CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At3g23890

Gene name TOPII (TOPOISOMERASE II)

Module size 6 genes

NF 0.92

%ile 99.1

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
1.00 100.0 1.00 At3g23890 821972 TOPII (TOPOISOMERASE II) Encodes a topoisomerase II that is highly expressed in young seedlings. The protein is localized in the nucleus and gene expression levels are increased in proliferative tissues. O.I. H.G. S.X.
1.00 100.0 0.93 At3g51280 824291 male sterility MS5, putative F:binding;P:unknown;C:cellular_component unknown;OBPAF O.I. H.G. S.X.
1.00 100.0 0.92 At5g55520 835646 - F:unknown;P:biological_process unknown;C:unknown;MOBFPAV O.I. H.G. S.X.
0.91 95.6 0.90 At1g03780 839140 targeting protein-related Homolog of vertebrate TPX2. Protein has three domains involved in nuclear targeting, one in nuclear export and two in microtubule binding. Involved in mitotic spindle assembly during late prophase and early prometaphase. O.I. H.G. S.X.
0.91 95.6 0.93 At4g23800 828480 high mobility group (HMG1/2) family protein F:transcription factor activity;P:unknown;C:nucleus, chloroplast;MOBFPAV O.I. H.G. S.X.
0.77 88.0 0.90 At3g20150 821558 kinesin motor family protein F:microtubule motor activity, ATP binding;P:microtubule-based movement;C:microtubule associated complex, chloroplast;MOFPBAV O.I. H.G. S.X.

VF	%ile	CC	Gene ID	Repr. ID	Gene name	Func.	O.I.	H.G.	S.X.
1.00	100.0	1.00	At3g23890	821972	TOPII (TOPOISOMERASE II)	Encodes a topoisomerase II that is highly expressed in young seedlings. The protein is localized in the nucleus and gene expression levels are increased in proliferative tissues.	O.I.	H.G.	S.X.
1.00	100.0	0.93	At3g51280	824291	male sterility MS5, putative	F:binding;P:unknown;C:cellular_component unknown;OBPAF	O.I.	H.G.	S.X.
1.00	100.0	0.92	At5g55520	835646	-	F:unknown;P:biological_process unknown;C:unknown;MOBFPAV	O.I.	H.G.	S.X.
0.91	95.6	0.90	At1g03780	839140	targeting protein-related	Homolog of vertebrate TPX2. Protein has three domains involved in nuclear targeting, one in nuclear export and two in microtubule binding. Involved in mitotic spindle assembly during late prophase and early prometaphase.	O.I.	H.G.	S.X.
0.91	95.6	0.93	At4g23800	828480	high mobility group (HMG1/2) family protein	F:transcription factor activity;P:unknown;C:nucleus, chloroplast;MOBFPAV	O.I.	H.G.	S.X.
0.77	88.0	0.90	At3g20150	821558	kinesin motor family protein	F:microtubule motor activity, ATP binding;P:microtubule-based movement;C:microtubule associated complex, chloroplast;MOFPBAV	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
42.5 99.8 GSM142639 MC002_ATH1_A6.2-dubos-5kc GSE6151 The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
39.6 99.8 GSM142633 MC002_ATH1_A4.2-dubos-6kc GSE6151 The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
38.5 99.8 E-MEXP-1138-raw-cel-1432773130
30.1 99.7 GSM142640 MC002_ATH1_A6.3-dubos-5kc GSE6151 The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
26.6 99.7 GSM142634 MC002_ATH1_A4.3-dubos-6kc GSE6151 The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
21.1 99.6 GSM142628 MC002_ATH1_A2.3-dubos-wtc GSE6151 The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
20.7 99.6 E-MEXP-1797-raw-cel-1669768075
20.7 99.6 GSM142638 MC002_ATH1_A6.1-dubos-5kc_repeat GSE6151 The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
20.3 99.6 GSM75517 slr-1 2h NAA replicate 1 GSE3350 SLR/IAA14-dependent auxin induced lateral root initiation
19.8 99.6 E-MEXP-1138-raw-cel-1432773098
19.5 99.6 E-MEXP-1797-raw-cel-1669767949
19.3 99.6 GSM142626 MC002_ATH1_A2.1-dubos-wtc GSE6151 The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
18.9 99.5 E-MEXP-1797-raw-cel-1669768021
18.0 99.5 GSM142656 MC002_ATH1_A12.1-dubos-arh GSE6151 The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
17.2 99.5 GSM142632 MC002_ATH1_A4.1-dubos-6kc GSE6151 The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
16.9 99.5 E-MEXP-1797-raw-cel-1669767994
16.7 99.5 GSM253651 Ler 1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
16.5 99.5 GSM142627 MC002_ATH1_A2.2-dubos-wtc GSE6151 The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
14.4 99.4 GSM253650 Ler 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
13.9 99.4 GSM253648 Col-0-1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
13.7 99.4 GSM253652 Ler 2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
13.5 99.4 E-MEXP-1797-raw-cel-1669767985
13.5 99.4 GSM253649 Col-0-2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
13.0 99.4 GSM75516 slr-1 0h NAA replicate 1 GSE3350 SLR/IAA14-dependent auxin induced lateral root initiation
13.0 99.4 GSM253647 Col-0 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
12.4 99.3 GSM133766 Lindsey_1-18_torpedo-root_Rep3_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
12.2 99.3 E-MEXP-1797-raw-cel-1669767976
11.7 99.3 GSM143310 Tsu_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
11.6 99.3 E-MEXP-1797-raw-cel-1669768066
11.4 99.3 GSM75520 slr-1 2h NAA replicate 2 GSE3350 SLR/IAA14-dependent auxin induced lateral root initiation
11.0 99.2 GSM253645 High_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
10.9 99.2 GSM133762 Lindsey_1-14_torpedo-root_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
10.2 99.2 GSM143306 High_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
10.1 99.2 E-MEXP-1797-raw-cel-1669768057
10.0 99.2 E-MEXP-1797-raw-cel-1669768003
9.8 99.1 GSM143308 Tsu_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
9.8 99.1 GSM75521 slr-1 6h NAA replicate 2 GSE3350 SLR/IAA14-dependent auxin induced lateral root initiation
9.5 99.1 GSM134204 Murray_3-2_D3-GROWTH_Rep1_ATH1 GSE5750 Growth of suspension-cultured cells
9.2 99.1 GSM143307 Low_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
9.2 99.1 GSM253646 Low_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
9.1 99.1 GSM143302 Ts_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
8.9 99.0 GSM142657 MC002_ATH1_A12.2-dubos-arh GSE6151 The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
8.9 99.0 GSM143299 High_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
8.9 99.0 GSM133950 Murray_2-6_T10-APH_Rep1_ATH1 GSE5747 Genome-wide cell cycle studies
8.9 99.0 GSM75518 slr-1 6h NAA replicate 1 GSE3350 SLR/IAA14-dependent auxin induced lateral root initiation

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
42.5	99.8	GSM142639	MC002_ATH1_A6.2-dubos-5kc	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
39.6	99.8	GSM142633	MC002_ATH1_A4.2-dubos-6kc	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
38.5	99.8	E-MEXP-1138-raw-cel-1432773130
30.1	99.7	GSM142640	MC002_ATH1_A6.3-dubos-5kc	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
26.6	99.7	GSM142634	MC002_ATH1_A4.3-dubos-6kc	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
21.1	99.6	GSM142628	MC002_ATH1_A2.3-dubos-wtc	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
20.7	99.6	E-MEXP-1797-raw-cel-1669768075
20.7	99.6	GSM142638	MC002_ATH1_A6.1-dubos-5kc_repeat	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
20.3	99.6	GSM75517	slr-1 2h NAA replicate 1	GSE3350	SLR/IAA14-dependent auxin induced lateral root initiation
19.8	99.6	E-MEXP-1138-raw-cel-1432773098
19.5	99.6	E-MEXP-1797-raw-cel-1669767949
19.3	99.6	GSM142626	MC002_ATH1_A2.1-dubos-wtc	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
18.9	99.5	E-MEXP-1797-raw-cel-1669768021
18.0	99.5	GSM142656	MC002_ATH1_A12.1-dubos-arh	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
17.2	99.5	GSM142632	MC002_ATH1_A4.1-dubos-6kc	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
16.9	99.5	E-MEXP-1797-raw-cel-1669767994
16.7	99.5	GSM253651	Ler 1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
16.5	99.5	GSM142627	MC002_ATH1_A2.2-dubos-wtc	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
14.4	99.4	GSM253650	Ler 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
13.9	99.4	GSM253648	Col-0-1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
13.7	99.4	GSM253652	Ler 2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
13.5	99.4	E-MEXP-1797-raw-cel-1669767985
13.5	99.4	GSM253649	Col-0-2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
13.0	99.4	GSM75516	slr-1 0h NAA replicate 1	GSE3350	SLR/IAA14-dependent auxin induced lateral root initiation
13.0	99.4	GSM253647	Col-0 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
12.4	99.3	GSM133766	Lindsey_1-18_torpedo-root_Rep3_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
12.2	99.3	E-MEXP-1797-raw-cel-1669767976
11.7	99.3	GSM143310	Tsu_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
11.6	99.3	E-MEXP-1797-raw-cel-1669768066
11.4	99.3	GSM75520	slr-1 2h NAA replicate 2	GSE3350	SLR/IAA14-dependent auxin induced lateral root initiation
11.0	99.2	GSM253645	High_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
10.9	99.2	GSM133762	Lindsey_1-14_torpedo-root_Rep1_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
10.2	99.2	GSM143306	High_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
10.1	99.2	E-MEXP-1797-raw-cel-1669768057
10.0	99.2	E-MEXP-1797-raw-cel-1669768003
9.8	99.1	GSM143308	Tsu_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
9.8	99.1	GSM75521	slr-1 6h NAA replicate 2	GSE3350	SLR/IAA14-dependent auxin induced lateral root initiation
9.5	99.1	GSM134204	Murray_3-2_D3-GROWTH_Rep1_ATH1	GSE5750	Growth of suspension-cultured cells
9.2	99.1	GSM143307	Low_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
9.2	99.1	GSM253646	Low_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
9.1	99.1	GSM143302	Ts_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
8.9	99.0	GSM142657	MC002_ATH1_A12.2-dubos-arh	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
8.9	99.0	GSM143299	High_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
8.9	99.0	GSM133950	Murray_2-6_T10-APH_Rep1_ATH1	GSE5747	Genome-wide cell cycle studies
8.9	99.0	GSM75518	slr-1 6h NAA replicate 1	GSE3350	SLR/IAA14-dependent auxin induced lateral root initiation

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO
0.250 1 GO:0051225 The aggregation, arrangement and bonding together of a set of components to form the spindle, the array of microtubules and associated molecules that serves to move duplicated chromosomes apart.
0.118 1 GO:0007059 The process by which genetic material, in the form of chromosomes, is organized and then physically separated and apportioned to two or more sets.
0.087 1 GO:0006265 The process by which a transformation is induced in the topological structure of a double-stranded DNA helix, resulting in a change in linking number.

SF	Genes	GO ID	Process Name
0.250	1	GO:0051225	The aggregation, arrangement and bonding together of a set of components to form the spindle, the array of microtubules and associated molecules that serves to move duplicated chromosomes apart.
0.118	1	GO:0007059	The process by which genetic material, in the form of chromosomes, is organized and then physically separated and apportioned to two or more sets.
0.087	1	GO:0006265	The process by which a transformation is induced in the topological structure of a double-stranded DNA helix, resulting in a change in linking number.

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	At3g23890
Gene name	TOPII (TOPOISOMERASE II)
Module size	6 genes
NF	0.92
%ile	99.1

Co-expression analysis

Gene ID At3g23890 Gene name TOPII (TOPOISOMERASE II) Module size 6 genes NF 0.92 %ile 99.1

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 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 At3g23890

Gene name TOPII (TOPOISOMERASE II)

Module size 6 genes

NF 0.92

%ile 99.1

: 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

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