Co-expression analysis

Gene ID At5g55600
Gene name agenet domain-containing protein / bromo-adjacent homology (BAH) domain-containing protein
Module size 62 genes
NF 0.38
%ile 52.9



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
0.8994.61.00At5g55600835654agenet domain-containing protein / bromo-adjacent homology (BAH) domain-containing proteinF:RNA binding, DNA binding;P:biological_process unknown;C:cellular_component unknown;POMFO.I.H.G.S.X.
0.5673.00.92At4g16280827323FCAInvolved in the promotion of the transition of the vegetative meristem to reproductive development. Four forms of the protein (alpha, beta, delta and gamma) are produced by alternative splicing. Involved in RNA-mediated chromatin silencing.O.I.H.G.S.X.
0.5469.50.92At3g63070825482PWWP domain-containing proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFOPBO.I.H.G.S.X.
0.5368.60.93At5g56240835723-F:unknown;P:biological_process unknown;C:unknown;OMFPBO.I.H.G.S.X.
0.5267.40.92At5g10940830961transducin family protein / WD-40 repeat family proteinF:nucleotide binding;P:biological_process unknown;C:plasma membrane, CUL4 RING ubiquitin ligase complex;MBFOPAO.I.H.G.S.X.
0.5267.40.93At3g45190823655SIT4 phosphatase-associated family proteinF:unknown;P:biological_process unknown;C:cellular_component unknown;MOFBPAVO.I.H.G.S.X.
0.5166.30.93At5g65770836706LINC4 (LITTLE NUCLEI4)F:unknown;P:unknown;C:chloroplast;MOBFPAVO.I.H.G.S.X.
0.5166.30.93At2g44950819104HUB1 (HISTONE MONO-UBIQUITINATION 1)The gene encodes one of two orthologous E3 ubiquitin ligases in Arabidopsis that are involved in monoubiquitination of histone H2B.O.I.H.G.S.X.
0.4761.20.91At4g35800829734NRPB1 (RNA POLYMERASE II LARGE SUBUNIT)Encodes the unique largest subunit of nuclear DNA-dependent RNA polymerase II; the ortholog of budding yeast RPB1 and a homolog of the E. coli RNA polymerase beta prime subunit.O.I.H.G.S.X.
0.4659.80.92At5g52530835329dentin sialophosphoprotein-relatedF:molecular_function unknown;P:biological_process unknown;C:unknown;MOFBPVAO.I.H.G.S.X.
0.4659.80.93At1g16710838242HAC12 (histone acetyltransferase of the CBP family 12)Encodes an enzyme with histone acetyltransferase activity that can use both H3 and H4 histones as substrates. No single prior lysine acetylation is sufficient to block HAC12 acetylation of the H3 or H4 peptides, suggesting that HAC12 can acetylate any of several lysines present in the peptides.O.I.H.G.S.X.
0.4558.30.92At2g46020819210transcription regulatory protein SNF2, putativeEncodes a SWI/SNF chromatin remodeling ATPase that upregulates transcription of all three CUC genes and is involved in the formation and/or maintenance of boundary cells during embryogenesis. Also mediates repression of expression of seed storage proteins in vegetative tissues. Interacts strongly with AtSWI3C, also with AtSWI3B, but not with AtSWI3A or AtSWI3D.O.I.H.G.S.X.
0.4457.20.92At4g32160829348phox (PX) domain-containing proteinF:phosphoinositide binding;P:signal transduction;C:unknown;MOBFPAVO.I.H.G.S.X.
0.4355.30.93At3g06670819852bindingF:binding;P:biological_process unknown;C:cellular_component unknown;MOFPBVO.I.H.G.S.X.
0.4355.30.92At1g17210838292zinc ion bindingF:zinc ion binding;P:unknown;C:cytosol, nucleus, phragmoplast;OMPFBAO.I.H.G.S.X.
0.4355.30.92At2g26890817230GRV2 (GRAVITROPISM DEFECTIVE 2)GRV2 has sequence similarity to the C. elegans protein RME-8 which is involved in endocytosis. grv2 mutants result in a reduction in gravitropic response in hypocotyls and shoots but do not affect root gravitropism. The mutants are defective in amyloplast sedimentation.O.I.H.G.S.X.
0.4253.90.92At4g00450827954CRP (CRYPTIC PRECOCIOUS)A genetic locus involved in flowering time. The mutant enhances the expression of the flowering time (FT) gene. A knockout mutant of this gene showed late-flowering phenotype.O.I.H.G.S.X.
0.4253.90.92At5g22760832339PHD finger family proteinF:protein binding, DNA binding, zinc ion binding;P:regulation of transcription, DNA-dependent;C:unknown;MPFOO.I.H.G.S.X.
0.4253.90.92At1g08620837384transcription factorF:transcription factor activity;P:regulation of transcription;C:nucleus;MFPOO.I.H.G.S.X.
0.4253.90.92At1g22860838891unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFOPBO.I.H.G.S.X.
0.4152.40.93At2g39340818519SAC3/GANP family proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOFPBVAO.I.H.G.S.X.
0.4152.40.92At5g47480834798unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;OMFBPAVO.I.H.G.S.X.
0.4152.40.92At3g25840822178protein kinase family proteinF:protein serine/threonine kinase activity, protein kinase activity, ATP binding;P:protein amino acid phosphorylation;C:nucleus;MOFPBVAO.I.H.G.S.X.
0.4152.40.92At3g06340819808DNAJ heat shock N-terminal domain-containing proteinF:unfolded protein binding, heat shock protein binding;P:protein folding;C:cellular_component unknown;BOMFPAVO.I.H.G.S.X.
0.4152.40.91At2g47410819354nucleotide bindingF:nucleotide binding;P:unknown;C:CUL4 RING ubiquitin ligase complex;MFOBPAVO.I.H.G.S.X.
0.4050.80.93At1g43850840981SEU (seuss)Encodes a transcriptional co-regulator of AGAMOUS, that functions with LEUNIG to repress AG in the outer floral whorls.O.I.H.G.S.X.
0.4050.80.93At1g54490841891XRN4 (EXORIBONUCLEASE 4)Involved in the ethylene response. XRN4 does not appear to regulate ethylene signaling via an RNA-INDUCED SILENCING COMPLEX-based RNA silencing mechanism but acts by independent means. Endogenous suppressor of posttranscriptional gene silencing.O.I.H.G.S.X.
0.4050.80.93At1g07990837314SIT4 phosphatase-associated family proteinF:unknown;P:biological_process unknown;C:endomembrane system;MFOPBVO.I.H.G.S.X.
0.4050.80.91At3g11960820369cleavage and polyadenylation specificity factor (CPSF) A subunit C-terminal domain-containing proteinF:nucleic acid binding;P:biological_process unknown;C:nucleus, chloroplast;MFPOO.I.H.G.S.X.
0.4050.80.91At5g07940830688-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;OMFBPAO.I.H.G.S.X.
0.3948.40.93At1g24190839032SNL3 (SIN3-LIKE 3)Enhances AtERF7-mediated transcriptional repression. RNAi lines show ABA hypersensitivity. Interacts with ERF7 and HDA19.O.I.H.G.S.X.
0.3948.40.92At5g66810836814-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPFOO.I.H.G.S.X.
0.3846.70.93At2g25760817118protein kinase family proteinF:protein serine/threonine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:unknown;MBOPFVAO.I.H.G.S.X.
0.3846.70.92At3g55320824698PGP20 (P-GLYCOPROTEIN 20)F:ATPase activity, coupled to transmembrane movement of substances;P:transport;C:nucleus, plasma membrane;BOMFAPVO.I.H.G.S.X.
0.3846.70.92At5g37370833711ATSRL1encodes a putative splicing factor. Over-expression in yeast and Arabidopsis result in increased tolerance to high salt.O.I.H.G.S.X.
0.3846.70.92At3g57570824924bindingF:binding;P:biological_process unknown;C:cellular_component unknown;POBO.I.H.G.S.X.
0.3745.00.92At4g24560828558UBP16 (UBIQUITIN-SPECIFIC PROTEASE 16)Encodes a ubiquitin-specific protease. There is no evidence for a phenotype in ubp16-1 mutants, however, double mutant analysis with ubp15 mutants reveals a role for UBP16 in plant development and cell proliferation.O.I.H.G.S.X.
0.3745.00.91At2g35110818077GRL (GNARLED)Component of the WAVE protein complex which act as activators of ARP2/3 complex involved in actin nucleation. Required for trichome morphogenesis. Mutant displays distorted trichomes, a phenotype that can be phenocopied by treatment of WT plants with actin-interacting drugs.O.I.H.G.S.X.
0.3541.60.92At1g22870838892protein kinase family proteinF:in 6 functions;P:protein amino acid phosphorylation;C:cellular_component unknown;MOFPBVAO.I.H.G.S.X.
0.3541.60.92At4g05420825890DDB1A (DAMAGED DNA BINDING PROTEIN 1A)Structurally similar to damaged DNA binding proteins.DDB1a is part of a 350 KDa nuclear localized DET1 protein complex. This complex may physically interact with histone tails and while bound to chromatin- repress transcription of genes involved in photomorphogenesis.O.I.H.G.S.X.
0.3541.60.92At1g33980840295Smg-4/UPF3 family proteinInvolved in mRNA surveillance, detects exported mRNAs with truncated open reading frames and initiates nonsense-mediated mRNA decay (NMD)O.I.H.G.S.X.
0.3439.80.92At4g24740828576AFC2 (ARABIDOPSIS FUS3-COMPLEMENTING GENE 2)a LAMMER-type protein kinase that co-precipitates with serine/arginine-rich (SR) proteins in vitro, interaction modulated by phosphorylation of the proteins.O.I.H.G.S.X.
0.3439.80.92At1g75850843918VPS35B (VPS35 HOMOLOG B)F:unknown;P:intracellular protein transport, retrograde transport, endosome to Golgi;C:cellular_component unknown;MFOPBO.I.H.G.S.X.
0.3439.80.92At1g66340842951ETR1 (ETHYLENE RESPONSE 1)Similar to prokaryote sensory transduction proteins. Contains a histidine kinase and a response regulator domain. Homodimer. Membrane component. Binds ethylene. Mutations affect ethylene binding and metabolism of other plant hormones such as auxin, cytokinins, ABA and gibberellic acid. Ethylene receptor. Has histidine kinase activity. Is regulated by RTE1.O.I.H.G.S.X.
0.3439.80.92At4g10570826649UBP9 (UBIQUITIN-SPECIFIC PROTEASE 9)encodes a ubiquitin-specific protease family member, UBP9.O.I.H.G.S.X.
0.3439.80.92At5g61140836235DEAD box RNA helicase, putativeEncodes a predicted protein with 30% identity with MER3/RCK.O.I.H.G.S.X.
0.3338.10.93At2g27900817335unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPOO.I.H.G.S.X.
0.3338.10.91At4g11860826793-F:molecular_function unknown;P:biological_process unknown;C:cytosol, nucleus, plasma membrane;MFOPBO.I.H.G.S.X.
0.3235.70.91At2g40930818691UBP5 (UBIQUITIN-SPECIFIC PROTEASE 5)Encodes ubiquitin-specific protease with nuclear localization signals that is likely to be involved in ubiquitin-mediated protein degradation.O.I.H.G.S.X.
0.3235.70.91At1g02080839244transcriptional regulator-relatedF:transcription regulator activity;P:unknown;C:membrane;MOFBPO.I.H.G.S.X.
0.3133.80.91At3g52120824376SWAP (Suppressor-of-White-APricot)/surp domain-containing protein / D111/G-patch domain-containing proteinF:RNA binding, nucleic acid binding;P:RNA processing;C:intracellular;MPFOO.I.H.G.S.X.
0.3133.80.91At5g19420832062Ran GTPase binding / chromatin binding / zinc ion bindingF:chromatin binding, zinc ion binding, Ran GTPase binding;P:unknown;C:unknown;MOPBFAVO.I.H.G.S.X.
0.3032.10.91At3g15120820743AAA-type ATPase family proteinF:nucleoside-triphosphatase activity, ATPase activity, nucleotide binding, ATP binding;P:unknown;C:unknown;MOBFPAVO.I.H.G.S.X.
0.3032.10.91At2g30800817631HVT1 (HELICASE IN VASCULAR TISSUE AND TAPETUM)Has RNA or DNA helicase activity and expressed specifically in tapetum and vascular tissue. First identified member of a new group of the mle helicase group of the DEAH family.O.I.H.G.S.X.
0.2930.30.92At2g46560819268transducin family protein / WD-40 repeat family proteinF:nucleotide binding;P:unknown;C:CUL4 RING ubiquitin ligase complex;BFMOPO.I.H.G.S.X.
0.2930.30.92At5g35980833590protein kinase family proteinF:protein serine/threonine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:cytosol;MOPFBVAO.I.H.G.S.X.
0.2930.30.92At5g51340835208unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPOBO.I.H.G.S.X.
0.2830.30.92At5g06120830499Ran-binding protein, putativeF:protein transporter activity, binding;P:intracellular protein transport, protein import into nucleus, docking;C:nucleus, nuclear pore, cytoplasm;MOPO.I.H.G.S.X.
0.2830.30.92At5g63200836441tetratricopeptide repeat (TPR)-containing proteinF:binding;P:biological_process unknown;C:cellular_component unknown;OBMAFPO.I.H.G.S.X.
0.2726.20.91At1g76850844020SEC5A (EXOCYST COMPLEX COMPONENT SEC5)F:molecular_function unknown;P:pollen germination, pollen tube growth;C:cytosol, plasma membrane;MFPOVBO.I.H.G.S.X.
0.2624.40.91At1g04950839370TAF6 (TBP-ASSOCIATED FACTOR 6)Encodes one of two Arabidopsis proteins with significant similarity to the histone fold TBP-associated factor TAF6. Mutants are embryo lethal and transmission of the mutant allele through the male gametophyte is significantly reduced. This is due to reduced pollen tube growth of the mutant.O.I.H.G.S.X.
0.2522.60.91At1g12470837804Pep3/Vps18/deep orange family proteinF:protein binding, zinc ion binding;P:unknown;C:unknown;MFOPBO.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
53.699.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
51.799.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
51.699.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
51.399.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
49.799.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
48.999.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
44.799.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
44.599.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
43.099.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
41.599.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
39.399.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
38.499.8GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
37.899.8GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
36.099.7GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
35.599.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
34.699.7GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
31.999.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
29.399.7GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
28.799.7GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
26.999.7GSM284394Arabidopsis GCE3GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
25.299.6GSM284392Arabidopsis GCE1GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
19.599.6GSM284393Arabidopsis GCE2GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
17.699.5GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
16.199.5GSM142739DH001_ATH1_A6-TCP2GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
15.799.5GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
15.699.5GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
15.499.5GSM142736DH001_ATH1_A3-TCP1GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
14.899.4GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
14.799.4GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
13.599.4GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
13.499.4GSM13779Dexamethasone plus cycloheximideGSE911Identification of LEAFY targets during reproductive transitionLink to GEO
12.599.3GSM13780CycloheximideGSE911Identification of LEAFY targets during reproductive transitionLink to GEO
11.799.3GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
11.499.3GSM13783Dexamethasone plus cycloheximide - replicateGSE911Identification of LEAFY targets during reproductive transitionLink to GEO
10.999.2GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
10.199.2GSM13784Cycloheximide - replicateGSE911Identification of LEAFY targets during reproductive transitionLink to GEO
9.999.1E-MEXP-807-raw-cel-1173273170
8.899.0E-MEXP-1474-raw-cel-1593932513
8.699.0GSM205428met1-3_leaf_fourth-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
0.0552GO:0040029Any process that modulates the frequency, rate or extent of gene expression; the process is mitotically or meiotically heritable, or is stably self-propagated in the cytoplasm of a resting cell, and does not entail a change in DNA sequence.Link to AmiGO
0.0462GO:0051301The process resulting in the physical partitioning and separation of a cell into daughter cells.Link to AmiGO
0.0432GO:0009909Any process that modulates the frequency, rate or extent of flower development.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.022103020RNA polymeraseLink to KEGG PATHWAY
0.021103022Basal transcription factorsLink to KEGG PATHWAY
0.018103018RNA degradationLink 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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