Co-expression analysis

Gene ID At1g56650
Gene name PAP1 (PRODUCTION OF ANTHOCYANIN PIGMENT 1)
Module size 7 genes
NF 0.95
%ile 99.6



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
1.00100.01.00At1g56650842120PAP1 (PRODUCTION OF ANTHOCYANIN PIGMENT 1)Encodes a putative MYB domain containing transcription factor involved in anthocyanin metabolism and radical scavenging. Essential for the sucrose-mediated expression of the dihydroflavonol reductase gene.O.I.H.G.S.X.
1.00100.00.77At1g034953766646transferase/ transferase, transferring acyl groups other than amino-acyl groupsF:transferase activity, transferring acyl groups other than amino-acyl groups, transferase activity;P:biological_process unknown;C:unknown;PFO.I.H.G.S.X.
1.00100.00.70At3g29590822623AT5MATAt3g29590 (At5MAT) encodes a malonyl-CoA:anthocyanidin 5-O-glucoside-6"-O-malonyltransferase that is coordinately expressed with a epistatic 5-O-anthocyanidin glucosyltransferase (At4g14090). The enzyme is involved in the malonylation of anthocyanins in Arabidopsis.O.I.H.G.S.X.
1.00100.00.74At4g14090827046UDP-glucoronosyl/UDP-glucosyl transferase family proteinThe At4g14090 encodes a anthocyanidin 5-O-glucosyltransferase specifically glucosylating the 5-position of the flavonoid A-ring.O.I.H.G.S.X.
0.9296.00.72At5g17220831586ATGSTF12 (ARABIDOPSIS THALIANA GLUTATHIONE S-TRANSFERASE PHI 12)Encodes glutathione transferase belonging to the phi class of GSTs. Naming convention according to Wagner et al. (2002). Mutants display no pigments on leaves and stems.O.I.H.G.S.X.
0.9195.60.79At5g54060835489UF3GT (udp-glucose:flavonoid 3-O-glucosyltransferase)F:transferase activity, transferring glycosyl groups;P:N-terminal protein myristoylation, response to sucrose stimulus;C:cellular_component unknown;PMBVFOO.I.H.G.S.X.
0.8391.40.65At4g22870828386leucoanthocyanidin dioxygenase, putative / anthocyanidin synthase, putativeF:oxidoreductase activity;P:unknown;C:cellular_component unknown;POBFMO.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
249.4100.0GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
177.3100.0GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
128.799.9GSM311296Laser capture microdissected (LCM) general seed coat at the linear-cotyledon stage, biological replicate 2GSE12403Expression data from Arabidopsis seed compartments at the linear-cotyledon stageLink to GEO
110.799.9GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
106.499.9GSM311295Laser capture microdissected (LCM) general seed coat at the linear-cotyledon stage, biological replicate 1GSE12403Expression data from Arabidopsis seed compartments at the linear-cotyledon stageLink to GEO
89.599.9GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
57.799.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
47.599.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
44.899.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
44.399.8GSM131689ATGE_77_EGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
43.999.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
43.599.8GSM131690ATGE_77_FGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
39.299.8GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
39.199.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
38.299.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
38.299.8GSM131688ATGE_77_DGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
38.299.8GSM131693ATGE_78_FGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
37.699.7GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
34.999.7GSM131692ATGE_78_EGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
34.899.7GSM10479lec1-1 Cotyledon Stage Seed 1GSE1051Seed development in LEAFY COTYLEDON1 mutantsLink to GEO
33.999.7GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
33.499.7GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
33.399.7GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
32.899.7GSM131691ATGE_78_DGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
32.799.7GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
31.299.7GSM10480lec1-1 Cotyledon Stage Seed 2GSE1051Seed development in LEAFY COTYLEDON1 mutantsLink to GEO
30.999.7GSM10448WT Cotyledon Stage Seed 1GSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO
30.999.7GSM133816Yang_1-1_young-pod_Rep1_ATH1GSE5736To identify changes in gene expression during silique senescence in Arabidopsis thalianaLink to GEO
30.999.7GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
29.999.7GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
26.999.7GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
26.699.7GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
25.999.7GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
25.199.6GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
24.099.6E-MEXP-1451-raw-cel-1585200298
21.899.6E-MEXP-1451-raw-cel-1585200330
21.299.6GSM10449WT Cotyledon Stage Seed 2GSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO
20.499.6GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
19.699.6GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
12.899.3GSM131695ATGE_79_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
12.299.3GSM176876AWP_AL_Txed_1GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO
11.899.3E-MEXP-285-raw-cel-440783152
11.299.2GSM131694ATGE_79_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
10.899.2E-MEXP-285-raw-cel-440783213
10.599.2GSM184497Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
10.199.2GSM131696ATGE_79_CGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
9.999.1GSM133766Lindsey_1-18_torpedo-root_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
8.799.0E-MEXP-1304-raw-cel-1530618308

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.2352GO:0009718The chemical reactions and pathways resulting in the formation of anthocyanins, any member of a group of intensely colored soluble glycosides of anthocyanidins.Link to AmiGO
0.2221GO:0009745A series of molecular signals mediated by the detection of sucrose.Link to AmiGO
0.1671GO:0046283The chemical reactions and pathways involving anthocyanins, any member of a group of intensely colored soluble glycosides of anthocyanidins that occur in plants. They are responsible from most of the scarlet, purple, mauve and blue coloring in higher plants, especially of flowers.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.250100942Anthocyanin biosynthesisLink to KEGG PATHWAY
0.087100941Flavonoid biosynthesisLink to KEGG PATHWAY
0.008101061Biosynthesis of phenylpropanoidsLink 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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