Co-expression analysis

Gene ID At5g39630
Gene name vesicle transport v-SNARE family protein
Module size 7 genes
NF 0.40
%ile 54.9



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
0.6378.11.00At5g39630833959vesicle transport v-SNARE family proteinF:SNARE binding, receptor activity;P:membrane fusion, intra-Golgi vesicle-mediated transport;C:membrane;OMFPBAVO.I.H.G.S.X.
0.5065.30.85At2g14830815971unknown proteinF:unknown;P:biological_process unknown;C:cellular_component unknown;MPOFBVO.I.H.G.S.X.
0.5065.30.84At3g58390825008eukaryotic release factor 1 family protein / eRF1 family proteinF:translation release factor activity;P:translational termination, translation;C:nucleus;OAMFPVO.I.H.G.S.X.
0.4050.80.87At1g51900841617unknown proteinF:molecular_function unknown;P:biological_process unknown;C:mitochondrion;OMBFPVAO.I.H.G.S.X.
0.3846.70.85At1g47885841205leucine-rich repeat family proteinF:protein binding;P:signal transduction;C:cellular_component unknown;POBO.I.H.G.S.X.
0.3846.70.84At2g28170817363ATCHX7member of Putative Na+/H+ antiporter familyO.I.H.G.S.X.
0.2522.60.85At4g31960829326unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.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
233.5100.0GSM311291Laser capture microdissected (LCM) chalazal endosperm at the linear-cotyledon stage, biological replicate 1GSE12403Expression data from Arabidopsis seed compartments at the linear-cotyledon stageLink to GEO
230.9100.0GSM133117RIKEN-YAMAUCHI1AGSE5687AtGenExpress: Different temperature treatment of seedsLink to GEO
118.299.9GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
98.499.9GSM311292Laser capture microdissected (LCM) chalazal endosperm at the linear-cotyledon stage, biological replicate 2GSE12403Expression data from Arabidopsis seed compartments at the linear-cotyledon stageLink to GEO
78.999.9GSM10456WT Post-Mature Green Seed 2GSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO
68.099.9GSM10454WT Post-Mature Green Seed 1GSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO
62.499.8GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
57.199.8GSM133304RIKEN-NAKABAYASHI1BGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO
40.599.8GSM133303RIKEN-NAKABAYASHI1AGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO
40.299.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
37.899.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
36.399.7GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
36.099.7GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
34.999.7GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
34.699.7GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
33.399.7GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
32.799.7GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
31.799.7GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
30.799.7GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
28.999.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
28.799.7GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
27.399.7GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
27.399.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
26.399.7GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
26.399.7GSM133118RIKEN-YAMAUCHI1BGSE5687AtGenExpress: Different temperature treatment of seedsLink to GEO
24.899.6GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
24.699.6GSM131698ATGE_81_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
23.499.6GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
23.099.6GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
22.299.6GSM131701ATGE_82_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
22.099.6GSM131697ATGE_81_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
21.399.6GSM131699ATGE_81_CGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
20.199.6GSM131700ATGE_82_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
19.599.6GSM131706ATGE_84_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
19.599.6GSM131695ATGE_79_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
19.499.6GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
18.799.5GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
17.799.5GSM270868Arabidopsis cell culture, 4 h_response to phytoprostane A1_rep2GSE10719Response of Arabidopsis cell culture to phytoprostane A1Link to GEO
16.999.5GSM131702ATGE_82_CGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
15.499.5GSM133766Lindsey_1-18_torpedo-root_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
14.499.4GSM270870Arabidopsis cell culture, 4 h_response to phytoprostane A1_rep3GSE10719Response of Arabidopsis cell culture to phytoprostane A1Link to GEO
14.099.4GSM131694ATGE_79_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
13.999.4E-ATMX-31-raw-cel-1516947916
13.999.4GSM131708ATGE_84_DGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
13.899.4GSM131707ATGE_84_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
13.299.4GSM131696ATGE_79_CGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
13.299.4GSM131705ATGE_83_CGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
12.899.3GSM131703ATGE_83_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
12.199.3GSM176879AWP_Control_1GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO
10.899.2GSM131704ATGE_83_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
10.399.2E-ATMX-31-raw-cel-1516947899
9.899.1GSM133768Lindsey_1-20_torpedo-basal_Rep5_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
9.499.1GSM10451WT Mature Green Seed 1GSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO
9.099.1E-ATMX-1-raw-cel-1112746209

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.1001GO:0006415The process resulting in the release of a polypeptide chain from the ribosome, usually in response to a termination codon (UAA, UAG, or UGA in the universal genetic code).Link to AmiGO
0.0831GO:0006891The directed movement of substances within the Golgi, mediated by small transport vesicles. These either fuse with the cis-Golgi or with each other to form the membrane stacks known as the cis-Golgi reticulum (network).Link to AmiGO
0.0531GO:0006944The joining of two lipid bilayers to form a single membrane.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.036104130SNARE interactions in vesicular transportLink to KEGG PATHWAY

Inter-species module comparison

A co-expression module including the maize gene, Zm.11463.1.S1_at, orthologous to the query gene, At5g39630

VF%ileGene IDRepr. IDGene NameFunc.EvAGI codeArabidopsis gene nameO.I.H.G.S.X.Other DB
0.7992.8Zm.11463.1.S1_at-hypothetical protein LOC100191695-6e-1At5g39510SGR4 (SHOOT GRAVITROPSIM 4)O.I.H.G.S.X.
0.98100.0Zm.16107.1.S1_at---4e+0At3g18330F-box family proteinO.I.H.G.S.X.
0.9699.8Zm.2743.2.S1_at-Hypothetical protein LOC100191169-3e+0At4g14713PPD1 (PEAPOD 1)O.I.H.G.S.X.
0.9699.8Zm.13845.1.A1_at-hypothetical protein LOC100274368-1e-1At4g32060calcium-binding EF hand family proteinO.I.H.G.S.X.
0.9699.8Zm.13554.1.S1_at-hypothetical protein LOC100274819-1e+0At2g15220secretory protein, putativeO.I.H.G.S.X.
0.9499.5Zm.1145.1.S1_at---4e-5At5g18070DRT101 (DNA-DAMAGE-REPAIR/TOLERATION 101)O.I.H.G.S.X.
0.9499.5ZmAffx.598.1.S1_at---7e-1At1g32570unknown proteinO.I.H.G.S.X.
0.9499.5Zm.8754.1.A1_at---1e+0At2g17787unknown proteinO.I.H.G.S.X.
0.9499.5Zm.13440.1.S1_at---3e+0At5g65390AGP7O.I.H.G.S.X.
0.9499.5Zm.6200.1.A1_at-Hypothetical protein LOC100191329-8e-10At5g43720unknown proteinO.I.H.G.S.X.
0.9499.5Zm.3945.1.A1_at---4e-1At2g17070unknown proteinO.I.H.G.S.X.
0.9399.3Zm.16062.1.S1_at---5e+0At1g73655FK506 binding / peptidyl-prolyl cis-trans isomeraseO.I.H.G.S.X.
0.9399.3Zm.10576.1.A1_at-plasma membrane associated protein-3e-1At1g29520AWPM-19-like membrane family proteinO.I.H.G.S.X.
0.9199.0Zm.15702.1.S1_at-hypothetical protein LOC100275817-4e-1At3g58850PAR2 (PHY RAPIDLY REGULATED 2)O.I.H.G.S.X.
0.9097.0Zm.2810.1.S1_a_at-calcitonin peptide-receptor component protein-7e-1At1g18170immunophilin / FKBP-type peptidyl-prolyl cis-trans isomerase family proteinO.I.H.G.S.X.
0.8896.7Zm.15502.1.S1_at---1e-2At3g23900RNA recognition motif (RRM)-containing proteinO.I.H.G.S.X.
0.8796.4Zm.2989.1.S1_at---2e+0At1g69880ATH8 (thioredoxin H-type 8)O.I.H.G.S.X.
0.8696.3Zm.14039.1.A1_at-plasminogen activator inhibitor 1 RNA-binding protein-4e-3At4g16830nuclear RNA-binding protein (RGGA)O.I.H.G.S.X.
0.8194.3Zm.13086.1.A1_at-hypothetical protein LOC100275967-4e+0At5g40960unknown proteinO.I.H.G.S.X.
0.8094.0Zm.2157.6.S1_s_at-hypothetical protein LOC100193202 /// hypothetical protein LOC100193584 /// hypothetical protein LOC100194153 /// hypothetical protein LOC100194217 /// hypothetical protein LOC100194236 /// hypothetical protein LOC100194345 /// glycine-rich RNA-binding protein 2-7e-7At4g39260GR-RBP8O.I.H.G.S.X.
0.8094.0Zm.30.4.S1_at---1e+0At3g52720ACA1 (ALPHA CARBONIC ANHYDRASE 1)O.I.H.G.S.X.
0.7992.8Zm.10048.1.S1_at---9e-3At4g19150ankyrin repeat family proteinO.I.H.G.S.X.
0.7792.1Zm.137.1.A1_at-alpha tubulin5-4e-179At5g19780TUA5O.I.H.G.S.X.
0.7590.8Zm.14077.2.A1_at---5e+0At1g06770DRIP1 (DREB2A-INTERACTING PROTEIN 1)O.I.H.G.S.X.
0.7389.9Zm.254.1.S1_at-maize Em binding protein-1a-8e-1At2g4051040S ribosomal protein S26 (RPS26A)O.I.H.G.S.X.
0.7288.6Zm.2570.1.S1_at---3e-1At2g40910F-box protein-relatedO.I.H.G.S.X.
0.7188.2Zm.1146.1.S1_at-D-3-phosphoglycerate dehydrogenase-7e+0At3g19480D-3-phosphoglycerate dehydrogenase, putative / 3-PGDH, putativeO.I.H.G.S.X.

Select a plant to compare co-expressed genes between species.
Glycine_max
Hordeum_vulgare
Oryza_sativa
Populus_trichocarpa
Triticum_aestivum
Vitis_vinifera



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