Co-expression analysis

Gene ID At1g03970
Gene name GBF4
Module size 13 genes
NF 0.74
%ile 91.4



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
0.5974.71.00At1g03970839356GBF4encodes a basic leucine zipper G-box binding factor that can bind to G-box motifs only as heterodimers with GBF2 or GBF3. A single amino acid change can confer G-box binding as homodimers.O.I.H.G.S.X.
0.9697.30.89At3g21810821735zinc finger (CCCH-type) family proteinF:zinc ion binding, nucleic acid binding;P:biological_process unknown;C:cellular_component unknown;MOPFBAVO.I.H.G.S.X.
0.8693.10.82At5g14960831348DEL2 (DP-E2F-LIKE 2)F:transcription factor activity, DNA binding;P:regulation of transcription, DNA-dependent;C:nucleus;MPOFO.I.H.G.S.X.
0.8391.40.86At5g04540830333phosphatase/ protein tyrosine phosphataseF:phosphatase activity, protein tyrosine phosphatase activity;P:dephosphorylation;C:unknown;MOFPO.I.H.G.S.X.
0.8290.90.89At1g06230837133GTE4 (GLOBAL TRANSCRIPTION FACTOR GROUP E 4)This gene is predicted to encode a bromodomain-containing protein. Plant lines expressing RNAi constructs targeted against GTE4 show some resistance to agrobacterium-mediated root transformation.O.I.H.G.S.X.
0.8089.80.78At1g71230843463CSN5B (COP9-SIGNALOSOME 5B)Encodes a subunit of the COP9 complex, similar to JAB1, a specific mammalian coactivator of AP-1 transcription. Involved in protein deneddylation. Double mutants with CSN5A are constitutively photomorphogenic (de-etiolated) and have abnormal auxin responses.O.I.H.G.S.X.
0.8089.80.81At2g24640817000UBP19 (UBIQUITIN-SPECIFIC PROTEASE 19)F:cysteine-type endopeptidase activity, ubiquitin thiolesterase activity;P:ubiquitin-dependent protein catabolic process;C:endomembrane system;MOFPBVAO.I.H.G.S.X.
0.7687.40.86At5g40710834071zinc finger (C2H2 type) family proteinF:zinc ion binding, nucleic acid binding;P:biological_process unknown;C:endomembrane system, intracellular;MPOBFO.I.H.G.S.X.
0.6781.60.84At2g26990817241FUS12 (FUSCA 12)Represses photomorphogenesis and induces skotomorphogenesis in the dark.O.I.H.G.S.X.
0.6781.60.80At2g28880817437emb1997 (embryo defective 1997)F:oxo-acid-lyase activity, catalytic activity, anthranilate synthase activity;P:embryonic development ending in seed dormancy;C:chloroplast;BOFMAPO.I.H.G.S.X.
0.6579.60.87At3g17250820986protein phosphatase 2C-related / PP2C-relatedF:protein serine/threonine phosphatase activity, catalytic activity;P:protein amino acid dephosphorylation;C:protein serine/threonine phosphatase complex;MPOFBVAO.I.H.G.S.X.
0.6579.60.85At3g49600824122UBP26 (UBIQUITIN-SPECIFIC PROTEASE 26)Encodes a ubiquitin-specific protease which catalyzes deubiquitination of histone H2B and is required for heterochromatin silencing.Loss of function mutations display autonomous endosperm development and embryo arrest. Loss of function also results in an increase in expression of the PcG complex target gene PHE1.O.I.H.G.S.X.
0.6478.90.86At2g40820818679-F:molecular_function unknown;P:biological_process unknown;C:plasma membrane;MPFOBVAO.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
119.799.9GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
39.299.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
37.699.7GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
34.299.7GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
34.099.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
33.399.7GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
32.999.7GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
32.499.7GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
30.199.7GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
29.199.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
28.599.7GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
27.999.7GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
27.899.7GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
27.399.7GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
27.299.7GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
26.899.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
26.299.7GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
25.899.7GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
24.999.6GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
23.999.6GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
22.299.6GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
19.199.6GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
16.799.5GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
15.299.4E-MEXP-509-raw-cel-829148561
14.999.4GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
13.699.4GSM152145siz1-3 drought 3GSE6583Genome-wide transcriptome analysis of Arabidopsis and siz1-3 response to drought stressLink to GEO
12.699.3GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
12.699.3GSM133758Lindsey_1-11_heart-stage-root_Rep2_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
12.199.3E-MEXP-509-raw-cel-829148525
11.099.2GSM152143siz1-3 drought 2GSE6583Genome-wide transcriptome analysis of Arabidopsis and siz1-3 response to drought stressLink to GEO
10.699.2GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
8.799.0E-MEXP-509-raw-cel-829148597
8.799.0GSM133759Lindsey_1-9_heart-stage-cotyledon_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.1181GO:0000085A cell cycle process comprising the steps by which a cell progresses through G2 phase, one of two 'gap' phases in the mitotic cell cycle; G2 is the interval between the completion of DNA synthesis and the beginning of mitosis.Link to AmiGO
0.1111GO:0000338The removal of a ubiquitin-like protein of the NEDD8 type from a protein.Link to AmiGO
0.1051GO:0010387The aggregation, arrangement and bonding together of a set of components to form a signalosome.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



Back to the CoP portal site

Back to the KAGIANA project homepage