Co-expression analysis

Gene ID At1g09630
Gene name ATRAB11C (ARABIDOPSIS RAB GTPASE 11C)
Module size 23 genes
NF 0.31
%ile 39.3



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
1.00100.01.00At1g09630837490ATRAB11C (ARABIDOPSIS RAB GTPASE 11C)Encodes a putative GTP-binding protein. Associates with organelles on a pathway from the Golgi to the plasma membrane in interphase. In dividing cells acts at the cell plate.O.I.H.G.S.X.
0.4457.20.92At5g10840830951endomembrane protein 70, putativeF:unknown;P:unknown;C:integral to membrane, Golgi apparatus, plasma membrane, plant-type cell wall;MPOFBO.I.H.G.S.X.
0.4457.20.93At2g47320819345peptidyl-prolyl cis-trans isomerase cyclophilin-type family proteinF:peptidyl-prolyl cis-trans isomerase activity;P:protein folding;C:unknown;BOMFPAO.I.H.G.S.X.
0.4355.30.92At4g14420827087lesion inducing protein-relatedF:unknown;P:unknown;C:endoplasmic reticulum;POBO.I.H.G.S.X.
0.4050.80.92At5g54750835565transport protein particle (TRAPP) component Bet3, putativeF:molecular_function unknown;P:ER to Golgi vesicle-mediated transport;C:cellular_component unknown;MFOPO.I.H.G.S.X.
0.3948.40.92At2g21160816651translocon-associated protein alpha (TRAP alpha) family proteinF:unknown;P:biological_process unknown;C:chloroplast thylakoid membrane, endoplasmic reticulum, plasma membrane, vacuole;MPFOO.I.H.G.S.X.
0.3846.70.92At4g24330828536unknown proteinF:molecular_function unknown;P:biological_process unknown;C:endoplasmic reticulum;MFOPBO.I.H.G.S.X.
0.3643.60.93At1g10630837606ATARFA1F (ARABIDOPSIS THALIANA ADP-RIBOSYLATION FACTOR A1F)A member of ARF GTPase family. A thaliana has 21 members of this family, known to be essential for vesicle coating and uncoating and functions in GTP-binding. Gene encoding ADP-ribosylation factor and similar to other ARFs and ARF-like proteins. The gene is shown to play a role in cell division, cell expansion and cellulose production using antisense construct.O.I.H.G.S.X.
0.3541.60.93At3g25040822095ER lumen protein retaining receptor, putative / HDEL receptor, putativeF:ER retention sequence binding, receptor activity;P:protein retention in ER lumen, protein transport;C:endomembrane system, integral to membrane;MOFPO.I.H.G.S.X.
0.3235.70.92At5g14030831251translocon-associated protein beta (TRAPB) family proteinF:molecular_function unknown;P:biological_process unknown;C:plasma membrane;MPOO.I.H.G.S.X.
0.2930.30.92At1g57620842138emp24/gp25L/p24 family proteinF:protein transmembrane transporter activity;P:intracellular protein transport, transport;C:endomembrane system, integral to membrane, membrane;MFOPO.I.H.G.S.X.
0.2830.30.92At1g20050838593HYD1 (HYDRA1)C-8 sterol isomeraseO.I.H.G.S.X.
0.2830.30.92At5g19690832089STT3A (STAUROSPORIN AND TEMPERATURE SENSITIVE 3-LIKE A)encodes an oligosaccharyl transferase involved response to high salt. Mutants are hypersensitive to high salt conditionsO.I.H.G.S.X.
0.2726.20.92At5g08160830712ATPK3Encodes a serine/threonine protein kinase.O.I.H.G.S.X.
0.2624.40.93At1g04750839419VAMP721 (VESICLE-ASSOCIATED MEMBRANE PROTEIN 721)vesicle-associated membrane protein 7B (At VAMP7B) mRNA,O.I.H.G.S.X.
0.2624.40.93At5g63400836459ADK1 (ADENYLATE KINASE 1)encodes a protein similar to adenylate kinase.O.I.H.G.S.X.
0.2420.70.92At5g55940835692emb2731 (embryo defective 2731)F:molecular_function unknown;P:embryonic development ending in seed dormancy;C:endoplasmic reticulum;MOPFO.I.H.G.S.X.
0.2319.30.92At4g29480829069mitochondrial ATP synthase g subunit family proteinF:hydrogen ion transmembrane transporter activity;P:proton transport, ATP synthesis coupled proton transport;C:mitochondrion;POO.I.H.G.S.X.
0.2319.30.92At1g61790842476OST3/OST6 family proteinF:oligosaccharide transmembrane transporter activity;P:biological_process unknown;C:endoplasmic reticulum, plasma membrane, chloroplast;MFPOO.I.H.G.S.X.
0.2217.50.93At5g58030835915transport protein particle (TRAPP) component Bet3 family proteinF:molecular_function unknown;P:ER to Golgi vesicle-mediated transport;C:cellular_component unknown;MFOPO.I.H.G.S.X.
0.2115.80.92At5g55610835655unknown proteinF:unknown;P:unknown;C:mitochondrion, chloroplast, plastid, membrane;PO.I.H.G.S.X.
0.2014.40.92At1g10590837601DNA-binding protein-relatedF:nucleic acid binding;P:biological_process unknown;C:plasma membrane;PAOO.I.H.G.S.X.
0.1912.70.92At2g47170819330ARF1A1CGene encoding ADP-ribosylation factor and similar to other ARFs and ARF-like proteins. Members of this family are known to be essential for vesicle coating and uncoating and functions in GTP-binding. The gene is shown to play a role in cell division, cell expansion and cellulose production using antisense construct.O.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
127.599.9GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
38.599.8GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
33.099.7GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link 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
30.799.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
30.699.7GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
30.199.7GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
30.099.7GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
29.799.7GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
28.799.7GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
26.899.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
26.399.7GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
26.299.7GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
25.399.6GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
25.399.6GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
25.299.6GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
25.199.6GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
25.199.6GSM10480lec1-1 Cotyledon Stage Seed 2GSE1051Seed development in LEAFY COTYLEDON1 mutantsLink to GEO
24.799.6GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
24.399.6GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
24.199.6GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
23.799.6GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
18.599.5GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
17.999.5GSM10479lec1-1 Cotyledon Stage Seed 1GSE1051Seed development in LEAFY COTYLEDON1 mutantsLink to GEO
16.599.5GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
16.199.5GSM147966lec1-1 Globular Stage Seed 2GSE1051Seed development in LEAFY COTYLEDON1 mutantsLink to GEO
15.099.4GSM184912Arabidopsis, root cells, columella root cap, 140 mM NaCl, replicate 3GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
14.799.4GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
14.799.4GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
13.799.4GSM10448WT Cotyledon Stage Seed 1GSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO
13.499.4GSM147965lec1-1 Globular Stage Seed 1GSE1051Seed development in LEAFY COTYLEDON1 mutantsLink to GEO
12.299.3GSM147963WT Globular Stage Seed 1GSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO
11.799.3GSM147964WT Globular Stage Seed 2GSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO
11.799.3GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
11.299.2GSM184917Arabidopsis, root cells, endodermis and quiescent center, 140 mM NaCl, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
10.899.2GSM142637MC002_ATH1_A5.3-dubos-5kxGSE6151The mechanisms involved in the interplay between dormancy and secondary growth in ArabidopsisLink to GEO
10.399.2E-MEXP-265-raw-cel-414617695
10.399.2GSM10449WT Cotyledon Stage Seed 2GSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO
10.299.2GSM184894Arabidopsis, root cells, columella root cap, standard conditions, replicate 3GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
9.999.1GSM142635MC002_ATH1_A5.1-dubos-5kxGSE6151The mechanisms involved in the interplay between dormancy and secondary growth in ArabidopsisLink to GEO
9.899.1GSM184516Pericycle root cells 2hr continuous KCl and MSX control treated, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
9.499.1GSM184893Arabidopsis, root cells, columella root cap, standard conditions, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
9.499.1GSM266673Arabidopsis, root cells, endodermis and quiescent center, -Fe, replicate 2GSE10501Expression analysis of root cell-types after iron deficiency (-Fe) treatmentLink to GEO
9.299.1GSM184497Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
9.099.1E-MEXP-265-raw-cel-414618491
9.099.1E-MEXP-265-raw-cel-414618796
8.899.0GSM131656ATGE_27_BGSE5633AtGenExpress: Developmental series (shoots and stems)Link to GEO
8.799.0GSM142656MC002_ATH1_A12.1-dubos-arhGSE6151The mechanisms involved in the interplay between dormancy and secondary growth in ArabidopsisLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0852GO:0006888The directed movement of substances from the endoplasmic reticulum (ER) to the Golgi, mediated by COP II vesicles. Small COP II coated vesicles form from the ER and then fuse directly with the cis-Golgi. Larger structures are transported along microtubules to the cis-Golgi.Link to AmiGO
0.0591GO:0010204A series of molecular signals that is activated during defense response and does not depend upon R-genes.Link to AmiGO
0.0471GO:0015992The directed movement of protons (hydrogen ions) into, out of, within or between cells.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.042103440Homologous recombinationLink to KEGG PATHWAY
0.041100100Steroid biosynthesisLink to KEGG PATHWAY
0.041103430Mismatch 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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