Co-expression analysis

Gene ID	Os09g0541900
Gene name
Homology with Arabidopsis	Similar to At1g20200: EMB2719 (EMBRYO DEFECTIVE 2719) (HF=1e-24)
Module size	6 genes
NF	0.59
%ile	80.3

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
0.71	89.6	0.97	Os09g0541900	AB031299.1	-	Proteasome component region PCI domain containingprotein	1e-24	At1g20200	EMB2719 (EMBRYO DEFECTIVE 2719)	O.I.	H.G.	S.X.	Please selectKEGG (integral)Gramene (integral)KaPPA-View 4 (pathway)
0.73	91.1	0.98	Os05g0301500	AK067027.1	-	Ribophorin I (Fragment)	7e-5	At1g76400	ribophorin I family protein	O.I.	H.G.	S.X.	Please selectKEGG (integral)Gramene (integral)KaPPA-View 4 (pathway)
0.67	87.2	0.98	Os07g0209000	AK058399.1	-	Dolichyl-di-phosphooligosaccharide-proteinglycotransferase (Oligosaccharyltransferase)-like	1e-24	At5g66680	DGL1	O.I.	H.G.	S.X.	Please selectKEGG (integral)Gramene (integral)KaPPA-View 4 (pathway)
0.67	87.2	0.98	Os05g0147400	AK062146.1	-	T-complex protein 1, zeta subunit (TCP-1-zeta)(CCT-zeta) (CCT-zeta- 1)	6e-67	At5g16070	chaperonin, putative	O.I.	H.G.	S.X.	Please selectKEGG (integral)Gramene (integral)KaPPA-View 4 (pathway)
0.44	58.1	0.98	Os06g0538000	AK069949.1	-	Chaperonin Cpn60/TCP-1 family protein	5e-83	At5g26360	chaperonin, putative	O.I.	H.G.	S.X.	Please selectKEGG (integral)Gramene (integral)KaPPA-View 4 (pathway)
0.32	36.3	0.97	Os01g0911200	AK101333.1	-	Ribophorin II family protein	1e-6	At4g21150	HAP6 (HAPLESS 6)	O.I.	H.G.	S.X.	Please selectKEGG (integral)Gramene (integral)KaPPA-View 4 (pathway)

Click More genes

Specific experiments for the module

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title	Link to GEO
15.9	98.7	GSM422676	Control	GSE16865	Heterologous microarrays for the study of drought stress in Musa
8.2	97.7	GSM377073	Genomic DNA - 45 day old leaf sample - mutant d2943	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
7.7	97.6	GSM377085	Genomic DNA - 45 day old leaf sample - mutant f2045	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
7.5	97.5	GSM377075	Genomic DNA - 45 day old leaf sample - mutant g650	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
7.4	97.5	GSM377070	Genomic DNA - 45 day old leaf sample - mutant d1	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
6.5	97.2	GSM377084	Genomic DNA - 45 day old leaf sample - mutant f1856	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
6.3	97.2	GSM377074	Genomic DNA - 45 day old leaf sample - mutant g282	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
6.3	97.2	GSM377081	Genomic DNA - 45 day old leaf sample - mutant g7534	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
6.3	97.2	GSM377076	Genomic DNA - 45 day old leaf sample - mutant g6485	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
6.2	97.1	GSM377080	Genomic DNA - 45 day old leaf sample - mutant g6728	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
0.286	1	GO:0018279	The posttranslational glycosylation of protein via the N4 atom of peptidyl-asparagine forming N4-glycosyl-L-asparagine; the most common form is N-acetylglucosaminyl asparagine; N-acetylgalactosaminyl asparagine also occurs; this modification typically occurs in extracellular peptides with an N-X-(ST) motif. Partial modification has been observed to occur with cysteine, rather than serine or threonine, in the third position; secondary structure features are important, and proline in the second or fourth positions inhibits modification.
0.024	1	GO:0006457	The process of assisting in the covalent and noncovalent assembly of single chain polypeptides or multisubunit complexes into the correct tertiary structure.

Inter-species module comparison

A co-expression module including the soybean gene, Gma.5090.1.S1_at, orthologous to the query gene, Os09g0541900

VF	%ile	Gene ID	Repr. ID	Gene Name	Func.	Ev	AGI code	Arabidopsis gene name	O.I.	H.G.	S.X.	Other DB
0.98	100.0	Gma.5090.1.S1_at	At1g20200	-	-	4e-7	At1g20200	EMB2719 (EMBRYO DEFECTIVE 2719)	O.I.	H.G.	S.X.	Please select
0.49	68.3	Gma.3256.2.S1_a_at	At1g20200	-	-	2e-28	At1g23750	DNA-binding protein-related	O.I.	H.G.	S.X.	Please select
0.49	68.3	Gma.1686.1.S1_x_at	At1g20200	-	-	5e-141	At5g58290	RPT3 (REGULATORY PARTICLE TRIPLE-A ATPASE 3)	O.I.	H.G.	S.X.	Please select
0.47	66.6	Gma.6228.1.S1_at	At1g20200	-	-	3e-123	At1g53750	RPT1A (REGULATORY PARTICLE TRIPLE-A 1A)	O.I.	H.G.	S.X.	Please select
0.46	65.5	GmaAffx.69688.11.A1_s_at	At1g20200	-	-	3e+0	At2g36680	-	O.I.	H.G.	S.X.	Please select
0.41	58.1	GmaAffx.1301.61.A1_at	At1g20200	-	-	7e+0	At3g26740	CCL (CCR-LIKE)	O.I.	H.G.	S.X.	Please select
0.40	57.1	Gma.13118.1.S1_at	At1g20200	CDC2	-	4e-39	At3g48750	CDC2 (CELL DIVISION CONTROL 2)	O.I.	H.G.	S.X.	Please select
0.37	51.7	GmaAffx.39303.1.S1_at	At1g20200	-	-	5e-14	At5g54430	universal stress protein (USP) family protein	O.I.	H.G.	S.X.	Please select
0.36	50.8	Gma.3820.1.S1_a_at	At1g20200	-	-	9e-34	At1g30230	elongation factor 1-beta / EF-1-beta	O.I.	H.G.	S.X.	Please select
0.36	50.8	Gma.2167.1.S1_at	At1g20200	-	-	8e-5	At1g08780	AIP3 (ABI3-INTERACTING PROTEIN 3)	O.I.	H.G.	S.X.	Please select
0.34	47.2	GmaAffx.478.3.S1_s_at	At1g20200	-	-	2e-2	At4g00755	F-box family protein	O.I.	H.G.	S.X.	Please select
0.34	47.2	Gma.9722.1.S1_at	At1g20200	-	-	5e-4	At1g05720	selenoprotein family protein	O.I.	H.G.	S.X.	Please select
0.31	42.2	GmaAffx.31220.1.S1_at	At1g20200	-	-	4e+0	At2g17970	oxidoreductase, 2OG-Fe(II) oxygenase family protein	O.I.	H.G.	S.X.	Please select
0.29	39.0	Gma.17865.1.A1_at	At1g20200	-	-	3e-7	At3g53110	LOS4 (LOW EXPRESSION OF OSMOTICALLY RESPONSIVE GENES 4)	O.I.	H.G.	S.X.	Please select
0.29	39.0	Gma.6296.2.S1_at	At1g20200	-	-	8e-2	At3g10400	RNA recognition motif (RRM)-containing protein	O.I.	H.G.	S.X.	Please select
0.28	39.0	GmaAffx.76350.1.A1_s_at	At1g20200	-	-	8e-1	At3g21371	unknown protein	O.I.	H.G.	S.X.	Please select
0.27	35.7	Gma.8114.1.S1_at	At1g20200	-	-	4e-45	At4g19210	ATRLI2	O.I.	H.G.	S.X.	Please select
0.25	32.6	GmaAffx.91276.1.S1_at	At1g20200	-	-	7e-1	At5g48440	oxidoreductase	O.I.	H.G.	S.X.	Please select
0.25	32.6	Gma.2150.1.S1_at	At1g20200	-	-	3e-21	At1g19580	GAMMA CA1 (GAMMA CARBONIC ANHYDRASE 1)	O.I.	H.G.	S.X.	Please select
0.24	30.9	Gma.1449.1.S1_at	At1g20200	nucleoside diphosphate kinase	-	5e-41	At4g09320	NDPK1	O.I.	H.G.	S.X.	Please select
0.24	30.9	Gma.2609.1.S1_s_at	At1g20200	-	-	4e-73	At5g11170	ATP binding / ATP-dependent helicase/ helicase/ nucleic acid binding	O.I.	H.G.	S.X.	Please select
0.23	29.9	Gma.16382.1.S1_at	At1g20200	-	-	2e-61	At2g20930	-	O.I.	H.G.	S.X.	Please select
0.22	28.1	Gma.2127.1.S1_at	At1g20200	-	-	3e-33	At3g04600	tRNA synthetase class I (W and Y) family protein	O.I.	H.G.	S.X.	Please select
0.21	26.6	Gma.6325.1.S1_at	At1g20200	-	-	4e-4	At1g29150	ATS9 (ARABIDOPSIS NON-ATPASE SUBUNIT 9)	O.I.	H.G.	S.X.	Please select
0.18	22.3	Gma.10966.1.S1_at	At1g20200	-	-	8e-130	At5g23540	26S proteasome regulatory subunit, putative	O.I.	H.G.	S.X.	Please select
0.17	21.2	Gma.17539.1.S1_at	At1g20200	proteasome IOTA subunit	-	2e-87	At2g05840	PAA2 (20S PROTEASOME SUBUNIT PAA2)	O.I.	H.G.	S.X.	Please select
0.13	16.3	Gma.16745.1.S1_at	At1g20200	RAR1 protein	-	6e+0	At5g18450	AP2 domain-containing transcription factor, putative	O.I.	H.G.	S.X.	Please select

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

Arabidopsis_thaliana

Hordeum_vulgare

Populus_trichocarpa

Triticum_aestivum

Vitis_vinifera

Zea_mays

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