Co-expression analysis

Gene ID At3g21140
Gene name FMN binding
Module size 43 genes
NF 0.32
%ile 41.0



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
1.00100.01.00At3g21140821666FMN bindingF:FMN binding;P:unknown;C:chloroplast;BOPMO.I.H.G.S.X.
0.5267.40.91At1g56350842089peptide chain release factor, putativeF:translation release factor activity, codon specific, translation release factor activity;P:translational termination;C:cytoplasm;OBMFPVO.I.H.G.S.X.
0.4558.30.92At3g12990820485RRP45a (Ribonuclease PH45a)Encodes a 3'-5' exoribonuclease, partially redundant with CER7. Involved in epicuticular wax biosynthesis.O.I.H.G.S.X.
0.4457.20.91At4g15570827233MAA3 (MAGATAMA 3)Similar to yeast Sen1 (splicing endonuclease 1)helicase protein. Involved in female gametophyte development.O.I.H.G.S.X.
0.4355.30.92At2g31240817681tetratricopeptide repeat (TPR)-containing proteinF:binding;P:biological_process unknown;C:cellular_component unknown;MBOFPAVO.I.H.G.S.X.
0.4253.90.91At1g73240843658unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMO.I.H.G.S.X.
0.3948.40.93At3g069403768779transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.3846.70.92At5g64730836594transducin family protein / WD-40 repeat family proteinF:nucleotide binding;P:unknown;C:CUL4 RING ubiquitin ligase complex, heterotrimeric G-protein complex;MFOBPAVO.I.H.G.S.X.
0.3846.70.91At2g31740817731methyltransferaseF:methyltransferase activity;P:metabolic process;C:unknown;OBMPFAO.I.H.G.S.X.
0.3643.60.92At1g52380841668Ran-binding protein 1 domain-containing protein / RanBP1 domain-containing proteinF:molecular_function unknown;P:intracellular transport;C:cytosol, nucleus;MFOPBVO.I.H.G.S.X.
0.3541.60.91At2g44020819007mitochondrial transcription termination factor-related / mTERF-relatedF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMOO.I.H.G.S.X.
0.3541.60.91At3g63400825515peptidyl-prolyl cis-trans isomerase cyclophilin-type family proteinF:peptidyl-prolyl cis-trans isomerase activity;P:protein folding, RNA splicing;C:cellular_component unknown;MOBFPVAO.I.H.G.S.X.
0.3541.60.91At4g10760826670MTA (MRNA ADENOSINE METHYLASE)F:S-adenosylmethionine-dependent methyltransferase activity, methyltransferase activity;P:embryonic development ending in seed dormancy, mRNA methylation;C:nuclear speck, chloroplast;MOBPFAVO.I.H.G.S.X.
0.3541.60.91At4g10090826600unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPOFO.I.H.G.S.X.
0.3541.60.91At4g11790826785Ran-binding protein 1 domain-containing protein / RanBP1 domain-containing proteinF:molecular_function unknown;P:intracellular transport;C:cellular_component unknown;OMBFPVAO.I.H.G.S.X.
0.3439.80.91At1g24310839047unknown proteinF:molecular_function unknown;P:biological_process unknown;C:nucleolus;MOFPBVO.I.H.G.S.X.
0.3439.80.91At2g39810818568HOS1A novel protein with a RING finger motif near the amino terminus. Negative regulator of cold responses. Functions as an E3 ligase required for the ubiquitination of ICE1. HOS1 physically interacts with ICE1 and mediates the ubiquitination of ICE1 both in vitro and in vivo. Overexpression represses the expression of CBFs and their downstream genes and confers increased sensitivity to freezing stress.O.I.H.G.S.X.
0.3439.80.91At4g24880828590unknown proteinF:unknown;P:unknown;C:unknown;MPOFO.I.H.G.S.X.
0.3338.10.91At1g26370839179RNA helicase, putativeF:in 6 functions;P:biological_process unknown;C:chloroplast;MBOFVPAO.I.H.G.S.X.
0.3338.10.91At5g06810830572mitochondrial transcription termination factor-related / mTERF-relatedF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMOO.I.H.G.S.X.
0.3338.10.91At5g27540832814MIRO1 (Miro-related GTP-ase 1)Encodes a protein with similarity to GTPases that is localized to the mitochondrion. Involved in embryogenesis, pollen tube growth and required for mitochondrial development.O.I.H.G.S.X.
0.3338.10.92At5g63110836431HDA6 (HISTONE DEACETYLASE 6)RPD3-like histone deacetylase. HDA6 mutations specifically increase the expression of auxin-responsive transgenes, suggesting a role in transgene silencing.O.I.H.G.S.X.
0.3235.70.91At2g17510816257EMB2763 (EMBRYO DEFECTIVE 2763)F:ribonuclease activity, RNA binding;P:unknown;C:unknown;BOMFPAVO.I.H.G.S.X.
0.3235.70.92At1g55150841958DEAD box RNA helicase, putative (RH20)F:helicase activity, ATP-dependent helicase activity, ATP binding, nucleic acid binding;P:unknown;C:cellular_component unknown;BOMFPAVO.I.H.G.S.X.
0.3235.70.91At1g05055839332GTF2H2 (GENERAL TRANSCRIPTION FACTOR IIH 2)Member of transcription factor TFIIH complex. Involved in transcription and DNA repair and interacts with AtXPD.O.I.H.G.S.X.
0.3133.80.91At5g49530835014SIN-like family proteinF:DNA-directed RNA polymerase activity;P:transcription;C:nucleus;MOFPBO.I.H.G.S.X.
0.3133.80.91At3g02710821269nuclear associated protein-related / NAP-relatedEncodes a protein with a putative role in mRNA splicing.O.I.H.G.S.X.
0.3032.10.92At4g30890829213UBP24 (UBIQUITIN-SPECIFIC PROTEASE 24)Encodes a ubiquitin-specific protease.O.I.H.G.S.X.
0.2930.30.91At5g04520830331unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;BOPFMO.I.H.G.S.X.
0.2830.30.91At3g62620825436sucrose-phosphatase-relatedF:unknown;P:biological_process unknown;C:unknown;OMFBPVO.I.H.G.S.X.
0.2726.20.92At1g07705837284transcription regulatorF:transcription regulator activity;P:regulation of transcription;C:nucleus, chloroplast;MOBFPVO.I.H.G.S.X.
0.2624.40.91At3g26560822264ATP-dependent RNA helicase, putativeF:in 6 functions;P:unknown;C:cytosol, mitochondrion;MOBFPVAO.I.H.G.S.X.
0.2522.60.91At3g59990825169MAP2B (METHIONINE AMINOPEPTIDASE 2B)Encodes a MAP2 like methionine aminopeptidaseO.I.H.G.S.X.
0.2522.60.91At3g63270825502unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPFOO.I.H.G.S.X.
0.2522.60.91At5g04280830307glycine-rich RNA-binding proteinF:RNA binding, zinc ion binding, nucleotide binding, nucleic acid binding;P:biological_process unknown;C:nucleolus;MPFOBVAO.I.H.G.S.X.
0.2319.30.91At1g09760837505U2A' (U2 small nuclear ribonucleoprotein A)F:protein binding;P:nuclear mRNA splicing, via spliceosome, response to cold;C:in 6 components;MBOFPVO.I.H.G.S.X.
0.2319.30.91At5g64830836606programmed cell death 2 C-terminal domain-containing proteinF:molecular_function unknown;P:apoptosis;C:cytoplasm;MFOPO.I.H.G.S.X.
0.2115.80.91At1g04510839503transducin family protein / WD-40 repeat family proteinF:ubiquitin-protein ligase activity, nucleotide binding;P:response to cadmium ion;C:nucleolus, CUL4 RING ubiquitin ligase complex;MFOBPAO.I.H.G.S.X.
0.2115.80.91At3g20650821612mRNA capping enzyme family proteinF:catalytic activity;P:mRNA capping;C:chloroplast;OVMFPBO.I.H.G.S.X.
0.2014.40.91At4g00170828017vesicle-associated membrane family protein / VAMP family proteinF:structural molecule activity;P:biological_process unknown;C:cellular_component unknown;MPFOO.I.H.G.S.X.
0.1912.70.91At3g20970821647NFU4Encodes a protein containing the NFU domain that may be involved in iron-sulfur cluster assembly. Part of a five member gene family, more closely related to NFU5 than to NFU1,2, and 3. Targeted to the mitochondrion.O.I.H.G.S.X.
0.1811.40.91At1g14510838013AL7 (ALFIN-LIKE 7)AL7 encodes a member of the Alfin-Like family of nuclear-localized PhD domain containing homeodomain proteins. Binds to H3K4 di or trimethylated DNA.O.I.H.G.S.X.
0.146.80.91At5g28850833004calcium-binding EF hand family proteinF:calcium ion binding;P:biological_process unknown;C:endomembrane system;MOPFO.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
38.999.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
38.799.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
37.799.7GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
37.799.7GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
37.499.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
37.499.7GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
37.099.7GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
37.099.7GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
35.499.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
35.299.7GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
35.099.7GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
34.999.7GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
34.199.7GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
33.999.7GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
33.599.7GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
32.399.7GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
31.999.7GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
31.199.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
20.699.6GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
18.999.5GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
15.399.4GSM67086Arabidopsis_Stigma02GSE3056Arabidopsis Pollination StudyLink to GEO
14.399.4GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
14.399.4GSM67087Arabidopsis_Stigma03GSE3056Arabidopsis Pollination StudyLink to GEO
14.199.4E-MEXP-1443-raw-cel-1581869573
13.999.4GSM142737DH001_ATH1_A4-UNM2GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
13.999.4GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
13.899.4GSM142734DH001_ATH1_A1-UNM1GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
12.799.3GSM131611ATGE_43_CGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
12.099.3GSM131610ATGE_43_BGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
11.999.3GSM142738DH001_ATH1_A5-BCP2GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
11.699.3GSM311276Laser capture microdissected (LCM) micropylar endospermr at the pre-globular stage, biological replicate 2GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
11.299.2GSM284389Arabidopsis GMPE2GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
11.099.2GSM284391Arabidopsis GPE3GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
10.999.2GSM131609ATGE_43_AGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
10.699.2GSM284394Arabidopsis GCE3GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
9.599.1GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
9.299.1GSM142735DH001_ATH1_A2-BCP1GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
9.199.1GSM290758root - 01% oxygen - 48h - AGSE11558transcript profiling of the adaptive response to decreases in oxygen concentration in the roots of Arabidopsis plantsLink to GEO
8.899.0GSM131607ATGE_42_CGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
8.899.0GSM284385Arabidopsis GEP6GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
8.699.0GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0782GO:0046907The directed movement of substances within a cell.Link to AmiGO
0.0492GO:0008380The process of removing sections of the primary RNA transcript to remove sequences not present in the mature form of the RNA and joining the remaining sections to form the mature form of the RNA.Link to AmiGO
0.0451GO:0080009The posttranscriptional addition of methyl groups to specific residues in an mRNA molecule.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.044203018RNA degradationLink to KEGG PATHWAY
0.026103022Basal transcription factorsLink to KEGG PATHWAY
0.021103420Nucleotide excision repairLink to KEGG PATHWAY

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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