CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At5g57740

Gene name XBAT32

Module size 5 genes

NF 0.17

%ile 13.6

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
0.11 4.1 1.00 At5g57740 835882 XBAT32 ubiquitin ligase O.I. H.G. S.X.
0.67 81.6 0.80 At4g26470 828753 calcium ion binding F:calcium ion binding;P:N-terminal protein myristoylation;C:cellular_component unknown;MPOFB O.I. H.G. S.X.
0.50 65.3 0.78 At2g46140 819221 late embryogenesis abundant protein, putative / LEA protein, putative F:molecular_function unknown;P:embryonic development ending in seed dormancy, response to desiccation;C:plasma membrane;PBO O.I. H.G. S.X.
0.22 17.5 0.78 At1g65840 842894 ATPAO4 (ARABIDOPSIS THALIANA POLYAMINE OXIDASE 4) encodes a peroxisomal polyamine oxidase, involved in the back-conversion polyamine degradation pathway. Among the five polyamine oxidases in the Arabidopsis genome, PAO4 is the major isoform in root peroxisomes. O.I. H.G. S.X.
0.10 3.4 0.78 At2g42490 818849 copper amine oxidase, putative F:quinone binding, amine oxidase activity, copper ion binding;P:cellular amine metabolic process;C:unknown;FBMOPA O.I. H.G. S.X.

VF	%ile	CC	Gene ID	Repr. ID	Gene name	Func.	O.I.	H.G.	S.X.
0.11	4.1	1.00	At5g57740	835882	XBAT32	ubiquitin ligase	O.I.	H.G.	S.X.
0.67	81.6	0.80	At4g26470	828753	calcium ion binding	F:calcium ion binding;P:N-terminal protein myristoylation;C:cellular_component unknown;MPOFB	O.I.	H.G.	S.X.
0.50	65.3	0.78	At2g46140	819221	late embryogenesis abundant protein, putative / LEA protein, putative	F:molecular_function unknown;P:embryonic development ending in seed dormancy, response to desiccation;C:plasma membrane;PBO	O.I.	H.G.	S.X.
0.22	17.5	0.78	At1g65840	842894	ATPAO4 (ARABIDOPSIS THALIANA POLYAMINE OXIDASE 4)	encodes a peroxisomal polyamine oxidase, involved in the back-conversion polyamine degradation pathway. Among the five polyamine oxidases in the Arabidopsis genome, PAO4 is the major isoform in root peroxisomes.	O.I.	H.G.	S.X.
0.10	3.4	0.78	At2g42490	818849	copper amine oxidase, putative	F:quinone binding, amine oxidase activity, copper ion binding;P:cellular amine metabolic process;C:unknown;FBMOPA	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
91.0 99.9 GSM143308 Tsu_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
79.6 99.9 GSM143309 Tsu_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
77.5 99.9 GSM143299 High_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
66.5 99.8 GSM143310 Tsu_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
64.5 99.8 GSM143298 Low_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
58.6 99.8 GSM253646 Low_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
58.2 99.8 GSM143306 High_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
57.5 99.8 GSM253648 Col-0-1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
55.7 99.8 GSM253645 High_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
55.2 99.8 GSM143307 Low_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
49.6 99.8 GSM143301 Ts_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
49.1 99.8 GSM143302 Ts_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
49.1 99.8 GSM253649 Col-0-2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
47.5 99.8 GSM143300 Ts_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
45.8 99.8 GSM184551 Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
45.3 99.8 GSM253647 Col-0 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
44.4 99.8 GSM253650 Ler 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
43.6 99.8 GSM205435 Col_ leaf_ wildtype_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
42.7 99.8 GSM253651 Ler 1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
37.6 99.7 GSM253652 Ler 2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
31.4 99.7 E-MEXP-509-raw-cel-829148561
29.6 99.7 E-MEXP-509-raw-cel-829148525
25.2 99.6 GSM154508 Arabidopsis growing pollen tubes rep2 GSE6696 Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in Arabidopsis
22.1 99.6 GSM133760 Lindsey_1-12_heart-stage-root_Rep3_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
21.3 99.6 GSM133771 Lindsey_1-23_torpedo-apical_Rep5_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
20.1 99.6 E-MEXP-509-raw-cel-829148348
18.8 99.5 GSM133762 Lindsey_1-14_torpedo-root_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
17.8 99.5 E-MEXP-509-raw-cel-829148456
17.4 99.5 GSM133772 Lindsey_1-24_torpedo-apical_Rep6_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
16.6 99.5 E-MEXP-509-raw-cel-829148597
15.8 99.5 GSM133769 Lindsey_1-21_torpedo-basal_Rep6_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
14.5 99.4 E-MEXP-509-raw-cel-829148420
12.6 99.3 E-MEXP-509-raw-cel-829148313
12.2 99.3 GSM311274 Laser capture microdissected (LCM) embryo proper at the pre-globular stage, biological replicate 2 GSE12402 Expression data from Arabidopsis seed compartments at the pre-globular stage
12.1 99.3 E-MEXP-509-raw-cel-829148165
12.1 99.3 GSM133766 Lindsey_1-18_torpedo-root_Rep3_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
12.0 99.3 GSM311273 Laser capture microdissected (LCM) embryo proper at the pre-globular stage, biological replicate 1 GSE12402 Expression data from Arabidopsis seed compartments at the pre-globular stage
11.3 99.3 E-MEXP-509-raw-cel-829148201
10.9 99.2 GSM184556 Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
10.3 99.2 E-MEXP-509-raw-cel-829148492
9.8 99.1 E-MEXP-509-raw-cel-829148385

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
91.0	99.9	GSM143308	Tsu_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
79.6	99.9	GSM143309	Tsu_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
77.5	99.9	GSM143299	High_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
66.5	99.8	GSM143310	Tsu_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
64.5	99.8	GSM143298	Low_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
58.6	99.8	GSM253646	Low_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
58.2	99.8	GSM143306	High_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
57.5	99.8	GSM253648	Col-0-1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
55.7	99.8	GSM253645	High_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
55.2	99.8	GSM143307	Low_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
49.6	99.8	GSM143301	Ts_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
49.1	99.8	GSM143302	Ts_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
49.1	99.8	GSM253649	Col-0-2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
47.5	99.8	GSM143300	Ts_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
45.8	99.8	GSM184551	Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
45.3	99.8	GSM253647	Col-0 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
44.4	99.8	GSM253650	Ler 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
43.6	99.8	GSM205435	Col_ leaf_ wildtype_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
42.7	99.8	GSM253651	Ler 1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
37.6	99.7	GSM253652	Ler 2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
31.4	99.7	E-MEXP-509-raw-cel-829148561
29.6	99.7	E-MEXP-509-raw-cel-829148525
25.2	99.6	GSM154508	Arabidopsis growing pollen tubes rep2	GSE6696	Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in Arabidopsis
22.1	99.6	GSM133760	Lindsey_1-12_heart-stage-root_Rep3_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
21.3	99.6	GSM133771	Lindsey_1-23_torpedo-apical_Rep5_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
20.1	99.6	E-MEXP-509-raw-cel-829148348
18.8	99.5	GSM133762	Lindsey_1-14_torpedo-root_Rep1_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
17.8	99.5	E-MEXP-509-raw-cel-829148456
17.4	99.5	GSM133772	Lindsey_1-24_torpedo-apical_Rep6_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
16.6	99.5	E-MEXP-509-raw-cel-829148597
15.8	99.5	GSM133769	Lindsey_1-21_torpedo-basal_Rep6_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
14.5	99.4	E-MEXP-509-raw-cel-829148420
12.6	99.3	E-MEXP-509-raw-cel-829148313
12.2	99.3	GSM311274	Laser capture microdissected (LCM) embryo proper at the pre-globular stage, biological replicate 2	GSE12402	Expression data from Arabidopsis seed compartments at the pre-globular stage
12.1	99.3	E-MEXP-509-raw-cel-829148165
12.1	99.3	GSM133766	Lindsey_1-18_torpedo-root_Rep3_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
12.0	99.3	GSM311273	Laser capture microdissected (LCM) embryo proper at the pre-globular stage, biological replicate 1	GSE12402	Expression data from Arabidopsis seed compartments at the pre-globular stage
11.3	99.3	E-MEXP-509-raw-cel-829148201
10.9	99.2	GSM184556	Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
10.3	99.2	E-MEXP-509-raw-cel-829148492
9.8	99.1	E-MEXP-509-raw-cel-829148385

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO
0.286 1 GO:0006598 The chemical reactions and pathways resulting in the breakdown of polyamines, any organic compound containing two or more amino groups.
0.133 1 GO:0009308 The chemical reactions and pathways involving any organic compound that is weakly basic in character and contains an amino or a substituted amino group, as carried out by individual cells. Amines are called primary, secondary, or tertiary according to whether one, two, or three carbon atoms are attached to the nitrogen atom.
0.087 1 GO:0009269 A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a desiccation stimulus, extreme dryness resulting from the prolonged deprivation of water.

SF	Genes	GO ID	Process Name
0.286	1	GO:0006598	The chemical reactions and pathways resulting in the breakdown of polyamines, any organic compound containing two or more amino groups.
0.133	1	GO:0009308	The chemical reactions and pathways involving any organic compound that is weakly basic in character and contains an amino or a substituted amino group, as carried out by individual cells. Amines are called primary, secondary, or tertiary according to whether one, two, or three carbon atoms are attached to the nitrogen atom.
0.087	1	GO:0009269	A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a desiccation stimulus, extreme dryness resulting from the prolonged deprivation of water.

KEGG PATHWAY inferred to related to the module

SF Genes KEGG ID Pathway name Link to KEGG
0.133 1 00950 Isoquinoline alkaloid biosynthesis
0.091 1 00410 beta-Alanine metabolism
0.087 1 00960 Tropane, piperidine and pyridine alkaloid biosynthesis

SF	Genes	KEGG ID	Pathway name
0.133	1	00950	Isoquinoline alkaloid biosynthesis
0.091	1	00410	beta-Alanine metabolism
0.087	1	00960	Tropane, piperidine and pyridine alkaloid biosynthesis

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	At5g57740
Gene name	XBAT32
Module size	5 genes
NF	0.17
%ile	13.6

Co-expression analysis

Gene ID At5g57740 Gene name XBAT32 Module size 5 genes NF 0.17 %ile 13.6

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

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG0.133100950Isoquinoline alkaloid biosynthesis0.091100410beta-Alanine metabolism0.087100960Tropane, piperidine and pyridine alkaloid biosynthesis

Inter-species module comparison

Select a plant to compare co-expressed genes between species.Glycine_maxHordeum_vulgareOryza_sativaPopulus_trichocarpaTriticum_aestivumVitis_viniferaZea_mays

Gene ID At5g57740

Gene name XBAT32

Module size 5 genes

NF 0.17

%ile 13.6

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

SF Genes KEGG ID Pathway name Link to KEGG
0.133 1 00950 Isoquinoline alkaloid biosynthesis
0.091 1 00410 beta-Alanine metabolism
0.087 1 00960 Tropane, piperidine and pyridine alkaloid biosynthesis

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