CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At3g46750

Gene name unknown protein

Module size 6 genes

NF 0.60

%ile 81.5

Co-expression network

: Transcription factor, : Binding protein, : Enzyme protein, : Other protein
: VF over 0.50, : over 0.25, : 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
0.56 73.0 1.00 At3g46750 823828 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOFBPVA O.I. H.G. S.X.
0.89 94.6 0.92 At1g43630 840947 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PB O.I. H.G. S.X.
0.60 75.7 0.89 At2g10970 815562 invertase/pectin methylesterase inhibitor family protein F:enzyme inhibitor activity, pectinesterase inhibitor activity, pectinesterase activity;P:biological_process unknown;C:endomembrane system;P O.I. H.G. S.X.
0.60 75.7 0.91 At4g33390 829476 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOBFPAV O.I. H.G. S.X.
0.53 68.6 0.90 At3g22650 821836 CEG (CEGENDUO) F:molecular_function unknown;P:response to auxin stimulus, lateral root formation;C:cellular_component unknown;PO O.I. H.G. S.X.
0.50 65.3 0.90 At3g02440 821154 unknown protein F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;PMOFB O.I. H.G. S.X.

VF	%ile	CC	Gene ID	Repr. ID	Gene name	Func.	O.I.	H.G.	S.X.
0.56	73.0	1.00	At3g46750	823828	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOFBPVA	O.I.	H.G.	S.X.
0.89	94.6	0.92	At1g43630	840947	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PB	O.I.	H.G.	S.X.
0.60	75.7	0.89	At2g10970	815562	invertase/pectin methylesterase inhibitor family protein	F:enzyme inhibitor activity, pectinesterase inhibitor activity, pectinesterase activity;P:biological_process unknown;C:endomembrane system;P	O.I.	H.G.	S.X.
0.60	75.7	0.91	At4g33390	829476	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOBFPAV	O.I.	H.G.	S.X.
0.53	68.6	0.90	At3g22650	821836	CEG (CEGENDUO)	F:molecular_function unknown;P:response to auxin stimulus, lateral root formation;C:cellular_component unknown;PO	O.I.	H.G.	S.X.
0.50	65.3	0.90	At3g02440	821154	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;PMOFB	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
247.4 100.0 GSM311281 Laser capture microdissected (LCM) chalazal seed coat at the pre-globular stage, biological replicate 1 GSE12402 Expression data from Arabidopsis seed compartments at the pre-globular stage
187.5 100.0 GSM284396 Arabidopsis GPSc2 GSE11262 Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
162.7 99.9 GSM311282 Laser capture microdissected (LCM) chalazal seed coat at the pre-globular stage, biological replicate 2 GSE12402 Expression data from Arabidopsis seed compartments at the pre-globular stage
124.3 99.9 GSM284395 Arabidopsis GPSc1 GSE11262 Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
32.6 99.7 E-ATMX-35-raw-cel-1574334832
24.4 99.6 GSM311279 Laser capture microdissected (LCM) chalazal endosperm at the pre-globular stage, biological replicate 1 GSE12402 Expression data from Arabidopsis seed compartments at the pre-globular stage
17.1 99.5 GSM311293 Laser capture microdissected (LCM) chalazal seed coat at the linear-cotyledon stage, biological replicate 1 GSE12403 Expression data from Arabidopsis seed compartments at the linear-cotyledon stage
15.7 99.5 GSM131325 AtGen_6-3521_Saltstress-Roots-12.0h_Rep1 GSE5623 AtGenExpress: Stress Treatments (Salt stress)
15.6 99.5 E-MEXP-807-raw-cel-1173273144
15.2 99.4 E-ATMX-35-raw-cel-1574334816
14.8 99.4 E-MEXP-98-raw-cel-320188804
14.7 99.4 GSM131589 ATGE_35_B GSE5632 AtGenExpress: Developmental series (flowers and pollen)
14.4 99.4 E-MEXP-807-raw-cel-1173273060
14.2 99.4 GSM131321 AtGen_6-3421_Saltstress-Roots-6.0h_Rep1 GSE5623 AtGenExpress: Stress Treatments (Salt stress)
13.9 99.4 GSM311286 Laser capture microdissected (LCM) whole seed sections at the pre-globular stage, biological replicate 2 GSE12402 Expression data from Arabidopsis seed compartments at the pre-globular stage
13.4 99.4 E-MEXP-807-raw-cel-1173273252
13.0 99.4 GSM131588 ATGE_35_A GSE5632 AtGenExpress: Developmental series (flowers and pollen)
12.8 99.3 E-MEXP-98-raw-cel-320189024
12.7 99.3 GSM311285 Laser capture microdissected (LCM) whole seed sections at the pre-globular stage, biological replicate 1 GSE12402 Expression data from Arabidopsis seed compartments at the pre-globular stage
12.7 99.3 E-MEXP-807-raw-cel-1173273223
12.5 99.3 E-MEXP-807-raw-cel-1173273088
12.1 99.3 GSM38668 NSNP GSE2268 Arabidopsis polysome microarray
12.0 99.3 GSM131322 AtGen_6-3422_Saltstress-Roots-6.0h_Rep2 GSE5623 AtGenExpress: Stress Treatments (Salt stress)
11.5 99.3 E-MEXP-807-raw-cel-1173273116
11.3 99.3 GSM131590 ATGE_35_C GSE5632 AtGenExpress: Developmental series (flowers and pollen)
11.1 99.2 GSM13783 Dexamethasone plus cycloheximide - replicate GSE911 Identification of LEAFY targets during reproductive transition
10.9 99.2 GSM131318 AtGen_6-3322_Saltstress-Roots-3.0h_Rep2 GSE5623 AtGenExpress: Stress Treatments (Salt stress)
10.7 99.2 GSM184914 Arabidopsis, root cells, cortex, 140 mM NaCl, replicate 2 GSE7641 Expression analysis of root cell-types after treatment with salt
10.7 99.2 GSM10442 WT Ovule 2 GSE680 Transcript Profiling of Arabidopsis Plant Life Cycle
10.4 99.2 GSM13779 Dexamethasone plus cycloheximide GSE911 Identification of LEAFY targets during reproductive transition
10.4 99.2 GSM13784 Cycloheximide - replicate GSE911 Identification of LEAFY targets during reproductive transition
10.2 99.2 GSM13780 Cycloheximide GSE911 Identification of LEAFY targets during reproductive transition
10.0 99.2 GSM10441 WT Ovule 1 GSE680 Transcript Profiling of Arabidopsis Plant Life Cycle
9.9 99.1 GSM67086 Arabidopsis_Stigma02 GSE3056 Arabidopsis Pollination Study
9.7 99.1 GSM10445 WT 24-Hr Seed 1 GSE680 Transcript Profiling of Arabidopsis Plant Life Cycle
9.7 99.1 GSM10446 WT 24-Hr Seed 2 GSE680 Transcript Profiling of Arabidopsis Plant Life Cycle
9.6 99.1 GSM184519 Pericycle root cells 2hr continuous KNO3 and MSX treated, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
9.5 99.1 GSM131330 AtGen_6-3622_Saltstress-Roots-24.0h_Rep2 GSE5623 AtGenExpress: Stress Treatments (Salt stress)
9.3 99.1 GSM131329 AtGen_6-3621_Saltstress-Roots-24.0h_Rep1 GSE5623 AtGenExpress: Stress Treatments (Salt stress)
9.2 99.1 GSM62702 arf6 arf8 flowers_stage 1-10 GSE2848 Auxin Response Factor mediated flower gene expression
9.2 99.1 GSM184913 Arabidopsis, root cells, cortex, 140 mM NaCl, replicate 1 GSE7641 Expression analysis of root cell-types after treatment with salt
9.0 99.1 E-MEXP-807-raw-cel-1173273196
8.9 99.0 GSM311280 Laser capture microdissected (LCM) chalazal endosperm at the pre-globular stage, biological replicate 2 GSE12402 Expression data from Arabidopsis seed compartments at the pre-globular stage

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
247.4	100.0	GSM311281	Laser capture microdissected (LCM) chalazal seed coat at the pre-globular stage, biological replicate 1	GSE12402	Expression data from Arabidopsis seed compartments at the pre-globular stage
187.5	100.0	GSM284396	Arabidopsis GPSc2	GSE11262	Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
162.7	99.9	GSM311282	Laser capture microdissected (LCM) chalazal seed coat at the pre-globular stage, biological replicate 2	GSE12402	Expression data from Arabidopsis seed compartments at the pre-globular stage
124.3	99.9	GSM284395	Arabidopsis GPSc1	GSE11262	Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
32.6	99.7	E-ATMX-35-raw-cel-1574334832
24.4	99.6	GSM311279	Laser capture microdissected (LCM) chalazal endosperm at the pre-globular stage, biological replicate 1	GSE12402	Expression data from Arabidopsis seed compartments at the pre-globular stage
17.1	99.5	GSM311293	Laser capture microdissected (LCM) chalazal seed coat at the linear-cotyledon stage, biological replicate 1	GSE12403	Expression data from Arabidopsis seed compartments at the linear-cotyledon stage
15.7	99.5	GSM131325	AtGen_6-3521_Saltstress-Roots-12.0h_Rep1	GSE5623	AtGenExpress: Stress Treatments (Salt stress)
15.6	99.5	E-MEXP-807-raw-cel-1173273144
15.2	99.4	E-ATMX-35-raw-cel-1574334816
14.8	99.4	E-MEXP-98-raw-cel-320188804
14.7	99.4	GSM131589	ATGE_35_B	GSE5632	AtGenExpress: Developmental series (flowers and pollen)
14.4	99.4	E-MEXP-807-raw-cel-1173273060
14.2	99.4	GSM131321	AtGen_6-3421_Saltstress-Roots-6.0h_Rep1	GSE5623	AtGenExpress: Stress Treatments (Salt stress)
13.9	99.4	GSM311286	Laser capture microdissected (LCM) whole seed sections at the pre-globular stage, biological replicate 2	GSE12402	Expression data from Arabidopsis seed compartments at the pre-globular stage
13.4	99.4	E-MEXP-807-raw-cel-1173273252
13.0	99.4	GSM131588	ATGE_35_A	GSE5632	AtGenExpress: Developmental series (flowers and pollen)
12.8	99.3	E-MEXP-98-raw-cel-320189024
12.7	99.3	GSM311285	Laser capture microdissected (LCM) whole seed sections at the pre-globular stage, biological replicate 1	GSE12402	Expression data from Arabidopsis seed compartments at the pre-globular stage
12.7	99.3	E-MEXP-807-raw-cel-1173273223
12.5	99.3	E-MEXP-807-raw-cel-1173273088
12.1	99.3	GSM38668	NSNP	GSE2268	Arabidopsis polysome microarray
12.0	99.3	GSM131322	AtGen_6-3422_Saltstress-Roots-6.0h_Rep2	GSE5623	AtGenExpress: Stress Treatments (Salt stress)
11.5	99.3	E-MEXP-807-raw-cel-1173273116
11.3	99.3	GSM131590	ATGE_35_C	GSE5632	AtGenExpress: Developmental series (flowers and pollen)
11.1	99.2	GSM13783	Dexamethasone plus cycloheximide - replicate	GSE911	Identification of LEAFY targets during reproductive transition
10.9	99.2	GSM131318	AtGen_6-3322_Saltstress-Roots-3.0h_Rep2	GSE5623	AtGenExpress: Stress Treatments (Salt stress)
10.7	99.2	GSM184914	Arabidopsis, root cells, cortex, 140 mM NaCl, replicate 2	GSE7641	Expression analysis of root cell-types after treatment with salt
10.7	99.2	GSM10442	WT Ovule 2	GSE680	Transcript Profiling of Arabidopsis Plant Life Cycle
10.4	99.2	GSM13779	Dexamethasone plus cycloheximide	GSE911	Identification of LEAFY targets during reproductive transition
10.4	99.2	GSM13784	Cycloheximide - replicate	GSE911	Identification of LEAFY targets during reproductive transition
10.2	99.2	GSM13780	Cycloheximide	GSE911	Identification of LEAFY targets during reproductive transition
10.0	99.2	GSM10441	WT Ovule 1	GSE680	Transcript Profiling of Arabidopsis Plant Life Cycle
9.9	99.1	GSM67086	Arabidopsis_Stigma02	GSE3056	Arabidopsis Pollination Study
9.7	99.1	GSM10445	WT 24-Hr Seed 1	GSE680	Transcript Profiling of Arabidopsis Plant Life Cycle
9.7	99.1	GSM10446	WT 24-Hr Seed 2	GSE680	Transcript Profiling of Arabidopsis Plant Life Cycle
9.6	99.1	GSM184519	Pericycle root cells 2hr continuous KNO3 and MSX treated, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
9.5	99.1	GSM131330	AtGen_6-3622_Saltstress-Roots-24.0h_Rep2	GSE5623	AtGenExpress: Stress Treatments (Salt stress)
9.3	99.1	GSM131329	AtGen_6-3621_Saltstress-Roots-24.0h_Rep1	GSE5623	AtGenExpress: Stress Treatments (Salt stress)
9.2	99.1	GSM62702	arf6 arf8 flowers_stage 1-10	GSE2848	Auxin Response Factor mediated flower gene expression
9.2	99.1	GSM184913	Arabidopsis, root cells, cortex, 140 mM NaCl, replicate 1	GSE7641	Expression analysis of root cell-types after treatment with salt
9.0	99.1	E-MEXP-807-raw-cel-1173273196
8.9	99.0	GSM311280	Laser capture microdissected (LCM) chalazal endosperm at the pre-globular stage, biological replicate 2	GSE12402	Expression data from Arabidopsis seed compartments at the pre-globular stage

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO
0.118 1 GO:0010311 The process that gives rise to a lateral root. This process pertains to the initial formation of a structure from unspecified parts.

SF	Genes	GO ID	Process Name	Link to AmiGO
0.118	1	GO:0010311	The process that gives rise to a lateral root. This process pertains to the initial formation of a structure from unspecified parts.

KEGG PATHWAY inferred to related to the module

SF Genes KEGG ID Pathway name Link 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

Gene ID	At3g46750
Gene name	unknown protein
Module size	6 genes
NF	0.60
%ile	81.5

Co-expression analysis

Gene ID At3g46750 Gene name unknown protein Module size 6 genes NF 0.60 %ile 81.5

Co-expression network

: Transcription factor, : Binding protein, : Enzyme protein, : Other protein: VF over 0.50, : over 0.25, : below 0.25

Co-expressed genes

Click More genes

Link to AtGenExpress Visualization Tool

Specific experiments for the module

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO0.1181GO:0010311The process that gives rise to a lateral root. This process pertains to the initial formation of a structure from unspecified parts.

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_maxHordeum_vulgareOryza_sativaPopulus_trichocarpaTriticum_aestivumVitis_viniferaZea_mays

Gene ID At3g46750

Gene name unknown protein

Module size 6 genes

NF 0.60

%ile 81.5

: Transcription factor, : Binding protein, : Enzyme protein, : Other protein
: VF over 0.50, : over 0.25, : below 0.25

SF Genes GO ID Process Name Link to AmiGO
0.118 1 GO:0010311 The process that gives rise to a lateral root. This process pertains to the initial formation of a structure from unspecified parts.

SF Genes KEGG ID Pathway name Link to KEGG

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