CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At4g15330

Gene name CYP705A1

Module size 17 genes

NF 0.68

%ile 87.9

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
0.46 59.8 1.00 At4g15330 827199 CYP705A1 a member of the cytochrome P450 family O.I. H.G. S.X.
0.76 87.4 0.72 At4g20140 827760 GSO1 (GASSHO1) Encodes GASSHO1 (GSO1), a putative leucine-rich repeat transmembrane-type receptor kinase. GSO1 and a homolog GSO2 (At5g44700) are required for the formation of a normal epidermal surface during embryogenesis. O.I. H.G. S.X.
0.75 86.9 0.67 At5g06200 830507 integral membrane family protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. H.G. S.X.
0.74 86.1 0.73 At2g39430 818528 disease resistance-responsive protein-related / dirigent protein-related F:molecular_function unknown;P:lignan biosynthetic process;C:endomembrane system;PABFO O.I. H.G. S.X.
0.74 86.1 0.70 At2g27370 817280 integral membrane family protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. H.G. S.X.
0.74 86.1 0.72 At4g13580 826991 disease resistance-responsive family protein F:molecular_function unknown;P:unknown;C:endomembrane system;PB O.I. H.G. S.X.
0.73 85.5 0.76 At2g28670 817416 disease resistance-responsive family protein / fibroin-related F:molecular_function unknown;P:unknown;C:endomembrane system;BMOPFVA O.I. H.G. S.X.
0.73 85.5 0.72 At5g66390 836771 peroxidase 72 (PER72) (P72) (PRXR8) F:electron carrier activity, peroxidase activity, heme binding;P:response to oxidative stress;C:endomembrane system;PFOB O.I. H.G. S.X.
0.72 84.8 0.67 At1g30750 839955 unknown protein F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;OBMFPV O.I. H.G. S.X.
0.72 84.8 0.69 At2g32300 817791 UCC1 (UCLACYANIN 1) Encodes a uclacyanin, a protein precursor that is closely related to precursors of stellacyanins and a blue copper protein from pea pods. O.I. H.G. S.X.
0.71 84.2 0.73 At2g36100 818183 integral membrane family protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. H.G. S.X.
0.71 84.2 0.67 At4g02090 827380 unknown protein F:molecular_function unknown;P:N-terminal protein myristoylation;C:cellular_component unknown;P O.I. H.G. S.X.
0.67 81.6 0.67 At1g43020 840901 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMBO O.I. H.G. S.X.
0.67 81.6 0.71 At5g51680 835242 hydroxyproline-rich glycoprotein family protein F:molecular_function unknown;P:biological_process unknown;C:cell wall;MPOBFVA O.I. H.G. S.X.
0.63 78.1 0.80 At1g08670 837389 epsin N-terminal homology (ENTH) domain-containing protein / clathrin assembly protein-related F:binding;P:biological_process unknown;C:cellular_component unknown;MFPO O.I. H.G. S.X.
0.63 78.1 0.67 At1g05260 837028 RCI3 (RARE COLD INDUCIBLE GENE 3) Encodes a cold-inducible cationic peroxidase that is involved in the stress response. In response to low temperature, RCI3 transcripts accumulate in the aerial part and in roots of etiolated seedlings but only in roots of light-grown seedlings. O.I. H.G. S.X.
0.58 73.8 0.73 At3g03700 821183 unknown protein F:unknown;P:biological_process unknown;C:unknown;PFOM O.I. H.G. S.X.

VF	%ile	CC	Gene ID	Repr. ID	Gene name	Func.	O.I.	H.G.	S.X.
0.46	59.8	1.00	At4g15330	827199	CYP705A1	a member of the cytochrome P450 family	O.I.	H.G.	S.X.
0.76	87.4	0.72	At4g20140	827760	GSO1 (GASSHO1)	Encodes GASSHO1 (GSO1), a putative leucine-rich repeat transmembrane-type receptor kinase. GSO1 and a homolog GSO2 (At5g44700) are required for the formation of a normal epidermal surface during embryogenesis.	O.I.	H.G.	S.X.
0.75	86.9	0.67	At5g06200	830507	integral membrane family protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	H.G.	S.X.
0.74	86.1	0.73	At2g39430	818528	disease resistance-responsive protein-related / dirigent protein-related	F:molecular_function unknown;P:lignan biosynthetic process;C:endomembrane system;PABFO	O.I.	H.G.	S.X.
0.74	86.1	0.70	At2g27370	817280	integral membrane family protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	H.G.	S.X.
0.74	86.1	0.72	At4g13580	826991	disease resistance-responsive family protein	F:molecular_function unknown;P:unknown;C:endomembrane system;PB	O.I.	H.G.	S.X.
0.73	85.5	0.76	At2g28670	817416	disease resistance-responsive family protein / fibroin-related	F:molecular_function unknown;P:unknown;C:endomembrane system;BMOPFVA	O.I.	H.G.	S.X.
0.73	85.5	0.72	At5g66390	836771	peroxidase 72 (PER72) (P72) (PRXR8)	F:electron carrier activity, peroxidase activity, heme binding;P:response to oxidative stress;C:endomembrane system;PFOB	O.I.	H.G.	S.X.
0.72	84.8	0.67	At1g30750	839955	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;OBMFPV	O.I.	H.G.	S.X.
0.72	84.8	0.69	At2g32300	817791	UCC1 (UCLACYANIN 1)	Encodes a uclacyanin, a protein precursor that is closely related to precursors of stellacyanins and a blue copper protein from pea pods.	O.I.	H.G.	S.X.
0.71	84.2	0.73	At2g36100	818183	integral membrane family protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	H.G.	S.X.
0.71	84.2	0.67	At4g02090	827380	unknown protein	F:molecular_function unknown;P:N-terminal protein myristoylation;C:cellular_component unknown;P	O.I.	H.G.	S.X.
0.67	81.6	0.67	At1g43020	840901	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMBO	O.I.	H.G.	S.X.
0.67	81.6	0.71	At5g51680	835242	hydroxyproline-rich glycoprotein family protein	F:molecular_function unknown;P:biological_process unknown;C:cell wall;MPOBFVA	O.I.	H.G.	S.X.
0.63	78.1	0.80	At1g08670	837389	epsin N-terminal homology (ENTH) domain-containing protein / clathrin assembly protein-related	F:binding;P:biological_process unknown;C:cellular_component unknown;MFPO	O.I.	H.G.	S.X.
0.63	78.1	0.67	At1g05260	837028	RCI3 (RARE COLD INDUCIBLE GENE 3)	Encodes a cold-inducible cationic peroxidase that is involved in the stress response. In response to low temperature, RCI3 transcripts accumulate in the aerial part and in roots of etiolated seedlings but only in roots of light-grown seedlings.	O.I.	H.G.	S.X.
0.58	73.8	0.73	At3g03700	821183	unknown protein	F:unknown;P:biological_process unknown;C:unknown;PFOM	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
69.7 99.9 GSM133775 Lindsey_1-27_torpedo-meristem_Rep3_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
42.3 99.8 GSM133757 Lindsey_1-8_heart-stage-cotyledon_Rep2_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
30.1 99.7 GSM133774 Lindsey_1-26_torpedo-meristem_Rep2_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
21.1 99.6 GSM253645 High_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
21.0 99.6 GSM143306 High_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
19.4 99.6 GSM253649 Col-0-2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
19.4 99.6 GSM133760 Lindsey_1-12_heart-stage-root_Rep3_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
18.6 99.5 GSM143307 Low_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
18.4 99.5 GSM253646 Low_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
17.5 99.5 GSM143309 Tsu_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
17.0 99.5 GSM143308 Tsu_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
16.9 99.5 GSM253652 Ler 2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
16.6 99.5 GSM143299 High_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
16.4 99.5 GSM253648 Col-0-1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
16.3 99.5 GSM143298 Low_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
16.0 99.5 GSM143301 Ts_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
16.0 99.5 GSM253647 Col-0 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
16.0 99.5 GSM143310 Tsu_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
14.6 99.4 GSM253650 Ler 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
14.1 99.4 GSM143302 Ts_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
13.8 99.4 GSM143300 Ts_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
13.6 99.4 GSM253651 Ler 1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
13.3 99.4 GSM133769 Lindsey_1-21_torpedo-basal_Rep6_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
13.0 99.4 GSM133756 Lindsey_1-10_heart-stage-root_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
12.9 99.3 GSM133755 Lindsey_1-7_heart-stage-cotyledon_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
11.3 99.3 GSM133768 Lindsey_1-20_torpedo-basal_Rep5_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
10.7 99.2 GSM133772 Lindsey_1-24_torpedo-apical_Rep6_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
10.2 99.2 GSM133763 Lindsey_1-15_torpedo-cotyledon_Rep2_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
10.0 99.2 E-ATMX-1-raw-cel-1112746095
9.5 99.1 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

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
69.7	99.9	GSM133775	Lindsey_1-27_torpedo-meristem_Rep3_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
42.3	99.8	GSM133757	Lindsey_1-8_heart-stage-cotyledon_Rep2_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
30.1	99.7	GSM133774	Lindsey_1-26_torpedo-meristem_Rep2_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
21.1	99.6	GSM253645	High_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
21.0	99.6	GSM143306	High_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
19.4	99.6	GSM253649	Col-0-2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
19.4	99.6	GSM133760	Lindsey_1-12_heart-stage-root_Rep3_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
18.6	99.5	GSM143307	Low_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
18.4	99.5	GSM253646	Low_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
17.5	99.5	GSM143309	Tsu_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
17.0	99.5	GSM143308	Tsu_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
16.9	99.5	GSM253652	Ler 2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
16.6	99.5	GSM143299	High_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
16.4	99.5	GSM253648	Col-0-1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
16.3	99.5	GSM143298	Low_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
16.0	99.5	GSM143301	Ts_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
16.0	99.5	GSM253647	Col-0 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
16.0	99.5	GSM143310	Tsu_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
14.6	99.4	GSM253650	Ler 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
14.1	99.4	GSM143302	Ts_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
13.8	99.4	GSM143300	Ts_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
13.6	99.4	GSM253651	Ler 1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
13.3	99.4	GSM133769	Lindsey_1-21_torpedo-basal_Rep6_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
13.0	99.4	GSM133756	Lindsey_1-10_heart-stage-root_Rep1_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
12.9	99.3	GSM133755	Lindsey_1-7_heart-stage-cotyledon_Rep1_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
11.3	99.3	GSM133768	Lindsey_1-20_torpedo-basal_Rep5_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
10.7	99.2	GSM133772	Lindsey_1-24_torpedo-apical_Rep6_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
10.2	99.2	GSM133763	Lindsey_1-15_torpedo-cotyledon_Rep2_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
10.0	99.2	E-ATMX-1-raw-cel-1112746095
9.5	99.1	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

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO
0.105 1 GO:0008544 The process whose specific outcome is the progression of the epidermis over time, from its formation to the mature structure. The epidermis is the outer epithelial layer of a plant or animal, it may be a single layer that produces an extracellular material (e.g. the cuticle of arthropods) or a complex stratified squamous epithelium, as in the case of many vertebrate species.
0.061 1 GO:0009807 The chemical reactions and pathways resulting in the formation of lignans, any member of a class of plant metabolites related to lignins. Lignans are usually found as phenylpropanoid dimers in which the phenylpropanoid units are linked tail to tail and thus having a 2,3 dibenzylbutane skeleton, but higher oligomers can also exist.
0.057 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
0.105	1	GO:0008544	The process whose specific outcome is the progression of the epidermis over time, from its formation to the mature structure. The epidermis is the outer epithelial layer of a plant or animal, it may be a single layer that produces an extracellular material (e.g. the cuticle of arthropods) or a complex stratified squamous epithelium, as in the case of many vertebrate species.
0.061	1	GO:0009807	The chemical reactions and pathways resulting in the formation of lignans, any member of a class of plant metabolites related to lignins. Lignans are usually found as phenylpropanoid dimers in which the phenylpropanoid units are linked tail to tail and thus having a 2,3 dibenzylbutane skeleton, but higher oligomers can also exist.
0.057	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
0.041 2 00360 Phenylalanine metabolism
0.041 2 00680 Methane metabolism
0.034 2 00940 Phenylpropanoid biosynthesis

SF	Genes	KEGG ID	Pathway name
0.041	2	00360	Phenylalanine metabolism
0.041	2	00680	Methane metabolism
0.034	2	00940	Phenylpropanoid 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	At4g15330
Gene name	CYP705A1
Module size	17 genes
NF	0.68
%ile	87.9

Co-expression analysis

Gene ID At4g15330 Gene name CYP705A1 Module size 17 genes NF 0.68 %ile 87.9

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 KEGG0.041200360Phenylalanine metabolism0.041200680Methane metabolism0.034200940Phenylpropanoid 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 At4g15330

Gene name CYP705A1

Module size 17 genes

NF 0.68

%ile 87.9

: 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
0.041 2 00360 Phenylalanine metabolism
0.041 2 00680 Methane metabolism
0.034 2 00940 Phenylpropanoid 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