture to phytoprostane A1
34.4	99.7	GSM88049	csn4-1_mutant replicate 1	GSE3865	CSN4-1 mutant analysis
31.1	99.7	GSM133945	Murray_2-1_T0-APH_Rep1_ATH1	GSE5747	Genome-wide cell cycle studies
29.0	99.7	GSM131664	ATGE_46_A	GSE5633	AtGenExpress: Developmental series (shoots and stems)
27.7	99.7	GSM131665	ATGE_46_B	GSE5633	AtGenExpress: Developmental series (shoots and stems)
27.6	99.7	ArrayExpress	E-MEXP-728-raw-cel-1062073942	-	-	-
27.3	99.7	GSM245922	csn4-1_mutant_dark replicate 1	GSE9728	COP9 signalosome (csn) mutant analysis
27.3	99.7	GSM88050	csn4-1_mutant replicate 2	GSE3865	CSN4-1 mutant analysis
27.1	99.7	GSM245925	csn5 (csn5a-2 csn5b) mutant dark replicate 1	GSE9728	COP9 signalosome (csn) mutant analysis
26.8	99.7	ArrayExpress	E-MEXP-728-raw-cel-1062073338	-	-	-
26.1	99.7	GSM131670	ATGE_48_A	GSE5633	AtGenExpress: Developmental series (shoots and stems)
25.0	99.6	GSM133947	Murray_2-3_T4-APH_Rep1_ATH1	GSE5747	Genome-wide cell cycle studies
25.0	99.6	GSM131671	ATGE_48_B	GSE5633	AtGenExpress: Developmental series (shoots and stems)
24.8	99.6	GSM131661	ATGE_29_A2	GSE5633	AtGenExpress: Developmental series (shoots and stems)
24.8	99.6	GSM131663	ATGE_29_C2	GSE5633	AtGenExpress: Developmental series (shoots and stems)
24.1	99.6	GSM270814	Arabidopsis cell culture, 4 h_control_rep1	GSE10719	Response of Arabidopsis cell culture to phytoprostane A1
23.8	99.6	GSM131672	ATGE_48_C	GSE5633	AtGenExpress: Developmental series (shoots and stems)
23.7	99.6	GSM131666	ATGE_46_C	GSE5633	AtGenExpress: Developmental series (shoots and stems)
23.7	99.6	GSM131653	ATGE_8_B	GSE5633	AtGenExpress: Developmental series (shoots and stems)
23.3	99.6	GSM131662	ATGE_29_B2	GSE5633	AtGenExpress: Developmental series (shoots and stems)
23.2	99.6	ArrayExpress	E-MEXP-728-raw-cel-1062074005	-	-	-
22.7	99.6	GSM311273	Laser capture microdissected (LCM) embryo proper at the pre-globular stage, biological replicate 1	GSE12402	Expression data from Arabidopsis seed compartments at the pre-globular stage
22.0	99.6	GSM131654	ATGE_8_C	GSE5633	AtGenExpress: Developmental series (shoots and stems)
21.9	99.6	ArrayExpress	E-TABM-19-raw-cel-489757488	-	-	-
21.9	99.6	GSM133930	Weigel_2-22_CHIP-210-A_Rep1_ATH1	GSE5746	FRI FLC combos
21.7	99.6	GSM131684	ATGE_52_C	GSE5633	AtGenExpress: Developmental series (shoots and stems)
21.7	99.6	ArrayExpress	E-TABM-19-raw-cel-489757236	-	-	-
21.7	99.6	GSM133944	Weigel_2-36_CHIP-214_D_Rep3_ATH1	GSE5746	FRI FLC combos
21.4	99.6	GSM131682	ATGE_52_A	GSE5633	AtGenExpress: Developmental series (shoots and stems)
21.3	99.6	ArrayExpress	E-MEXP-728-raw-cel-1062073253	-	-	-
20.7	99.6	GSM245927	csn5 (csn5a-2 csn5b) mutant dark replicate 3	GSE9728	COP9 signalosome (csn) mutant analysis
20.5	99.6	GSM133929	Weigel_2-21_CHIP-209-C_Rep3_ATH1	GSE5746	FRI FLC combos
20.5	99.6	ArrayExpress	E-TABM-19-raw-cel-489757463	-	-	-
20.4	99.6	GSM131652	ATGE_8_A	GSE5633	AtGenExpress: Developmental series (shoots and stems)
20.3	99.6	GSM245920	csn3-1 mutant dark replicate 2	GSE9728	COP9 signalosome (csn) mutant analysis
19.8	99.6	GSM142905	WW002_ATH1_A1-willa-CON-REP3	GSE6181	Assembly of the cell wall pectic matrix.
19.5	99.6	ArrayExpress	E-TABM-19-raw-cel-489757174	-	-	-
19.5	99.6	GSM133943	Weigel_2-35_CHIP-214-B_Rep2_ATH1	GSE5746	FRI FLC combos
19.4	99.6	ArrayExpress	E-MEXP-728-raw-cel-1062074155	-	-	-
19.3	99.6	ArrayExpress	E-MEXP-728-raw-cel-1062073467	-	-	-
19.2	99.6	GSM245926	csn5 (csn5a-2 csn5b) mutant dark replicate 2	GSE9728	COP9 signalosome (csn) mutant analysis
19.1	99.6	ArrayExpress	E-TABM-19-raw-cel-489757107	-	-	-
19.0	99.5	ArrayExpress	E-TABM-19-raw-cel-489757149	-	-	-
19.0	99.5	GSM133942	Weigel_2-34_CHIP-214-A_Rep1_ATH1	GSE5746	FRI FLC combos
19.0	99.5	ArrayExpress	E-MEXP-728-raw-cel-1062073902	-	-	-
18.6	99.5	ArrayExpress	E-TABM-19-raw-cel-489757526	-	-	-
18.6	99.5	GSM133932	Weigel_2-24_CHIP-210-C_Rep3_ATH1	GSE5746	FRI FLC combos
18.2	99.5	ArrayExpress	E-MEXP-728-raw-cel-1062074089	-	-	-
18.0	99.5	GSM131669	ATGE_47_C	GSE5633	AtGenExpress: Developmental series (shoots and stems)
18.0	99.5	GSM284387	Arabidopsis GSUS4b	GSE11262	Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
18.0	99.5	GSM133939	Weigel_2-31_CHIP-213-A_Rep1_ATH1	GSE5746	FRI FLC combos
18.0	99.5	ArrayExpress	E-TABM-19-raw-cel-489757023	-	-	-
17.9	99.5	ArrayExpress	E-TABM-19-raw-cel-489756915	-	-	-
17.9	99.5	GSM133910	Weigel_2-2_CHIP-203-B_Rep2_ATH1	GSE5746	FRI FLC combos
17.7	99.5	GSM131668	ATGE_47_B	GSE5633	AtGenExpress: Developmental series (shoots and stems)
17.7	99.5	ArrayExpress	E-ATMX-13-raw-cel-1556149807	-	-	-
17.7	99.5	GSM131683	ATGE_52_B	GSE5633	AtGenExpress: Developmental series (shoots and stems)
17.5	99.5	ArrayExpress	E-TABM-19-raw-cel-489757414	-	-	-
17.5	99.5	GSM133927	Weigel_2-19_CHIP-209-A_Rep1_ATH1	GSE5746	FRI FLC combos
17.5	99.5	GSM133923	Weigel_2-15_CHIP-207-C_Rep3_ATH1	GSE5746	FRI FLC combos
17.5	99.5	ArrayExpress	E-TABM-19-raw-cel-489757364	-	-	-
17.2	99.5	ArrayExpress	E-MEXP-728-raw-cel-1062073408	-	-	-
16.9	99.5	ArrayExpress	E-TABM-19-raw-cel-489757278	-	-	-
16.9	99.5	GSM133920	Weigel_2-12_CHIP-206-C_Rep3_ATH1	GSE5746	FRI FLC combos
16.9	99.5	ArrayExpress	E-TABM-19-raw-cel-489757590	-	-	-
16.9	99.5	GSM133935	Weigel_2-27_CHIP-211-C_Rep3_ATH1	GSE5746	FRI FLC combos
16.9	99.5	GSM245924	csn4-1_mutant_dark replicate 3	GSE9728	COP9 signalosome (csn) mutant analysis
16.8	99.5	ArrayExpress	E-TABM-19-raw-cel-489757066	-	-	-
16.8	99.5	GSM133940	Weigel_2-32_CHIP-213-B_Rep2_ATH1	GSE5746	FRI FLC combos
16.7	99.5	GSM142907	WW002_ATH1_A2-willa-ISOX-REP3	GSE6181	Assembly of the cell wall pectic matrix.
16.7	99.5	ArrayExpress	E-TABM-19-raw-cel-489757436	-	-	-
16.7	99.5	GSM133928	Weigel_2-20_CHIP-209-B_Rep2_ATH1	GSE5746	FRI FLC combos
16.7	99.5	ArrayExpress	E-MEXP-728-raw-cel-1062073752	-	-	-
16.7	99.5	ArrayExpress	E-ATMX-13-raw-cel-1556149935	-	-	-
16.6	99.5	GSM131673	ATGE_49_A	GSE5633	AtGenExpress: Developmental series (shoots and stems)
16.6	99.5	ArrayExpress	E-TABM-19-raw-cel-489757506	-	-	-
16.6	99.5	GSM133931	Weigel_2-23_CHIP-210-B_Rep2_ATH1	GSE5746	FRI FLC combos
16.4	99.5	ArrayExpress	E-TABM-19-raw-cel-489757392	-	-	-
16.4	99.5	GSM133926	Weigel_2-18_CHIP-208-C_Rep3_ATH1	GSE5746	FRI FLC combos
16.3	99.5	GSM134202	Murray_3-1_D1-GROWTH_Rep1_ATH1	GSE5750	Growth of suspension-cultured cells
16.3	99.5	ArrayExpress	E-MEXP-728-raw-cel-1062073561	-	-	-
16.2	99.5	GSM142906	WW002_ATH1_A2-willa-ISOX-REP2	GSE6181	Assembly of the cell wall pectic matrix.
16.2	99.5	GSM131675	ATGE_49_C	GSE5633	AtGenExpress: Developmental series (shoots and stems)
16.1	99.5	ArrayExpress	E-TABM-19-raw-cel-489757545	-	-	-
16.1	99.5	GSM133933	Weigel_2-25_CHIP-211-A_Rep1_ATH1	GSE5746	FRI FLC combos
16.0	99.5	GSM134206	Murray_3-3_D5-GROWTH_Rep1_ATH1	GSE5750	Growth of suspension-cultured cells
16.0	99.5	ArrayExpress	E-TABM-19-raw-cel-489757344	-	-	-
16.0	99.5	GSM133924	Weigel_2-16_CHIP-208-A_Rep1_ATH1	GSE5746	FRI FLC combos
15.9	99.5	GSM131674	ATGE_49_B	GSE5633	AtGenExpress: Developmental series (shoots and stems)
15.9	99.5	ArrayExpress	E-MEXP-728-raw-cel-1062073825	-	-	-
15.8	99.5	GSM245921	csn3-1_mutant_dark replicate 1	GSE9728	COP9 signalosome (csn) mutant analysis
15.6	99.5	GSM131679	ATGE_51_A	GSE5633	AtGenExpress: Developmental series (shoots and stems)
15.5	99.5	GSM245923	csn4-1_mutant_dark replicate 2	GSE9728	COP9 signalosome (csn) mutant analysis
15.2	99.4	GSM131667	ATGE_47_A	GSE5633	AtGenExpress: Developmental series (shoots and stems)
15.2	99.4	GSM133909	Weigel_2-1_CHIP-203-A_Rep1_ATH1	GSE5746	FRI FLC combos
15.2	99.4	ArrayExpress	E-TABM-19-raw-cel-489757606	-	-	-
15.2	99.4	GSM131680	ATGE_51_B	GSE5633	AtGenExpress: Developmental series (shoots and stems)
15.1	99.4	ArrayExpress	E-MEXP-728-raw-cel-1062073688	-	-	-
15.0	99.4	ArrayExpress	E-ATMX-13-raw-cel-1556149823	-	-	-
14.9	99.4	GSM131681	ATGE_51_C	GSE5633	AtGenExpress: Developmental series (shoots and stems)
14.9	99.4	ArrayExpress	E-TABM-19-raw-cel-489757298	-	-	-
14.9	99.4	GSM133921	Weigel_2-13_CHIP-207-A_Rep1_ATH1	GSE5746	FRI FLC combos
14.9	99.4	ArrayExpress	E-MEXP-728-raw-cel-1062073620	-	-	-
14.7	99.4	GSM284384	Arabidopsis GEP5	GSE11262	Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
14.4	99.4	GSM133916	Weigel_2-8_CHIP-205-B_Rep2_ATH1	GSE5746	FRI FLC combos
14.4	99.4	ArrayExpress	E-TABM-19-raw-cel-489757157	-	-	-
14.3	99.4	GSM133950	Murray_2-6_T10-APH_Rep1_ATH1	GSE5747	Genome-wide cell cycle studies
14.3	99.4	ArrayExpress	E-MEXP-728-raw-cel-1062074264	-	-	-
14.1	99.4	GSM133911	Weigel_2-3_CHIP-203-C_Rep3_ATH1	GSE5746	FRI FLC combos
14.1	99.4	ArrayExpress	E-TABM-19-raw-cel-489756959	-	-	-
13.7	99.4	ArrayExpress	E-TABM-19-raw-cel-489757322	-	-	-
13.7	99.4	GSM133922	Weigel_2-14_CHIP-207-B_Rep2_ATH1	GSE5746	FRI FLC combos
13.6	99.4	GSM133913	Weigel_2-5_CHIP-204-B_Rep2_ATH1	GSE5746	FRI FLC combos
13.6	99.4	ArrayExpress	E-TABM-19-raw-cel-489757044	-	-	-
13.5	99.4	ArrayExpress	E-MEXP-728-raw-cel-1062074758	-	-	-
13.5	99.4	ArrayExpress	E-TABM-19-raw-cel-489757569	-	-	-
13.5	99.4	GSM133934	Weigel_2-26_CHIP-211-B_Rep2_ATH1	GSE5746	FRI FLC combos
13.5	99.4	GSM133918	Weigel_2-10_CHIP-206-A_Rep1_ATH1	GSE5746	FRI FLC combos
13.5	99.4	ArrayExpress	E-TABM-19-raw-cel-489757215	-	-	-
13.5	99.4	ArrayExpress	E-TABM-19-raw-cel-489757000	-	-	-
13.5	99.4	GSM133912	Weigel_2-4_CHIP-204-A_Rep1_ATH1	GSE5746	FRI FLC combos
13.3	99.4	ArrayExpress	E-TABM-19-raw-cel-489756980	-	-	-
13.3	99.4	GSM133938	Weigel_2-30_CHIP-212-C_Rep3_ATH1	GSE5746	FRI FLC combos
13.3	99.4	GSM133951	Murray_2-7_T12-APH_Rep1_ATH1	GSE5747	Genome-wide cell cycle studies
13.3	99.4	GSM270853	Arabidopsis cell culture, 4 h_control_rep2	GSE10719	Response of Arabidopsis cell culture to phytoprostane A1
13.1	99.4	ArrayExpress	E-TABM-19-raw-cel-489756890	-	-	-
13.1	99.4	GSM133936	Weigel_2-28_CHIP-212-A_Rep1_ATH1	GSE5746	FRI FLC combos
13.0	99.4	ArrayExpress	E-TABM-19-raw-cel-489756936	-	-	-
13.0	99.4	GSM133937	Weigel_2-29_CHIP-212-B_Rep2_ATH1	GSE5746	FRI FLC combos
12.8	99.3	ArrayExpress	E-MEXP-728-raw-cel-1062074653	-	-	-
12.8	99.3	GSM133952	Murray_2-8_T14-APH_Rep1_ATH1	GSE5747	Genome-wide cell cycle studies
12.8	99.3	ArrayExpress	E-MEXP-728-raw-cel-1062074409	-	-	-
12.5	99.3	ArrayExpress	E-MEXP-728-raw-cel-1062074512	-	-	-
12.3	99.3	ArrayExpress	E-MEXP-728-raw-cel-1062074718	-	-	-
12.3	99.3	ArrayExpress	E-TABM-19-raw-cel-489757374	-	-	-
12.3	99.3	GSM133925	Weigel_2-17_CHIP-208-B_Rep2_ATH1	GSE5746	FRI FLC combos
12.2	99.3	ArrayExpress	E-ATMX-13-raw-cel-1556149775	-	-	-
11.8	99.3	ArrayExpress	E-MEXP-728-raw-cel-1062074608	-	-	-
11.7	99.3	ArrayExpress	E-ATMX-13-raw-cel-1556149759	-	-	-
11.4	99.3	ArrayExpress	E-TABM-19-raw-cel-489757194	-	-	-
11.3	99.3	ArrayExpress	E-MEXP-728-raw-cel-1062074303	-	-	-
11.1	99.2	ArrayExpress	E-TABM-63-raw-cel-681136835	-	-	-
10.9	99.2	ArrayExpress	E-MEXP-728-raw-cel-1062074361	-	-	-
10.8	99.2	ArrayExpress	E-TABM-19-raw-cel-489757257	-	-	-
10.8	99.2	GSM133919	Weigel_2-11_CHIP-206-B_Rep2_ATH1	GSE5746	FRI FLC combos
10.8	99.2	ArrayExpress	E-TABM-19-raw-cel-489757129	-	-	-
10.8	99.2	GSM133915	Weigel_2-7_CHIP-205-A_Rep1_ATH1	GSE5746	FRI FLC combos
10.8	99.2	GSM134204	Murray_3-2_D3-GROWTH_Rep1_ATH1	GSE5750	Growth of suspension-cultured cells
10.8	99.2	ArrayExpress	E-TABM-19-raw-cel-489757085	-	-	-
10.8	99.2	GSM133914	Weigel_2-6_CHIP-204-C_Rep3_ATH1	GSE5746	FRI FLC combos
10.6	99.2	GSM131453	AtGen_6-9321_Heatstress-Roots-3.0h_Rep1	GSE5628	AtGenExpress: Stress Treatments (Heat stress)
10.6	99.2	GSM131676	ATGE_50_A	GSE5633	AtGenExpress: Developmental series (shoots and stems)
10.5	99.2	ArrayExpress	E-MEXP-728-raw-cel-1062074538	-	-	-
10.4	99.2	ArrayExpress	E-ATMX-13-raw-cel-1556149887	-	-	-
10.3	99.2	ArrayExpress	E-TABM-63-raw-cel-681136761	-	-	-
10.3	99.2	GSM131454	AtGen_6-9322_Heatstress-Roots-3.0h_Rep2	GSE5628	AtGenExpress: Stress Treatments (Heat stress)
10.2	99.2	ArrayExpress	E-TABM-63-raw-cel-681136797	-	-	-
10.0	99.2	GSM131650	ATGE_6_B	GSE5633	AtGenExpress: Developmental series (shoots and stems)
9.9	99.1	ArrayExpress	E-MEXP-728-raw-cel-1062074684	-	-	-
9.6	99.1	GSM131677	ATGE_50_B	GSE5633	AtGenExpress: Developmental series (shoots and stems)
9.6	99.1	ArrayExpress	E-ATMX-35-raw-cel-1574334832	-	-	-
9.5	99.1	ArrayExpress	E-MEXP-728-raw-cel-1062074577	-	-	-
9.5	99.1	ArrayExpress	E-TABM-63-raw-cel-681136722	-	-	-
9.5	99.1	ArrayExpress	E-MEXP-728-raw-cel-1062074226	-	-	-
9.4	99.1	GSM131649	ATGE_6_A	GSE5633	AtGenExpress: Developmental series (shoots and stems)
9.4	99.1	ArrayExpress	E-ATMX-31-raw-cel-1516947882	-	-	-
9.2	99.1	GSM131678	ATGE_50_C	GSE5633	AtGenExpress: Developmental series (shoots and stems)
9.2	99.1	GSM284385	Arabidopsis GEP6	GSE11262	Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
9.1	99.1	GSM131651	ATGE_6_C	GSE5633	AtGenExpress: Developmental series (shoots and stems)
9.0	99.1	ArrayExpress	E-ATMX-24-raw-cel-1441078160	-	-	-
8.7	99.0	ArrayExpress	E-MEXP-728-raw-cel-1062074471	-	-	-

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