Co-expression analysis

Gene ID At5g44280
Gene name RING1A (RING 1A)
Module size 29 genes
NF 0.17
%ile 14.2



Co-expression network

pink confeito: Transcription factor, green bicone: Binding protein, red cone: Enzyme protein, blue sphere: Other protein
large node: VF over 0.50, middle node: over 0.25, small node: below 0.25



Co-expressed genes

Click gene/probe ID to show a list of genes that are co-expressed with the gene.

VF %ile CC Gene ID Repr. ID Gene name Func. O.I. H.G. S.X. Other DB
0.8290.91.00At5g44280834451RING1A (RING 1A)Encodes a nuclear localized protein with similarity to animal polycomb repressive core complex1 (PRC1) core component RING.Appears to function redundantly with ATRING1b, a close paralog. Both interact physically with CLF and LHP1 and appear to function together to repress class I KNOX gene expression.O.I.H.G.S.X.
0.3745.00.83At4g00980827935zinc knuckle (CCHC-type) family proteinF:zinc ion binding, nucleic acid binding;P:biological_process unknown;C:cellular_component unknown;PMFO.I.H.G.S.X.
0.3541.60.85At2g20400816559myb family transcription factorF:transcription factor activity, DNA binding;P:regulation of transcription;C:unknown;POO.I.H.G.S.X.
0.3338.10.84At5g22820832345bindingF:binding;P:biological_process unknown;C:cellular_component unknown;MPO.I.H.G.S.X.
0.2319.30.83At1g74400843781pentatricopeptide (PPR) repeat-containing proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POFMBO.I.H.G.S.X.
0.2319.30.83At2g47310819344flowering time control protein-related / FCA gamma-relatedF:protein binding, RNA binding, nucleotide binding, nucleic acid binding;P:unknown;C:unknown;MPFOBO.I.H.G.S.X.
0.2319.30.84At5g17570831623tatD-related deoxyribonuclease family proteinF:endodeoxyribonuclease activity, producing 5'-phosphomonoesters, deoxyribonuclease activity;P:biological_process unknown;C:cellular_component unknown;BOMFAPO.I.H.G.S.X.
0.2319.30.84At4g13330826963unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMBOO.I.H.G.S.X.
0.2014.40.83At1g32610840156hydroxyproline-rich glycoprotein family proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFPOVBO.I.H.G.S.X.
0.2014.40.83At2g20210816540leucine-rich repeat family proteinF:protein binding;P:unknown;C:endomembrane system;MOPBFO.I.H.G.S.X.
0.2014.40.83At5g53430835424SDG29 (SET DOMAIN GROUP 29)Homology Subgroup III; Orthology Group 2 - A putative histone methyltransferase (predicted to methylate H3K4) related to the Drosophila trithorax group proteins TRX and TRR and the yeast gene SET1. A plant line expressing an RNAi construct directed against this gene has reduced agrobacterium-mediated tumor formation.O.I.H.G.S.X.
0.2014.40.84At1g270708395965'-AMP-activated protein kinase-relatedF:unknown;P:unknown;C:unknown;MFPOBAO.I.H.G.S.X.
0.1912.70.83At2g27790817326nucleic acid binding / nucleotide bindingF:nucleotide binding, nucleic acid binding;P:biological_process unknown;C:cellular_component unknown;MPOFO.I.H.G.S.X.
0.1912.70.84At3g12940820479unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.1710.20.83At2g01740814704pentatricopeptide (PPR) repeat-containing proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POMFBAO.I.H.G.S.X.
0.168.80.83At2g44630819071kelch repeat-containing F-box family proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;MPBOAFO.I.H.G.S.X.
0.168.80.83At2g19280816445pentatricopeptide (PPR) repeat-containing proteinF:unknown;P:biological_process unknown;C:unknown;POMFBAO.I.H.G.S.X.
0.168.80.84At2g02150814746pentatricopeptide (PPR) repeat-containing proteinF:unknown;P:biological_process unknown;C:endomembrane system;POMFBAO.I.H.G.S.X.
0.157.80.85At3g09370820094MYB3R-3 (myb domain protein 3R-3)putative c-myb-like transcription factor (MYB3R3) mRNA,O.I.H.G.S.X.
0.157.80.83At2g35550818120BPC7 (BASIC PENTACYSTEINE 7)F:transcription factor activity, DNA binding;P:regulation of transcription, DNA-dependent;C:nucleus;PMO.I.H.G.S.X.
0.146.80.84At5g41270834128-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;BPMO.I.H.G.S.X.
0.135.80.83At4g25120828615ATP binding / ATP-dependent DNA helicase/ DNA binding / hydrolaseF:ATP-dependent DNA helicase activity, hydrolase activity, DNA binding, ATP binding;P:DNA repair;C:unknown;BOFAPMVO.I.H.G.S.X.
0.135.80.83At1g50910841513unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOFBPVAO.I.H.G.S.X.
0.124.90.84At1g68980843231pentatricopeptide (PPR) repeat-containing proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POFMO.I.H.G.S.X.
0.124.90.83At1g50620841484PHD finger family proteinF:protein binding, DNA binding, zinc ion binding;P:regulation of transcription, DNA-dependent;C:unknown;MOFBPVAO.I.H.G.S.X.
0.124.90.85At1g51450841570SPla/RYanodine receptor (SPRY) domain-containing proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOFBPVAO.I.H.G.S.X.
0.082.30.83At1g78930844232mitochondrial transcription termination factor-related / mTERF-relatedF:molecular_function unknown;P:biological_process unknown;C:chloroplast;PMOO.I.H.G.S.X.
0.082.30.83At4g04790825816-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POMFBAO.I.H.G.S.X.
0.071.90.86At5g47400834787unknown proteinF:molecular_function unknown;P:unknown;C:endomembrane system;MPOO.I.H.G.S.X.

Click More genes

Link to AtGenExpress Visualization Tool



Specific experiments for the module

Std2 GX %ile GSM ID Assay name GSE ID Experiment title Link to GEO
72.199.9GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
57.599.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
56.099.8GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
52.299.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
50.999.8GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
49.699.8GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
49.399.8GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
48.599.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
47.999.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
46.899.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
46.799.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
46.199.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
44.499.8GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
42.599.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
40.399.8GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
39.499.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
38.199.8GSM133761Lindsey_1-13_torpedo-cotyledon_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
37.999.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
37.599.7GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
36.299.7GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
33.099.7GSM284396Arabidopsis GPSc2GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
25.299.6GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
23.299.6GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
21.599.6GSM311293Laser capture microdissected (LCM) chalazal seed coat at the linear-cotyledon stage, biological replicate 1GSE12403Expression data from Arabidopsis seed compartments at the linear-cotyledon stageLink to GEO
20.899.6GSM311294Laser capture microdissected (LCM) chalazal seed coat at the linear-cotyledon stage, biological replicate 2GSE12403Expression data from Arabidopsis seed compartments at the linear-cotyledon stageLink to GEO
20.399.6E-MEXP-807-raw-cel-1173273088
19.599.6E-MEXP-807-raw-cel-1173273196
18.399.5E-MEXP-807-raw-cel-1173273223
18.299.5E-MEXP-807-raw-cel-1173273116
18.199.5GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
17.899.5GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
17.699.5GSM284395Arabidopsis GPSc1GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
17.499.5E-MEXP-807-raw-cel-1173273060
15.799.5E-ATMX-33-raw-cel-1562596197
14.699.4GSM265430Arabidopsis, root, longitudinal zone 3, -Fe conditions, rep 1GSE10497Expression analysis of root developmental zones after iron deficiency (-Fe) treatmentLink to GEO
12.599.3GSM184906Arabidopsis, root cells, protophloem, standard conditions, replicate 3GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
12.399.3E-ATMX-33-raw-cel-1562596241
12.399.3GSM311284Laser capture microdissected (LCM) general seed coat at the pre-globular stage, biological replicate 2GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
12.399.3E-MEXP-807-raw-cel-1173273170
11.599.3GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
10.299.2GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
10.099.2GSM184923Arabidopsis, root cells, protophloem, 140 mM NaCl, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
9.999.1GSM133985Birnbaum_1-15_StageIII-4_Rep4_ATH1GSE5749A gene expression map of the Arabidopsis rootLink to GEO
9.799.1GSM265423Arabidopsis, root, longitudinal zone 3, standard conditions, rep 2GSE10497Expression analysis of root developmental zones after iron deficiency (-Fe) treatmentLink to GEO
9.599.1GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
9.199.1GSM13784Cycloheximide - replicateGSE911Identification of LEAFY targets during reproductive transitionLink to GEO
8.899.0GSM176876AWP_AL_Txed_1GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO
8.899.0GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
8.799.0E-ATMX-33-raw-cel-1562596103
8.699.0GSM265431Arabidopsis, root, longitudinal zone 3, -Fe conditions, rep 2GSE10497Expression analysis of root developmental zones after iron deficiency (-Fe) treatmentLink to GEO
8.699.0GSM184844Arabidopsis, root, longitudinal zone 3, standard conditions, NaCl, replicate 2GSE7639Expression analysis of root developmental zones after treatment with saltLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0561GO:0045814Any epigenetic process that stops, prevents or reduces the rate of gene expression.Link to AmiGO
0.0361GO:0006310Any process by which a new genotype is formed by reassortment of genes resulting in gene combinations different from those that were present in the parents. In eukaryotes genetic recombination can occur by chromosome assortment, intrachromosomal recombination, or nonreciprocal interchromosomal recombination. Intrachromosomal recombination occurs by crossing over. In bacteria it may occur by genetic transformation, conjugation, transduction, or F-duction.Link to AmiGO
0.0361GO:0009294The introduction and uptake of foreign genetic material (DNA or RNA) into a cell, and often the expression of that genetic material.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG

Inter-species module comparison

Select a plant to compare co-expressed genes between species.
Glycine_max
Hordeum_vulgare
Oryza_sativa
Populus_trichocarpa
Triticum_aestivum
Vitis_vinifera
Zea_mays



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