Co-expression analysis

Gene ID At1g17790
Gene name DNA-binding bromodomain-containing protein
Module size 70 genes
NF 0.25
%ile 27.4



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
1.00100.01.00At1g17790838357DNA-binding bromodomain-containing proteinF:DNA binding;P:biological_process unknown;C:chloroplast;MOFBPVAO.I.H.G.S.X.
0.3948.40.89At4g14920827150DNA binding / protein binding / zinc ion bindingF:protein binding, DNA binding, zinc ion binding;P:regulation of transcription, DNA-dependent;C:nucleus;MPFOO.I.H.G.S.X.
0.3643.60.90At2g22310816763ATUBP4 (ARABIDOPSIS THALIANA UBIQUITIN-SPECIFIC PROTEASE 4)Encodes a ubiquitin-specific protease.O.I.H.G.S.X.
0.3643.60.89At3g17450821009hAT dimerisation domain-containing proteinF:protein dimerization activity, DNA binding;P:biological_process unknown;C:cellular_component unknown;POMVFBO.I.H.G.S.X.
0.3541.60.89At1g21700838774ATSWI3C (SWITCH/SUCROSE NONFERMENTING 3C)a member of the Arabidopsis SWI3 gene family. Protein physically interacts with ATSWI3B and ATSWI3A, the other two members of the SWI3 family. Homologous to yeast SWI3 & RSC8, components of the SWI/SNF and RSC chromatin remodeling complexes. Referred to as CHB3 in Zhou et al (2003).O.I.H.G.S.X.
0.3541.60.89At5g03415831847DPBEncodes a homolog of the animal DP protein. DP, in animals, forms a heterodimer with E2F and plays a central role in G1/S transition in the cell division cycle. DPB has been shown to interact with non phosphorylated E2Fc; when E2Fc is phosphorylated, the formation of the E2Fc/DPB heterodimer is lost.O.I.H.G.S.X.
0.3439.80.90At1g17760838354CSTF77Encodes a homolog of the mammalian protein CstF77, a polyadenylation factor subunit.O.I.H.G.S.X.
0.3439.80.90At4g31200829247SWAP (Suppressor-of-White-APricot)/surp domain-containing proteinF:RNA binding;P:RNA processing;C:cellular_component unknown;MPFOBVAO.I.H.G.S.X.
0.3338.10.89At2g38660818448tetrahydrofolate dehydrogenase/cyclohydrolase, putativeF:binding, catalytic activity;P:folic acid and derivative biosynthetic process, metabolic process;C:unknown;OBMFPAO.I.H.G.S.X.
0.3338.10.91At1g22860838891unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFOPBO.I.H.G.S.X.
0.3338.10.89At1g55830842033unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOFBPAVO.I.H.G.S.X.
0.3338.10.89At2g14850815974unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POFMO.I.H.G.S.X.
0.3235.70.89At1g19480838533HhH-GPD base excision DNA repair family proteinF:catalytic activity;P:DNA repair, base-excision repair;C:chloroplast;OBFPAO.I.H.G.S.X.
0.3235.70.89At1g32150840107bZIP transcription factor family proteinF:transcription factor activity;P:transcription, DNA-dependent, regulation of transcription, DNA-dependent, regulation of transcription;C:nucleus, chloroplast;MOPFBVAO.I.H.G.S.X.
0.3235.70.89At3g11290820300unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PFO.I.H.G.S.X.
0.3133.80.90At3g03880821095unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;PO.I.H.G.S.X.
0.3133.80.89At5g41580834160zinc ion bindingF:zinc ion binding;P:unknown;C:unknown;MOFPBVAO.I.H.G.S.X.
0.3032.10.90At4g32560829391paramyosin-relatedF:molecular_function unknown;P:biological_process unknown;C:unknown;MOBFAPVO.I.H.G.S.X.
0.3032.10.89At3g61800825353-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOPBFAVO.I.H.G.S.X.
0.3032.10.90At4g26640828771WRKY20member of WRKY Transcription Factor; Group IO.I.H.G.S.X.
0.3032.10.90At4g24390828541F-box family protein (FBX14)F:ubiquitin-protein ligase activity;P:ubiquitin-dependent protein catabolic process;C:unknown;PMOFO.I.H.G.S.X.
0.2930.30.89At1g73450843680protein kinase, putativeF:protein serine/threonine kinase activity, protein tyrosine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:cytosol, plasma membrane;MOPFBVAO.I.H.G.S.X.
0.2930.30.90At3g52030824366F-box family protein / WD-40 repeat family proteinF:molecular_function unknown;P:unknown;C:CUL4 RING ubiquitin ligase complex;MFOPBO.I.H.G.S.X.
0.2830.30.89At1g33400840233tetratricopeptide repeat (TPR)-containing proteinF:binding;P:biological_process unknown;C:cellular_component unknown;MOPBFAO.I.H.G.S.X.
0.2830.30.89At2g27340817277-F:molecular_function unknown;P:biological_process unknown;C:unknown;FMOBPO.I.H.G.S.X.
0.2830.30.89At3g62620825436sucrose-phosphatase-relatedF:unknown;P:biological_process unknown;C:unknown;OMFBPVO.I.H.G.S.X.
0.2726.20.89At4g35870829741-F:molecular_function unknown;P:protein targeting to vacuole;C:membrane;MPFOO.I.H.G.S.X.
0.2726.20.89At5g47710834822C2 domain-containing proteinF:molecular_function unknown;P:biological_process unknown;C:plasma membrane, vacuole;MPFOO.I.H.G.S.X.
0.2726.20.89At2g18850816400-F:molecular_function unknown;P:biological_process unknown;C:unknown;MPFOO.I.H.G.S.X.
0.2726.20.89At5g63200836441tetratricopeptide repeat (TPR)-containing proteinF:binding;P:biological_process unknown;C:cellular_component unknown;OBMAFPO.I.H.G.S.X.
0.2624.40.90At1g05090839327dentin sialophosphoprotein-relatedF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;BMOFPAVO.I.H.G.S.X.
0.2624.40.89At5g55390835632EDM2Encodes EDM2 (enhanced downy mildew 2). The predicted protein bears typical features of transcriptional regulators. EDM2 contains two putative bipartite nuclear localization signals (NLS) two zinc-finger-like motifs, a Proline-rich region and a large aspartic acid-rich region. Both zinc-finger-like stretches resemble the PHD (plant homeodomain) finger motif. Mutations in EDM2 comprise RPP7 mediated resistance against Hyaloperonospora parasitica isolate Hiks1 (HpHiks1). EDM2 may function as a direct or indirect regulator of RPP7 expression.O.I.H.G.S.X.
0.2624.40.89At5g09740830834HAM2 (histone acetyltransferase of the MYST family 2)Encodes an enzyme with histone acetyltransferase activity. HAM2 primarily acetylate histone H4, but also display some ability to acetylate H3. Prior acetylation of lysine 5 on histone H4 reduces radioactive acetylation by either HAM2.O.I.H.G.S.X.
0.2624.40.89At3g15120820743AAA-type ATPase family proteinF:nucleoside-triphosphatase activity, ATPase activity, nucleotide binding, ATP binding;P:unknown;C:unknown;MOBFPAVO.I.H.G.S.X.
0.2522.60.89At1g54370841878NHX5F:sodium:hydrogen antiporter activity, sodium ion transmembrane transporter activity;P:lithium ion transport, sodium ion transport;C:integral to membrane;BMOPFAO.I.H.G.S.X.
0.2522.60.89At1g74800843819galactosyltransferase family proteinF:transferase activity, transferring hexosyl groups, transferase activity, transferring glycosyl groups;P:protein amino acid glycosylation;C:membrane;MPOFBO.I.H.G.S.X.
0.2420.70.89At2g36240818196-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POMFBAVO.I.H.G.S.X.
0.2420.70.89At5g13260831167unknown proteinF:unknown;P:biological_process unknown;C:unknown;MFOPBAVO.I.H.G.S.X.
0.2420.70.89At1g53050841739protein kinase family proteinF:protein serine/threonine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation, N-terminal protein myristoylation;C:plasma membrane;MPOFBVAO.I.H.G.S.X.
0.2420.70.89At1g04950839370TAF6 (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.
0.2420.70.89At3g56830824850unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POBO.I.H.G.S.X.
0.2420.70.90At4g39240830080kelch repeat-containing F-box family proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPBOAVFO.I.H.G.S.X.
0.2420.70.89At2g30800817631HVT1 (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.
0.2319.30.89At3g63270825502unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPFOO.I.H.G.S.X.
0.2319.30.89At1g11020837644zinc finger (C3HC4-type RING finger) family proteinF:protein binding, zinc ion binding;P:unknown;C:unknown;MOPFVO.I.H.G.S.X.
0.2217.50.89At3g12010820375-F:molecular_function unknown;P:biological_process unknown;C:unknown;MOPO.I.H.G.S.X.
0.2217.50.89At4g24530828555unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.2217.50.89At4g34430829594CHB3Member of a small family of SWI3-like genes in Arabidopsis. Referred to as CHB4 in Zhou et al. (2002).O.I.H.G.S.X.
0.2217.50.89At1g29550839832eukaryotic translation initiation factor 4E, putative / eIF-4E, putative / eIF4E, putative / mRNA cap-binding protein, putativeF:RNA binding, translation initiation factor activity;P:translational initiation;C:cytoplasm;MOPFO.I.H.G.S.X.
0.2217.50.89At5g46190834661KH domain-containing proteinF:RNA binding, nucleic acid binding;P:biological_process unknown;C:unknown;MPFOBO.I.H.G.S.X.
0.2217.50.89At3g11960820369cleavage 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.
0.2217.50.90At2g36960818270TKI1 (TSL-kinase interacting protein 1)Arabidopsis thaliana myb/SANT domain proteinO.I.H.G.S.X.
0.2115.80.89At3g17880821056ATTDX (TETRATICOPEPTIDE DOMAIN-CONTAINING THIOREDOXIN)Encodes a thioredoxin-like disulfide reductase. The protein interacts with the yeast Hsp70 protein Ssb2 in vitro. This interaction is sensitive to the redox status of the thioredoxin domain of AtTDX.O.I.H.G.S.X.
0.2115.80.89At5g21040832228FBX2 (F-BOX PROTEIN 2)Encodes an F-box containing protein that interacts physically with BHLH32 and appears to be involved in mediating phosphate starvation responses.O.I.H.G.S.X.
0.2115.80.90At1g08750837397GPI-anchor transamidase, putativeF:GPI-anchor transamidase activity, cysteine-type endopeptidase activity;P:proteolysis;C:endomembrane system;MPOFABO.I.H.G.S.X.
0.2014.40.89At1g21710838775OGG1 (8-OXOGUANINE-DNA GLYCOSYLASE 1)Encodes 8-oxoguanine-DNA glycosylase. DNA repair enzyme.O.I.H.G.S.X.
0.2014.40.89At4g39370830092UBP27 (UBIQUITIN-SPECIFIC PROTEASE 27)Encodes a ubiquitin-specific protease.O.I.H.G.S.X.
0.1912.70.89At4g11860826793-F:molecular_function unknown;P:biological_process unknown;C:cytosol, nucleus, plasma membrane;MFOPBO.I.H.G.S.X.
0.1912.70.90At5g42350834241kelch repeat-containing F-box family proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMBO.I.H.G.S.X.
0.1912.70.89At2g05230815071DNAJ heat shock N-terminal domain-containing proteinF:heat shock protein binding;P:protein folding;C:cellular_component unknown;BOMPFAVO.I.H.G.S.X.
0.1811.40.90At4g15415827211ATB' GAMMAB' regulatory subunit of PP2A (AtB'gamma)O.I.H.G.S.X.
0.1811.40.89At1g73720843707transducin family protein / WD-40 repeat family proteinF:nucleotide binding;P:biological_process unknown;C:CUL4 RING ubiquitin ligase complex;MFOBPAVO.I.H.G.S.X.
0.1811.40.89At3g22990821873LFR (LEAF AND FLOWER RELATED)Armadillo-repeat containing protein. Involved in leaf and flower development. Located in nucleus. Broadly expressed throughout vegetative and floral tissues.O.I.H.G.S.X.
0.1710.20.89At1g47550841164unknown proteinF:unknown;P:biological_process unknown;C:plasma membrane, exocyst;MFPOBAO.I.H.G.S.X.
0.1710.20.90At1g54610841903protein kinase family proteinF:protein serine/threonine kinase activity, protein tyrosine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation, N-terminal protein myristoylation;C:plasma membrane;MPOFBVAO.I.H.G.S.X.
0.1710.20.89At3g21175821670ZML1 (ZIM-LIKE 1)member of a novel family of plant-specific GATA-type transcription factors.O.I.H.G.S.X.
0.1710.20.89At4g33650829506DRP3A (DYNAMIN-RELATED PROTEIN 3A)Encodes a protein with high sequence similarity to the dynamin superfamily. Among those members ADL2 was most closely related to Dnm1p of yeast and likely a member of the Vps1p subfamily. Widely expressed in various tissues with highest expression in flower tissues. Localizes to the chloroplast, mitochondrion and peroxisome. Involved in peroxisome and mitochondria fission in combination with DRP3B.O.I.H.G.S.X.
0.1710.20.89At1g25420839128unknown proteinF:unknown;P:biological_process unknown;C:unknown;PMFOO.I.H.G.S.X.
0.157.80.89At5g64610836582HAM1 (HISTONE ACETYLTRANSFERASE OF THE MYST FAMILY 1)Encodes an enzyme with histone acetyltransferase activity. HAM1 primarily acetylate histone H4, but also display some ability to acetylate H3. Prior acetylation of lysine 5 on histone H4 reduces radioactive acetylation by either HAM1. HAM1 acetylates histone H4 lysine 5.O.I.H.G.S.X.
0.103.40.89At4g05000825842VPS28-2F:transporter activity;P:transport;C:ESCRT I complex;MFPOO.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
43.499.8GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
34.499.7GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
32.999.7GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
32.899.7GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
32.699.7GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
31.799.7GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
31.499.7GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
31.399.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
31.299.7GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
31.199.7GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
30.799.7GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
29.899.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
29.499.7GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
29.299.7GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
29.199.7GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
28.899.7GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
28.299.7GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
27.499.7GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
25.899.7GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
25.799.7GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link 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
25.199.6GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
23.499.6GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
22.299.6GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
19.799.6GSM311276Laser 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
19.599.6GSM184905Arabidopsis, root cells, protophloem, standard conditions, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
18.199.5GSM184906Arabidopsis, root cells, protophloem, standard conditions, replicate 3GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
18.199.5GSM311275Laser capture microdissected (LCM) micropylar endosperm at the pre-globular stage, biological replicate 1GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
17.699.5GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
15.399.4GSM284389Arabidopsis GMPE2GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
14.699.4GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
14.699.4E-ATMX-35-raw-cel-1574334816
14.199.4GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
13.999.4GSM184904Arabidopsis, root cells, protophloem, standard conditions, replicate 1GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
11.999.3GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
11.699.3E-ATMX-35-raw-cel-1574334832
11.599.3GSM284388Arabidopsis GMPE1GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
10.699.2GSM13779Dexamethasone plus cycloheximideGSE911Identification of LEAFY targets during reproductive transitionLink to GEO
10.099.2GSM142736DH001_ATH1_A3-TCP1GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
9.899.1GSM13780CycloheximideGSE911Identification of LEAFY targets during reproductive transitionLink to GEO
9.699.1GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
9.599.1GSM184923Arabidopsis, root cells, protophloem, 140 mM NaCl, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
8.699.0GSM142737DH001_ATH1_A4-UNM2GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
8.699.0GSM142734DH001_ATH1_A1-UNM1GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0472GO:0006333The formation or destruction of chromatin structures.Link to AmiGO
0.0432GO:0006284In base excision repair, an altered base is removed by a DNA glycosylase enzyme, followed by excision of the resulting sugar phosphate. The small gap left in the DNA helix is filled in by the sequential action of DNA polymerase and DNA ligase.Link to AmiGO
0.0271GO:0000082Progression from G1 phase to S phase of the mitotic cell cycle.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.037203410Base excision repairLink to KEGG PATHWAY
0.019103022Basal transcription factorsLink to KEGG PATHWAY
0.015104144EndocytosisLink 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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