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
54.199.8GSM245913csn5 (csn5a-2 csn5b) mutant light replicate 1GSE9728COP9 signalosome (csn) mutant analysisLink to GEO
52.699.8GSM270870Arabidopsis cell culture, 4 h_response to phytoprostane A1_rep3GSE10719Response of Arabidopsis cell culture to phytoprostane A1Link to GEO
52.099.8GSM245914csn5 (csn5a-2 csn5b) mutant light replicate 2GSE9728COP9 signalosome (csn) mutant analysisLink to GEO
50.799.8GSM270868Arabidopsis cell culture, 4 h_response to phytoprostane A1_rep2GSE10719Response of Arabidopsis cell culture to phytoprostane A1Link to GEO
46.699.8GSM245915csn5 (csn5a-2 csn5b) mutant light replicate 3GSE9728COP9 signalosome (csn) mutant analysisLink to GEO
44.899.8GSM245910csn3-1 mutant light replicate 1GSE9728COP9 signalosome (csn) mutant analysisLink to GEO
41.499.8GSM270866Arabidopsis cell culture, 4 h_response to phytoprostane A1_rep1GSE10719Response of Arabidopsis cell culture to phytoprostane A1Link to GEO
41.199.8GSM245912csn3-1 mutant light replicate 3GSE9728COP9 signalosome (csn) mutant analysisLink to GEO
40.599.8GSM245919csn3-1 mutant dark replicate 1GSE9728COP9 signalosome (csn) mutant analysisLink to GEO
40.399.8GSM311274Laser capture microdissected (LCM) embryo proper at the pre-globular stage, biological replicate 2GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
38.999.8GSM88051csn4-1_mutant replicate 3GSE3865CSN4-1 mutant analysisLink to GEO
34.999.7GSM245911csn3-1 mutant light replicate 2GSE9728COP9 signalosome (csn) mutant analysisLink to GEO
34.899.7GSM270865Arabidopsis cell culture, 4 h_control_rep3GSE10719Response of Arabidopsis cell culture to phytoprostane A1Link to GEO
34.499.7GSM88049csn4-1_mutant replicate 1GSE3865CSN4-1 mutant analysisLink to GEO
31.199.7GSM133945Murray_2-1_T0-APH_Rep1_ATH1GSE5747Genome-wide cell cycle studiesLink to GEO
29.099.7GSM131664ATGE_46_AGSE5633AtGenExpress: Developmental series (shoots and stems)Link to GEO
27.799.7GSM131665ATGE_46_BGSE5633AtGenExpress: Developmental series (shoots and stems)Link to GEO
27.699.7ArrayExpressE-MEXP-728-raw-cel-1062073942---
27.399.7GSM245922csn4-1_mutant_dark replicate 1GSE9728COP9 signalosome (csn) mutant analysisLink to GEO
27.399.7GSM88050csn4-1_mutant replicate 2GSE3865CSN4-1 mutant analysisLink to GEO
27.199.7GSM245925csn5 (csn5a-2 csn5b) mutant dark replicate 1GSE9728COP9 signalosome (csn) mutant analysisLink to GEO
26.899.7ArrayExpressE-MEXP-728-raw-cel-1062073338---
26.199.7GSM131670ATGE_48_AGSE5633AtGenExpress: Developmental series (shoots and stems)Link to GEO
25.099.6GSM133947Murray_2-3_T4-APH_Rep1_ATH1GSE5747Genome-wide cell cycle studiesLink to GEO
25.099.6GSM131671ATGE_48_BGSE5633AtGenExpress: Developmental series (shoots and stems)Link to GEO
24.899.6GSM131661ATGE_29_A2GSE5633AtGenExpress: Developmental series (shoots and stems)Link to GEO
24.899.6GSM131663ATGE_29_C2GSE5633AtGenExpress: Developmental series (shoots and stems)Link to GEO
24.199.6GSM270814Arabidopsis cell culture, 4 h_control_rep1GSE10719Response of Arabidopsis cell culture to phytoprostane A1Link to GEO
23.899.6GSM131672ATGE_48_CGSE5633AtGenExpress: Developmental series (shoots and stems)Link to GEO
23.799.6GSM131666ATGE_46_CGSE5633AtGenExpress: Developmental series (shoots and stems)Link to GEO
23.799.6GSM131653ATGE_8_BGSE5633AtGenExpress: Developmental series (shoots and stems)Link to GEO
23.399.6GSM131662ATGE_29_B2GSE5633AtGenExpress: Developmental series (shoots and stems)Link to GEO
23.299.6ArrayExpressE-MEXP-728-raw-cel-1062074005---
22.799.6GSM311273Laser capture microdissected (LCM) embryo proper at the pre-globular stage, biological replicate 1GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
22.099.6GSM131654ATGE_8_CGSE5633AtGenExpress: Developmental series (shoots and stems)Link to GEO
21.999.6ArrayExpressE-TABM-19-raw-cel-489757488---
21.999.6GSM133930Weigel_2-22_CHIP-210-A_Rep1_ATH1GSE5746FRI FLC combosLink to GEO
21.799.6GSM131684ATGE_52_CGSE5633AtGenExpress: Developmental series (shoots and stems)Link to GEO
21.799.6ArrayExpressE-TABM-19-raw-cel-489757236---
21.799.6GSM133944Weigel_2-36_CHIP-214_D_Rep3_ATH1GSE5746FRI FLC combosLink to GEO
21.499.6GSM131682ATGE_52_AGSE5633AtGenExpress: Developmental series (shoots and stems)Link to GEO
21.399.6ArrayExpressE-MEXP-728-raw-cel-1062073253---
20.799.6GSM245927csn5 (csn5a-2 csn5b) mutant dark replicate 3GSE9728COP9 signalosome (csn) mutant analysisLink to GEO
20.599.6GSM133929Weigel_2-21_CHIP-209-C_Rep3_ATH1GSE5746FRI FLC combosLink to GEO
20.599.6ArrayExpressE-TABM-19-raw-cel-489757463---
20.499.6GSM131652ATGE_8_AGSE5633AtGenExpress: Developmental series (shoots and stems)Link to GEO
20.399.6GSM245920csn3-1 mutant dark replicate 2GSE9728COP9 signalosome (csn) mutant analysisLink to GEO
19.899.6GSM142905WW002_ATH1_A1-willa-CON-REP3GSE6181Assembly of the cell wall pectic matrix.Link to GEO
19.599.6ArrayExpressE-TABM-19-raw-cel-489757174---
19.599.6GSM133943Weigel_2-35_CHIP-214-B_Rep2_ATH1GSE5746FRI FLC combosLink to GEO
19.499.6ArrayExpressE-MEXP-728-raw-cel-1062074155---
19.399.6ArrayExpressE-MEXP-728-raw-cel-1062073467---
19.299.6GSM245926csn5 (csn5a-2 csn5b) mutant dark replicate 2GSE9728COP9 signalosome (csn) mutant analysisLink to GEO
19.199.6ArrayExpressE-TABM-19-raw-cel-489757107---
19.099.5ArrayExpressE-TABM-19-raw-cel-489757149---
19.099.5GSM133942Weigel_2-34_CHIP-214-A_Rep1_ATH1GSE5746FRI FLC combosLink to GEO
19.099.5ArrayExpressE-MEXP-728-raw-cel-1062073902---
18.699.5ArrayExpressE-TABM-19-raw-cel-489757526---
18.699.5GSM133932Weigel_2-24_CHIP-210-C_Rep3_ATH1GSE5746FRI FLC combosLink to GEO
18.299.5ArrayExpressE-MEXP-728-raw-cel-1062074089---
18.099.5GSM131669ATGE_47_CGSE5633AtGenExpress: Developmental series (shoots and stems)Link to GEO
18.099.5GSM284387Arabidopsis GSUS4bGSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
18.099.5GSM133939Weigel_2-31_CHIP-213-A_Rep1_ATH1GSE5746FRI FLC combosLink to GEO
18.099.5ArrayExpressE-TABM-19-raw-cel-489757023---
17.999.5ArrayExpressE-TABM-19-raw-cel-489756915---
17.999.5GSM133910Weigel_2-2_CHIP-203-B_Rep2_ATH1GSE5746FRI FLC combosLink to GEO
17.799.5GSM131668ATGE_47_BGSE5633AtGenExpress: Developmental series (shoots and stems)Link to GEO
17.799.5ArrayExpressE-ATMX-13-raw-cel-1556149807---
17.799.5GSM131683ATGE_52_BGSE5633AtGenExpress: Developmental series (shoots and stems)Link to GEO
17.599.5ArrayExpressE-TABM-19-raw-cel-489757414---
17.599.5GSM133927Weigel_2-19_CHIP-209-A_Rep1_ATH1GSE5746FRI FLC combosLink to GEO
17.599.5GSM133923Weigel_2-15_CHIP-207-C_Rep3_ATH1GSE5746FRI FLC combosLink to GEO
17.599.5ArrayExpressE-TABM-19-raw-cel-489757364---
17.299.5ArrayExpressE-MEXP-728-raw-cel-1062073408---
16.999.5ArrayExpressE-TABM-19-raw-cel-489757278---
16.999.5GSM133920Weigel_2-12_CHIP-206-C_Rep3_ATH1GSE5746FRI FLC combosLink to GEO
16.999.5ArrayExpressE-TABM-19-raw-cel-489757590---
16.999.5GSM133935Weigel_2-27_CHIP-211-C_Rep3_ATH1GSE5746FRI FLC combosLink to GEO
16.999.5GSM245924csn4-1_mutant_dark replicate 3GSE9728COP9 signalosome (csn) mutant analysisLink to GEO
16.899.5ArrayExpressE-TABM-19-raw-cel-489757066---
16.899.5GSM133940Weigel_2-32_CHIP-213-B_Rep2_ATH1GSE5746FRI FLC combosLink to GEO
16.799.5GSM142907WW002_ATH1_A2-willa-ISOX-REP3GSE6181Assembly of the cell wall pectic matrix.Link to GEO
16.799.5ArrayExpressE-TABM-19-raw-cel-489757436---
16.799.5GSM133928Weigel_2-20_CHIP-209-B_Rep2_ATH1GSE5746FRI FLC combosLink to GEO
16.799.5ArrayExpressE-MEXP-728-raw-cel-1062073752---
16.799.5ArrayExpressE-ATMX-13-raw-cel-1556149935---
16.699.5GSM131673ATGE_49_AGSE5633AtGenExpress: Developmental series (shoots and stems)Link to GEO
16.699.5ArrayExpressE-TABM-19-raw-cel-489757506---
16.699.5GSM133931Weigel_2-23_CHIP-210-B_Rep2_ATH1GSE5746FRI FLC combosLink to GEO
16.499.5ArrayExpressE-TABM-19-raw-cel-489757392---
16.499.5GSM133926Weigel_2-18_CHIP-208-C_Rep3_ATH1GSE5746FRI FLC combosLink to GEO
16.399.5GSM134202Murray_3-1_D1-GROWTH_Rep1_ATH1GSE5750Growth of suspension-cultured cellsLink to GEO
16.399.5ArrayExpressE-MEXP-728-raw-cel-1062073561---
16.299.5GSM142906WW002_ATH1_A2-willa-ISOX-REP2GSE6181Assembly of the cell wall pectic matrix.Link to GEO
16.299.5GSM131675ATGE_49_CGSE5633AtGenExpress: Developmental series (shoots and stems)Link to GEO
16.199.5ArrayExpressE-TABM-19-raw-cel-489757545---
16.199.5GSM133933Weigel_2-25_CHIP-211-A_Rep1_ATH1GSE5746FRI FLC combosLink to GEO
16.099.5GSM134206Murray_3-3_D5-GROWTH_Rep1_ATH1GSE5750Growth of suspension-cultured cellsLink to GEO
16.099.5ArrayExpressE-TABM-19-raw-cel-489757344---
16.099.5GSM133924Weigel_2-16_CHIP-208-A_Rep1_ATH1GSE5746FRI FLC combosLink to GEO
15.999.5GSM131674ATGE_49_BGSE5633AtGenExpress: Developmental series (shoots and stems)Link to GEO
15.999.5ArrayExpressE-MEXP-728-raw-cel-1062073825---
15.899.5GSM245921csn3-1_mutant_dark replicate 1GSE9728COP9 signalosome (csn) mutant analysisLink to GEO
15.699.5GSM131679ATGE_51_AGSE5633AtGenExpress: Developmental series (shoots and stems)Link to GEO
15.599.5GSM245923csn4-1_mutant_dark replicate 2GSE9728COP9 signalosome (csn) mutant analysisLink to GEO
15.299.4GSM131667ATGE_47_AGSE5633AtGenExpress: Developmental series (shoots and stems)Link to GEO
15.299.4GSM133909Weigel_2-1_CHIP-203-A_Rep1_ATH1GSE5746FRI FLC combosLink to GEO
15.299.4ArrayExpressE-TABM-19-raw-cel-489757606---
15.299.4GSM131680ATGE_51_BGSE5633AtGenExpress: Developmental series (shoots and stems)Link to GEO
15.199.4ArrayExpressE-MEXP-728-raw-cel-1062073688---
15.099.4ArrayExpressE-ATMX-13-raw-cel-1556149823---
14.999.4GSM131681ATGE_51_CGSE5633AtGenExpress: Developmental series (shoots and stems)Link to GEO
14.999.4ArrayExpressE-TABM-19-raw-cel-489757298---
14.999.4GSM133921Weigel_2-13_CHIP-207-A_Rep1_ATH1GSE5746FRI FLC combosLink to GEO
14.999.4ArrayExpressE-MEXP-728-raw-cel-1062073620---
14.799.4GSM284384Arabidopsis GEP5GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
14.499.4GSM133916Weigel_2-8_CHIP-205-B_Rep2_ATH1GSE5746FRI FLC combosLink to GEO
14.499.4ArrayExpressE-TABM-19-raw-cel-489757157---
14.399.4GSM133950Murray_2-6_T10-APH_Rep1_ATH1GSE5747Genome-wide cell cycle studiesLink to GEO
14.399.4ArrayExpressE-MEXP-728-raw-cel-1062074264---
14.199.4GSM133911Weigel_2-3_CHIP-203-C_Rep3_ATH1GSE5746FRI FLC combosLink to GEO
14.199.4ArrayExpressE-TABM-19-raw-cel-489756959---
13.799.4ArrayExpressE-TABM-19-raw-cel-489757322---
13.799.4GSM133922Weigel_2-14_CHIP-207-B_Rep2_ATH1GSE5746FRI FLC combosLink to GEO
13.699.4GSM133913Weigel_2-5_CHIP-204-B_Rep2_ATH1GSE5746FRI FLC combosLink to GEO
13.699.4ArrayExpressE-TABM-19-raw-cel-489757044---
13.599.4ArrayExpressE-MEXP-728-raw-cel-1062074758---
13.599.4ArrayExpressE-TABM-19-raw-cel-489757569---
13.599.4GSM133934Weigel_2-26_CHIP-211-B_Rep2_ATH1GSE5746FRI FLC combosLink to GEO
13.599.4GSM133918Weigel_2-10_CHIP-206-A_Rep1_ATH1GSE5746FRI FLC combosLink to GEO
13.599.4ArrayExpressE-TABM-19-raw-cel-489757215---
13.599.4ArrayExpressE-TABM-19-raw-cel-489757000---
13.599.4GSM133912Weigel_2-4_CHIP-204-A_Rep1_ATH1GSE5746FRI FLC combosLink to GEO
13.399.4ArrayExpressE-TABM-19-raw-cel-489756980---
13.399.4GSM133938Weigel_2-30_CHIP-212-C_Rep3_ATH1GSE5746FRI FLC combosLink to GEO
13.399.4GSM133951Murray_2-7_T12-APH_Rep1_ATH1GSE5747Genome-wide cell cycle studiesLink to GEO
13.399.4GSM270853Arabidopsis cell culture, 4 h_control_rep2GSE10719Response of Arabidopsis cell culture to phytoprostane A1Link to GEO
13.199.4ArrayExpressE-TABM-19-raw-cel-489756890---
13.199.4GSM133936Weigel_2-28_CHIP-212-A_Rep1_ATH1GSE5746FRI FLC combosLink to GEO
13.099.4ArrayExpressE-TABM-19-raw-cel-489756936---
13.099.4GSM133937Weigel_2-29_CHIP-212-B_Rep2_ATH1GSE5746FRI FLC combosLink to GEO
12.899.3ArrayExpressE-MEXP-728-raw-cel-1062074653---
12.899.3GSM133952Murray_2-8_T14-APH_Rep1_ATH1GSE5747Genome-wide cell cycle studiesLink to GEO
12.899.3ArrayExpressE-MEXP-728-raw-cel-1062074409---
12.599.3ArrayExpressE-MEXP-728-raw-cel-1062074512---
12.399.3ArrayExpressE-MEXP-728-raw-cel-1062074718---
12.399.3ArrayExpressE-TABM-19-raw-cel-489757374---
12.399.3GSM133925Weigel_2-17_CHIP-208-B_Rep2_ATH1GSE5746FRI FLC combosLink to GEO
12.299.3ArrayExpressE-ATMX-13-raw-cel-1556149775---
11.899.3ArrayExpressE-MEXP-728-raw-cel-1062074608---
11.799.3ArrayExpressE-ATMX-13-raw-cel-1556149759---
11.499.3ArrayExpressE-TABM-19-raw-cel-489757194---
11.399.3ArrayExpressE-MEXP-728-raw-cel-1062074303---
11.199.2ArrayExpressE-TABM-63-raw-cel-681136835---
10.999.2ArrayExpressE-MEXP-728-raw-cel-1062074361---
10.899.2ArrayExpressE-TABM-19-raw-cel-489757257---
10.899.2GSM133919Weigel_2-11_CHIP-206-B_Rep2_ATH1GSE5746FRI FLC combosLink to GEO
10.899.2ArrayExpressE-TABM-19-raw-cel-489757129---
10.899.2GSM133915Weigel_2-7_CHIP-205-A_Rep1_ATH1GSE5746FRI FLC combosLink to GEO
10.899.2GSM134204Murray_3-2_D3-GROWTH_Rep1_ATH1GSE5750Growth of suspension-cultured cellsLink to GEO
10.899.2ArrayExpressE-TABM-19-raw-cel-489757085---
10.899.2GSM133914Weigel_2-6_CHIP-204-C_Rep3_ATH1GSE5746FRI FLC combosLink to GEO
10.699.2GSM131453AtGen_6-9321_Heatstress-Roots-3.0h_Rep1GSE5628AtGenExpress: Stress Treatments (Heat stress)Link to GEO
10.699.2GSM131676ATGE_50_AGSE5633AtGenExpress: Developmental series (shoots and stems)Link to GEO
10.599.2ArrayExpressE-MEXP-728-raw-cel-1062074538---
10.499.2ArrayExpressE-ATMX-13-raw-cel-1556149887---
10.399.2ArrayExpressE-TABM-63-raw-cel-681136761---
10.399.2GSM131454AtGen_6-9322_Heatstress-Roots-3.0h_Rep2GSE5628AtGenExpress: Stress Treatments (Heat stress)Link to GEO
10.299.2ArrayExpressE-TABM-63-raw-cel-681136797---
10.099.2GSM131650ATGE_6_BGSE5633AtGenExpress: Developmental series (shoots and stems)Link to GEO
9.999.1ArrayExpressE-MEXP-728-raw-cel-1062074684---
9.699.1GSM131677ATGE_50_BGSE5633AtGenExpress: Developmental series (shoots and stems)Link to GEO
9.699.1ArrayExpressE-ATMX-35-raw-cel-1574334832---
9.599.1ArrayExpressE-MEXP-728-raw-cel-1062074577---
9.599.1ArrayExpressE-TABM-63-raw-cel-681136722---
9.599.1ArrayExpressE-MEXP-728-raw-cel-1062074226---
9.499.1GSM131649ATGE_6_AGSE5633AtGenExpress: Developmental series (shoots and stems)Link to GEO
9.499.1ArrayExpressE-ATMX-31-raw-cel-1516947882---
9.299.1GSM131678ATGE_50_CGSE5633AtGenExpress: Developmental series (shoots and stems)Link to GEO
9.299.1GSM284385Arabidopsis GEP6GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
9.199.1GSM131651ATGE_6_CGSE5633AtGenExpress: Developmental series (shoots and stems)Link to GEO
9.099.1ArrayExpressE-ATMX-24-raw-cel-1441078160---
8.799.0ArrayExpressE-MEXP-728-raw-cel-1062074471---



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