CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID Os08g0151300

Gene name
Homology with Arabidopsis Similar to At1g63910: AtMYB103 (myb domain protein 103) (HF=2e-20)

Module size 6 genes

NF 0.09

%ile 6.5

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. Ev AGI code Arabidopsis gene name O.I. H.G. S.X. Other DB
0.83 95.8 0.96 Os08g0151300 AK111808.1 - Myb, DNA-binding domain containing protein 2e-20 At1g63910 AtMYB103 (myb domain protein 103) O.I. H.G. S.X.
0.50 68.0 0.97 Os03g0282100 9631.m01705 - - 3e-1 At3g55090 ATPase, coupled to transmembrane movement of substances O.I. H.G. S.X.
0.17 12.6 0.97 Os05g0415200 AF439787.2 - Phytochelatin synthase 2e-1 At1g03980 ATPCS2 (phytochelatin synthase 2) O.I. H.G. S.X.
0.05 2.5 0.97 Os03g0361500 CF276205 - Terpene synthase, metal-binding domain containingprotein 5e+0 At3g11397 PRA1.A3 (PRENYLATED RAB ACCEPTOR 1.A3) O.I. H.G. S.X.
0.04 2.0 0.97 Os01g0685200 NM_192084.1 - Conserved hypothetical protein 9e-21 At5g38110 ASF1B (ANTI- SILENCING FUNCTION 1B) O.I. H.G. S.X.
0.04 2.0 0.96 Os12g0567000 AK109171.1 - Hypothetical protein 4e-1 At2g41120 unknown protein O.I. H.G. S.X.

VF	%ile	CC	Gene ID	Repr. ID	Gene name	Func.	Ev	AGI code	Arabidopsis gene name	O.I.	H.G.	S.X.
0.83	95.8	0.96	Os08g0151300	AK111808.1	-	Myb, DNA-binding domain containing protein	2e-20	At1g63910	AtMYB103 (myb domain protein 103)	O.I.	H.G.	S.X.
0.50	68.0	0.97	Os03g0282100	9631.m01705	-	-	3e-1	At3g55090	ATPase, coupled to transmembrane movement of substances	O.I.	H.G.	S.X.
0.17	12.6	0.97	Os05g0415200	AF439787.2	-	Phytochelatin synthase	2e-1	At1g03980	ATPCS2 (phytochelatin synthase 2)	O.I.	H.G.	S.X.
0.05	2.5	0.97	Os03g0361500	CF276205	-	Terpene synthase, metal-binding domain containingprotein	5e+0	At3g11397	PRA1.A3 (PRENYLATED RAB ACCEPTOR 1.A3)	O.I.	H.G.	S.X.
0.04	2.0	0.97	Os01g0685200	NM_192084.1	-	Conserved hypothetical protein	9e-21	At5g38110	ASF1B (ANTI- SILENCING FUNCTION 1B)	O.I.	H.G.	S.X.
0.04	2.0	0.96	Os12g0567000	AK109171.1	-	Hypothetical protein	4e-1	At2g41120	unknown protein	O.I.	H.G.	S.X.

Click More genes

Specific experiments for the module

Std2 GX %ile GSM ID Assay name GSE ID Experiment title Link to GEO
17.5 98.9 GSM422676 Control GSE16865 Heterologous microarrays for the study of drought stress in Musa
12.3 98.3 GSM377074 Genomic DNA - 45 day old leaf sample - mutant g282 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
11.2 98.2 GSM422674 Musa_DNA_RICE GSE16865 Heterologous microarrays for the study of drought stress in Musa
10.4 98.1 GSM377079 Genomic DNA - 45 day old leaf sample - mutant g6686 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
10.3 98.1 GSM377085 Genomic DNA - 45 day old leaf sample - mutant f2045 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
10.2 98.0 GSM377080 Genomic DNA - 45 day old leaf sample - mutant g6728 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
10.1 98.0 GSM377078 Genomic DNA - 45 day old leaf sample - mutant g6603 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
10.0 98.0 GSM377077 Genomic DNA - 45 day old leaf sample - mutant g6489 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
9.9 98.0 GSM377075 Genomic DNA - 45 day old leaf sample - mutant g650 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
9.9 98.0 GSM377071 Genomic DNA - 45 day old leaf sample - mutant d256 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
17.5	98.9	GSM422676	Control	GSE16865	Heterologous microarrays for the study of drought stress in Musa
12.3	98.3	GSM377074	Genomic DNA - 45 day old leaf sample - mutant g282	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
11.2	98.2	GSM422674	Musa_DNA_RICE	GSE16865	Heterologous microarrays for the study of drought stress in Musa
10.4	98.1	GSM377079	Genomic DNA - 45 day old leaf sample - mutant g6686	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
10.3	98.1	GSM377085	Genomic DNA - 45 day old leaf sample - mutant f2045	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
10.2	98.0	GSM377080	Genomic DNA - 45 day old leaf sample - mutant g6728	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
10.1	98.0	GSM377078	Genomic DNA - 45 day old leaf sample - mutant g6603	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
10.0	98.0	GSM377077	Genomic DNA - 45 day old leaf sample - mutant g6489	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
9.9	98.0	GSM377075	Genomic DNA - 45 day old leaf sample - mutant g650	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
9.9	98.0	GSM377071	Genomic DNA - 45 day old leaf sample - mutant d256	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO

Inter-species module comparison

A co-expression module including the Arabidopsis gene, At1g63910, orthologous to the query gene, Os08g0151300

VF %ile Gene ID Repr. ID Gene Name Func. O.I. H.G. S.X. Other DB
0.80 89.8 At1g63910 842694 AtMYB103 (myb domain protein 103) member of MYB3R- and R2R3- type MYB- encoding genes O.I. H.G. S.X.
0.93 96.4 At3g50220 824184 unknown protein F:unknown;P:biological_process unknown;C:cellular_component unknown;POB O.I. H.G. S.X.
0.93 96.4 At5g15630 831417 IRX6 Encodes a member of the COBRA family, similar to phytochelatin synthetase. Involved in secondary cell wall biosynthesis. Mutants make smaller plants with reduced levels of cellulose and cell wall sugars. O.I. H.G. S.X.
0.93 96.4 At5g44030 834426 CESA4 (CELLULOSE SYNTHASE A4) Encodes a cellulose synthase involved in secondary cell wall biosynthesis. Confers resistance towards bacterial and fungal pathogens, independent of salicylic acid, ethylene and jasmonate signaling. O.I. H.G. S.X.
0.91 95.6 At5g03170 831914 FLA11 F:unknown;P:unknown;C:anchored to membrane;PBOMAF O.I. H.G. S.X.
0.91 95.6 At5g17420 831608 IRX3 (IRREGULAR XYLEM 3) Encodes a xylem-specific cellulose synthase that is phosphorylated on one or more serine residues (on either S185 or one of S180 or S181). O.I. H.G. S.X.
0.90 95.1 At1g22480 838854 plastocyanin-like domain-containing protein F:electron carrier activity, copper ion binding;P:unknown;C:anchored to membrane;PFO O.I. H.G. S.X.
0.90 95.1 At3g16920 820947 chitinase F:chitinase activity;P:cell wall macromolecule catabolic process;C:unknown;PBMOF O.I. H.G. S.X.
0.89 94.6 At1g27380 839627 RIC2 (ROP-INTERACTIVE CRIB MOTIF-CONTAINING PROTEIN 2) encodes a member of a novel protein family that contains contain a CRIB (for Cdc42/Rac-interactive binding) motif required for their specific interaction with GTP-bound Rop1 (plant-specific Rho GTPase). Interacts with Rop1 and is involved in pollen tube growth and function. Protein most similar to RIC4 (family subgroup V). Gene is expressed in all tissues examined. O.I. H.G. S.X.
0.89 94.6 At3g15050 820734 IQD10 (IQ-domain 10) F:calmodulin binding;P:biological_process unknown;C:chloroplast;P O.I. H.G. S.X.
0.88 94.0 At2g29130 817462 LAC2 (laccase 2) putative laccase, knockout mutant had reduced root elongation under PEG-induced dehydration O.I. H.G. S.X.
0.88 94.0 At5g67210 836856 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POB O.I. H.G. S.X.
0.86 93.1 At4g28500 828968 ANAC073 (ARABIDOPSIS NAC DOMAIN CONTAINING PROTEIN 73) F:transcription factor activity, transcription activator activity;P:multicellular organismal development, regulation of secondary cell wall thickening;C:nucleus;PO O.I. H.G. S.X.
0.85 92.4 At3g18660 821397 PGSIP1 (PLANT GLYCOGENIN-LIKE STARCH INITIATION PROTEIN 1) Plants expressing an RNAi construct specifically targeting PGSIP1 was shown to have a dramatically reduced amount of starch. O.I. H.G. S.X.
0.85 92.4 At5g60490 836170 FLA12 F:unknown;P:unknown;C:plasma membrane, anchored to membrane;PBOMAF O.I. H.G. S.X.
0.84 91.9 At1g32770 840171 ANAC012 (ARABIDOPSIS NAC DOMAIN CONTAINING PROTEIN 12) Encodes SND1, a NAC Domain transcription factor involved in secondary wall biosynthesis in fibers. Expressed specifically in interfascicular fibers and xylary fibers in stems. Expressed in the procambium of stem inflorescences and root. May act as a negative regulator of secondary wall thickening in xylary fibers. Acts redundantly with NST1 to control development of secondary walls in siliques. O.I. H.G. S.X.
0.83 91.4 At1g80170 844357 polygalacturonase, putative / pectinase, putative F:polygalacturonase activity;P:carbohydrate metabolic process;C:plant-type cell wall;FPBOMA O.I. H.G. S.X.
0.82 90.9 At1g09610 837488 unknown protein F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;POB O.I. H.G. S.X.
0.82 90.9 At5g54690 835558 GAUT12 (GALACTURONOSYLTRANSFERASE 12) Encodes a protein with putative galacturonosyltransferase activity. Mutants defective in this gene displayed a notable reduction in xylose (>50%) in the cell walls from stems and roots and a reduction in cellulose (~25%). O.I. H.G. S.X.
0.82 90.9 At5g05390 830421 LAC12 (laccase 12) putative laccase, a member of laccase family of genes (17 members in Arabidopsis). O.I. H.G. S.X.
0.77 88.0 At2g38080 818386 IRX12 (IRREGULAR XYLEM 12) Encodes a protein with similarity to putative laccase, a member of laccase family (17 members in Arabidopsis). Might be involved in cell wall biosynthesis. Mutants have a mild irregular xylem phenotype. O.I. H.G. S.X.
0.74 86.1 At5g01190 831697 LAC10 (laccase 10) putative laccase, a member of laccase family of genes (17 members in Arabidopsis). O.I. H.G. S.X.
0.72 84.8 At1g27440 839635 GUT2 F:glucuronoxylan glucuronosyltransferase activity, catalytic activity;P:secondary cell wall biogenesis, glucuronoxylan biosynthetic process;C:endomembrane system, membrane;PMOBF O.I. H.G. S.X.
0.72 84.8 At4g18780 827612 IRX1 (IRREGULAR XYLEM 1) Encodes a member of the cellulose synthase family involved in secondary cell wall biosynthesis. Mutants have abnormal xylem formation, reduced cellulose content, and enhanced drought and osmotic stress tolerance. Mediates resistance towards bacterial pathogens via ABA. Confers resistance towards bacterial and fungal pathogens, independent of salicylic acid, ethylene and jasmonate signaling. O.I. H.G. S.X.
0.64 78.9 At1g19300 838512 PARVUS (PARVUS) The PARVUS/GLZ1 gene encodes a putative family 8 glycosyl transferase that contributes to xylan biosynthesis. Its gene expression shows good co-variance with the IRX3 gene involved in secondary cell wall synthesis. PARVUS/GLZ1 is predicted to have galacturonosyltransferase activity and may be involved in the formation of the complex oligosaccharide sequence present at the reducing end of xylan. PARVUS is expressed in cells undergoing secondary wall thickening, and parvus mutants have thinner cell walls. O.I. H.G. S.X.
0.64 78.9 At3g62020 825375 GLP10 (GERMIN-LIKE PROTEIN 10) germin-like protein (GLP10) O.I. H.G. S.X.
0.62 77.3 At2g37090 818285 IRX9 (IRREGULAR XYLEM 9) The IRX9 gene encodes a putative family 43 glycosyl transferase. It was coordinately expressed with the cellulose synthase subunits during secondary cell wall formation. Cell wall analysis revealed a decrease in the abundance of xylan in the irx9 mutant, indicating that IRX9 is required for xylan synthesis. Mutants have irregular xylem phenotype suggesting a role in secondary cell wall biosynthesis. O.I. H.G. S.X.
0.62 77.3 At1g08340 837354 rac GTPase activating protein, putative F:Rac GTPase activator activity;P:signal transduction;C:intracellular;MOFPVBA O.I. H.G. S.X.

VF	%ile	Gene ID	Repr. ID	Gene Name	Func.	O.I.	H.G.	S.X.
0.80	89.8	At1g63910	842694	AtMYB103 (myb domain protein 103)	member of MYB3R- and R2R3- type MYB- encoding genes	O.I.	H.G.	S.X.
0.93	96.4	At3g50220	824184	unknown protein	F:unknown;P:biological_process unknown;C:cellular_component unknown;POB	O.I.	H.G.	S.X.
0.93	96.4	At5g15630	831417	IRX6	Encodes a member of the COBRA family, similar to phytochelatin synthetase. Involved in secondary cell wall biosynthesis. Mutants make smaller plants with reduced levels of cellulose and cell wall sugars.	O.I.	H.G.	S.X.
0.93	96.4	At5g44030	834426	CESA4 (CELLULOSE SYNTHASE A4)	Encodes a cellulose synthase involved in secondary cell wall biosynthesis. Confers resistance towards bacterial and fungal pathogens, independent of salicylic acid, ethylene and jasmonate signaling.	O.I.	H.G.	S.X.
0.91	95.6	At5g03170	831914	FLA11	F:unknown;P:unknown;C:anchored to membrane;PBOMAF	O.I.	H.G.	S.X.
0.91	95.6	At5g17420	831608	IRX3 (IRREGULAR XYLEM 3)	Encodes a xylem-specific cellulose synthase that is phosphorylated on one or more serine residues (on either S185 or one of S180 or S181).	O.I.	H.G.	S.X.
0.90	95.1	At1g22480	838854	plastocyanin-like domain-containing protein	F:electron carrier activity, copper ion binding;P:unknown;C:anchored to membrane;PFO	O.I.	H.G.	S.X.
0.90	95.1	At3g16920	820947	chitinase	F:chitinase activity;P:cell wall macromolecule catabolic process;C:unknown;PBMOF	O.I.	H.G.	S.X.
0.89	94.6	At1g27380	839627	RIC2 (ROP-INTERACTIVE CRIB MOTIF-CONTAINING PROTEIN 2)	encodes a member of a novel protein family that contains contain a CRIB (for Cdc42/Rac-interactive binding) motif required for their specific interaction with GTP-bound Rop1 (plant-specific Rho GTPase). Interacts with Rop1 and is involved in pollen tube growth and function. Protein most similar to RIC4 (family subgroup V). Gene is expressed in all tissues examined.	O.I.	H.G.	S.X.
0.89	94.6	At3g15050	820734	IQD10 (IQ-domain 10)	F:calmodulin binding;P:biological_process unknown;C:chloroplast;P	O.I.	H.G.	S.X.
0.88	94.0	At2g29130	817462	LAC2 (laccase 2)	putative laccase, knockout mutant had reduced root elongation under PEG-induced dehydration	O.I.	H.G.	S.X.
0.88	94.0	At5g67210	836856	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POB	O.I.	H.G.	S.X.
0.86	93.1	At4g28500	828968	ANAC073 (ARABIDOPSIS NAC DOMAIN CONTAINING PROTEIN 73)	F:transcription factor activity, transcription activator activity;P:multicellular organismal development, regulation of secondary cell wall thickening;C:nucleus;PO	O.I.	H.G.	S.X.
0.85	92.4	At3g18660	821397	PGSIP1 (PLANT GLYCOGENIN-LIKE STARCH INITIATION PROTEIN 1)	Plants expressing an RNAi construct specifically targeting PGSIP1 was shown to have a dramatically reduced amount of starch.	O.I.	H.G.	S.X.
0.85	92.4	At5g60490	836170	FLA12	F:unknown;P:unknown;C:plasma membrane, anchored to membrane;PBOMAF	O.I.	H.G.	S.X.
0.84	91.9	At1g32770	840171	ANAC012 (ARABIDOPSIS NAC DOMAIN CONTAINING PROTEIN 12)	Encodes SND1, a NAC Domain transcription factor involved in secondary wall biosynthesis in fibers. Expressed specifically in interfascicular fibers and xylary fibers in stems. Expressed in the procambium of stem inflorescences and root. May act as a negative regulator of secondary wall thickening in xylary fibers. Acts redundantly with NST1 to control development of secondary walls in siliques.	O.I.	H.G.	S.X.
0.83	91.4	At1g80170	844357	polygalacturonase, putative / pectinase, putative	F:polygalacturonase activity;P:carbohydrate metabolic process;C:plant-type cell wall;FPBOMA	O.I.	H.G.	S.X.
0.82	90.9	At1g09610	837488	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;POB	O.I.	H.G.	S.X.
0.82	90.9	At5g54690	835558	GAUT12 (GALACTURONOSYLTRANSFERASE 12)	Encodes a protein with putative galacturonosyltransferase activity. Mutants defective in this gene displayed a notable reduction in xylose (>50%) in the cell walls from stems and roots and a reduction in cellulose (~25%).	O.I.	H.G.	S.X.
0.82	90.9	At5g05390	830421	LAC12 (laccase 12)	putative laccase, a member of laccase family of genes (17 members in Arabidopsis).	O.I.	H.G.	S.X.
0.77	88.0	At2g38080	818386	IRX12 (IRREGULAR XYLEM 12)	Encodes a protein with similarity to putative laccase, a member of laccase family (17 members in Arabidopsis). Might be involved in cell wall biosynthesis. Mutants have a mild irregular xylem phenotype.	O.I.	H.G.	S.X.
0.74	86.1	At5g01190	831697	LAC10 (laccase 10)	putative laccase, a member of laccase family of genes (17 members in Arabidopsis).	O.I.	H.G.	S.X.
0.72	84.8	At1g27440	839635	GUT2	F:glucuronoxylan glucuronosyltransferase activity, catalytic activity;P:secondary cell wall biogenesis, glucuronoxylan biosynthetic process;C:endomembrane system, membrane;PMOBF	O.I.	H.G.	S.X.
0.72	84.8	At4g18780	827612	IRX1 (IRREGULAR XYLEM 1)	Encodes a member of the cellulose synthase family involved in secondary cell wall biosynthesis. Mutants have abnormal xylem formation, reduced cellulose content, and enhanced drought and osmotic stress tolerance. Mediates resistance towards bacterial pathogens via ABA. Confers resistance towards bacterial and fungal pathogens, independent of salicylic acid, ethylene and jasmonate signaling.	O.I.	H.G.	S.X.
0.64	78.9	At1g19300	838512	PARVUS (PARVUS)	The PARVUS/GLZ1 gene encodes a putative family 8 glycosyl transferase that contributes to xylan biosynthesis. Its gene expression shows good co-variance with the IRX3 gene involved in secondary cell wall synthesis. PARVUS/GLZ1 is predicted to have galacturonosyltransferase activity and may be involved in the formation of the complex oligosaccharide sequence present at the reducing end of xylan. PARVUS is expressed in cells undergoing secondary wall thickening, and parvus mutants have thinner cell walls.	O.I.	H.G.	S.X.
0.64	78.9	At3g62020	825375	GLP10 (GERMIN-LIKE PROTEIN 10)	germin-like protein (GLP10)	O.I.	H.G.	S.X.
0.62	77.3	At2g37090	818285	IRX9 (IRREGULAR XYLEM 9)	The IRX9 gene encodes a putative family 43 glycosyl transferase. It was coordinately expressed with the cellulose synthase subunits during secondary cell wall formation. Cell wall analysis revealed a decrease in the abundance of xylan in the irx9 mutant, indicating that IRX9 is required for xylan synthesis. Mutants have irregular xylem phenotype suggesting a role in secondary cell wall biosynthesis.	O.I.	H.G.	S.X.
0.62	77.3	At1g08340	837354	rac GTPase activating protein, putative	F:Rac GTPase activator activity;P:signal transduction;C:intracellular;MOFPVBA	O.I.	H.G.	S.X.

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

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Gene ID	Os08g0151300
Gene name
Homology with Arabidopsis	Similar to At1g63910: AtMYB103 (myb domain protein 103) (HF=2e-20)
Module size	6 genes
NF	0.09
%ile	6.5

Co-expression analysis

Gene ID Os08g0151300 Gene name Homology with ArabidopsisSimilar to At1g63910: AtMYB103 (myb domain protein 103) (HF=2e-20) Module size 6 genes NF 0.09 %ile 6.5

Co-expressed genes

Click More genes

Specific experiments for the module

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO

Inter-species module comparison

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

Gene ID Os08g0151300

Gene name
Homology with Arabidopsis Similar to At1g63910: AtMYB103 (myb domain protein 103) (HF=2e-20)

Module size 6 genes

NF 0.09

%ile 6.5

SF Genes GO ID Process Name Link to AmiGO

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