CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID TaAffx.82753.2.S1_at

Gene name
Homology with Arabidopsis Similar to At3g07590: small nuclear ribonucleoprotein D1, putative / snRNP core protein D1, putative / Sm protein D1, putative (HF=6e-1)

Module size 6 genes

NF 0.43

%ile 68.5

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
0.67 86.3 0.91 TaAffx.82753.2.S1_at CA667656 - - 6e-1 At3g07590 small nuclear ribonucleoprotein D1, putative / snRNP core protein D1, putative / Sm protein D1, putative O.I. H.G. S.X.
0.53 74.9 0.90 Ta.1630.2.S1_at CA668027 - - 2e+0 At3g14850 unknown protein O.I. H.G. S.X.
0.53 74.9 0.90 Ta.13841.2.A1_at CA639514 - - 4e+0 At2g18876 unknown protein O.I. H.G. S.X.
0.40 58.4 0.91 Ta.28879.3.S1_at CA661256 - - 3e-1 At5g35069 unknown protein O.I. H.G. S.X.
0.30 40.9 0.90 TaAffx.105396.1.S1_s_at CA734994 - - 3e+0 At4g20440 smB (small nuclear ribonucleoprotein associated protein B) O.I. H.G. S.X.
0.24 30.3 0.90 TaAffx.109083.1.S1_at CA680397 - - 4e-1 At5g43150 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.
0.67	86.3	0.91	TaAffx.82753.2.S1_at	CA667656	-	-	6e-1	At3g07590	small nuclear ribonucleoprotein D1, putative / snRNP core protein D1, putative / Sm protein D1, putative	O.I.	H.G.	S.X.
0.53	74.9	0.90	Ta.1630.2.S1_at	CA668027	-	-	2e+0	At3g14850	unknown protein	O.I.	H.G.	S.X.
0.53	74.9	0.90	Ta.13841.2.A1_at	CA639514	-	-	4e+0	At2g18876	unknown protein	O.I.	H.G.	S.X.
0.40	58.4	0.91	Ta.28879.3.S1_at	CA661256	-	-	3e-1	At5g35069	unknown protein	O.I.	H.G.	S.X.
0.30	40.9	0.90	TaAffx.105396.1.S1_s_at	CA734994	-	-	3e+0	At4g20440	smB (small nuclear ribonucleoprotein associated protein B)	O.I.	H.G.	S.X.
0.24	30.3	0.90	TaAffx.109083.1.S1_at	CA680397	-	-	4e-1	At5g43150	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
11.9 99.4 GSM250900 TcLr34_3dpi_inoculated_rep3 GSE9915 Transcript profiling of Lr1- and Lr34-mediated leaf rust resistance in wheat
11.1 99.3 GSM250898 TcLr1_3dpi_inoculated_rep3 GSE9915 Transcript profiling of Lr1- and Lr34-mediated leaf rust resistance in wheat
7.7 98.7 GSM250895 Tc_3dpi_mock_rep3 GSE9915 Transcript profiling of Lr1- and Lr34-mediated leaf rust resistance in wheat
7.3 98.6 GSM315203 target strand labeled: Antisense - rep1 GSE12528 Wheat "Chinese Spring" natural antisense transcription survey
6.4 98.2 GSM250897 TcLr1_3dpi_mock_rep3 GSE9915 Transcript profiling of Lr1- and Lr34-mediated leaf rust resistance in wheat
6.1 98.1 GSM250896 Tc_3dpi_inoculated_rep3 GSE9915 Transcript profiling of Lr1- and Lr34-mediated leaf rust resistance in wheat
5.1 97.5 GSM314260 tissue type: seedling, root - rep1 GSE12508 Transcription patterns during wheat development
4.5 96.9 GSM250899 TcLr34_3dpi_mock_rep3 GSE9915 Transcript profiling of Lr1- and Lr34-mediated leaf rust resistance in wheat
3.4 95.2 GSM315202 target strand labeled: Sense - rep1 GSE12528 Wheat "Chinese Spring" natural antisense transcription survey
3.3 95.0 GSM298092 Crown tissue of Solstice at 3 weeks post germination GSE11774 Expression data from cold treated wheat cultivars

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
11.9	99.4	GSM250900	TcLr34_3dpi_inoculated_rep3	GSE9915	Transcript profiling of Lr1- and Lr34-mediated leaf rust resistance in wheat
11.1	99.3	GSM250898	TcLr1_3dpi_inoculated_rep3	GSE9915	Transcript profiling of Lr1- and Lr34-mediated leaf rust resistance in wheat
7.7	98.7	GSM250895	Tc_3dpi_mock_rep3	GSE9915	Transcript profiling of Lr1- and Lr34-mediated leaf rust resistance in wheat
7.3	98.6	GSM315203	target strand labeled: Antisense - rep1	GSE12528	Wheat "Chinese Spring" natural antisense transcription survey
6.4	98.2	GSM250897	TcLr1_3dpi_mock_rep3	GSE9915	Transcript profiling of Lr1- and Lr34-mediated leaf rust resistance in wheat
6.1	98.1	GSM250896	Tc_3dpi_inoculated_rep3	GSE9915	Transcript profiling of Lr1- and Lr34-mediated leaf rust resistance in wheat
5.1	97.5	GSM314260	tissue type: seedling, root - rep1	GSE12508	Transcription patterns during wheat development
4.5	96.9	GSM250899	TcLr34_3dpi_mock_rep3	GSE9915	Transcript profiling of Lr1- and Lr34-mediated leaf rust resistance in wheat
3.4	95.2	GSM315202	target strand labeled: Sense - rep1	GSE12528	Wheat "Chinese Spring" natural antisense transcription survey
3.3	95.0	GSM298092	Crown tissue of Solstice at 3 weeks post germination	GSE11774	Expression data from cold treated wheat cultivars

Inter-species module comparison

A co-expression module including the Arabidopsis gene, At3g07590, orthologous to the query gene, TaAffx.82753.2.S1_at

VF %ile Gene ID Repr. ID Gene Name Func. O.I. H.G. S.X. Other DB
1.00 100.0 At3g07590 819950 small nuclear ribonucleoprotein D1, putative / snRNP core protein D1, putative / Sm protein D1, putative F:molecular_function unknown;P:unknown;C:small nucleolar ribonucleoprotein complex, nucleus, plasma membrane;MFOPB O.I. H.G. S.X.
0.46 59.8 At1g76300 843963 SmD3 (snRNP core protein SmD3) F:molecular_function unknown;P:unknown;C:nuclear body, nucleolus, small nucleolar ribonucleoprotein complex, nucleus;MFOP O.I. H.G. S.X.
0.41 52.4 At5g62290 836350 nucleotide-sensitive chloride conductance regulator (ICln) family protein F:ion channel activity;P:cell volume homeostasis, chloride transport;C:cellular_component unknown;MPFO O.I. H.G. S.X.
0.35 41.6 At3g05810 819750 unknown protein F:molecular_function unknown;P:biological_process unknown;C:mitochondrion;P O.I. H.G. S.X.
0.35 41.6 At5g50810 835153 TIM8 Encodes a small zinc finger-like protein that is a component of the mitochondrial protein import apparatus. O.I. H.G. S.X.
0.34 39.8 At2g19720 816491 rps15ab (ribosomal protein S15A B) F:structural constituent of ribosome;P:translation;C:cytosolic small ribosomal subunit;BOMPAF O.I. H.G. S.X.
0.33 38.1 At1g70350 843371 unknown protein F:molecular_function unknown;P:biological_process unknown;C:unknown;P O.I. H.G. S.X.
0.32 35.7 At3g62840 825459 - F:molecular_function unknown;P:unknown;C:small nucleolar ribonucleoprotein complex, nucleus;MFOPA O.I. H.G. S.X.
0.31 33.8 At2g23930 816925 SNRNP-G (PROBABLE SMALL NUCLEAR RIBONUCLEOPROTEIN G) F:molecular_function unknown;P:unknown;C:small nucleolar ribonucleoprotein complex, nucleus;MFOPA O.I. H.G. S.X.
0.30 32.1 At5g56940 835796 ribosomal protein S16 family protein F:structural constituent of ribosome;P:translation, ribosome biogenesis;C:ribosome, intracellular;BOPMF O.I. H.G. S.X.
0.28 30.3 At4g30220 829145 RUXF (SMALL NUCLEAR RIBONUCLEOPROTEIN F) F:molecular_function unknown;P:unknown;C:nucleolus, small nucleolar ribonucleoprotein complex, nucleus;AMFOP O.I. H.G. S.X.
0.27 26.2 At3g46560 823809 TIM9 Encodes a small zinc finger-like protein that is a component of the mitochondrial protein import apparatus. O.I. H.G. S.X.
0.21 15.8 At5g39600 833956 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PM O.I. H.G. S.X.
0.20 14.4 At5g64680 836589 unknown protein F:molecular_function unknown;P:biological_process unknown;C:nucleolus;MOPF O.I. H.G. S.X.
0.20 14.4 At3g18760 821407 ribosomal protein S6 family protein F:structural constituent of ribosome;P:translation;C:ribosome, intracellular;PM O.I. H.G. S.X.
0.17 10.2 At1g29250 839799 nucleic acid binding F:nucleic acid binding;P:biological_process unknown;C:plasma membrane, nucleus;PO O.I. H.G. S.X.
0.15 7.8 At5g15750 831431 RNA-binding S4 domain-containing protein F:RNA binding, rRNA binding;P:unknown;C:cytosolic small ribosomal subunit;MOFAP O.I. H.G. S.X.
0.13 5.8 At5g49510 835011 PDF3 (PREFOLDIN 3) F:unfolded protein binding;P:protein folding;C:prefoldin complex;MFOP O.I. H.G. S.X.
0.13 5.8 At4g30930 829217 NFD1 (NUCLEAR FUSION DEFECTIVE 1) Encodes a ribosomal RPL21M protein that is localized to the mitochondrion and is involved in karyogamy during female gametophyte development and fertilization. Mutants display defects in both male and female gametophyte development (i.e.collapsed pollen and female gametophytes with unfused central cells). O.I. H.G. S.X.
0.13 5.8 At3g57000 824867 nucleolar essential protein-related F:molecular_function unknown;P:unknown;C:nucleus;MOFAPBV O.I. H.G. S.X.
0.11 4.1 At3g46040 823747 RPS15AD (ribosomal protein S15A D) Regulated by TCP20. O.I. H.G. S.X.

VF	%ile	Gene ID	Repr. ID	Gene Name	Func.	O.I.	H.G.	S.X.
1.00	100.0	At3g07590	819950	small nuclear ribonucleoprotein D1, putative / snRNP core protein D1, putative / Sm protein D1, putative	F:molecular_function unknown;P:unknown;C:small nucleolar ribonucleoprotein complex, nucleus, plasma membrane;MFOPB	O.I.	H.G.	S.X.
0.46	59.8	At1g76300	843963	SmD3 (snRNP core protein SmD3)	F:molecular_function unknown;P:unknown;C:nuclear body, nucleolus, small nucleolar ribonucleoprotein complex, nucleus;MFOP	O.I.	H.G.	S.X.
0.41	52.4	At5g62290	836350	nucleotide-sensitive chloride conductance regulator (ICln) family protein	F:ion channel activity;P:cell volume homeostasis, chloride transport;C:cellular_component unknown;MPFO	O.I.	H.G.	S.X.
0.35	41.6	At3g05810	819750	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:mitochondrion;P	O.I.	H.G.	S.X.
0.35	41.6	At5g50810	835153	TIM8	Encodes a small zinc finger-like protein that is a component of the mitochondrial protein import apparatus.	O.I.	H.G.	S.X.
0.34	39.8	At2g19720	816491	rps15ab (ribosomal protein S15A B)	F:structural constituent of ribosome;P:translation;C:cytosolic small ribosomal subunit;BOMPAF	O.I.	H.G.	S.X.
0.33	38.1	At1g70350	843371	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:unknown;P	O.I.	H.G.	S.X.
0.32	35.7	At3g62840	825459	-	F:molecular_function unknown;P:unknown;C:small nucleolar ribonucleoprotein complex, nucleus;MFOPA	O.I.	H.G.	S.X.
0.31	33.8	At2g23930	816925	SNRNP-G (PROBABLE SMALL NUCLEAR RIBONUCLEOPROTEIN G)	F:molecular_function unknown;P:unknown;C:small nucleolar ribonucleoprotein complex, nucleus;MFOPA	O.I.	H.G.	S.X.
0.30	32.1	At5g56940	835796	ribosomal protein S16 family protein	F:structural constituent of ribosome;P:translation, ribosome biogenesis;C:ribosome, intracellular;BOPMF	O.I.	H.G.	S.X.
0.28	30.3	At4g30220	829145	RUXF (SMALL NUCLEAR RIBONUCLEOPROTEIN F)	F:molecular_function unknown;P:unknown;C:nucleolus, small nucleolar ribonucleoprotein complex, nucleus;AMFOP	O.I.	H.G.	S.X.
0.27	26.2	At3g46560	823809	TIM9	Encodes a small zinc finger-like protein that is a component of the mitochondrial protein import apparatus.	O.I.	H.G.	S.X.
0.21	15.8	At5g39600	833956	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PM	O.I.	H.G.	S.X.
0.20	14.4	At5g64680	836589	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:nucleolus;MOPF	O.I.	H.G.	S.X.
0.20	14.4	At3g18760	821407	ribosomal protein S6 family protein	F:structural constituent of ribosome;P:translation;C:ribosome, intracellular;PM	O.I.	H.G.	S.X.
0.17	10.2	At1g29250	839799	nucleic acid binding	F:nucleic acid binding;P:biological_process unknown;C:plasma membrane, nucleus;PO	O.I.	H.G.	S.X.
0.15	7.8	At5g15750	831431	RNA-binding S4 domain-containing protein	F:RNA binding, rRNA binding;P:unknown;C:cytosolic small ribosomal subunit;MOFAP	O.I.	H.G.	S.X.
0.13	5.8	At5g49510	835011	PDF3 (PREFOLDIN 3)	F:unfolded protein binding;P:protein folding;C:prefoldin complex;MFOP	O.I.	H.G.	S.X.
0.13	5.8	At4g30930	829217	NFD1 (NUCLEAR FUSION DEFECTIVE 1)	Encodes a ribosomal RPL21M protein that is localized to the mitochondrion and is involved in karyogamy during female gametophyte development and fertilization. Mutants display defects in both male and female gametophyte development (i.e.collapsed pollen and female gametophytes with unfused central cells).	O.I.	H.G.	S.X.
0.13	5.8	At3g57000	824867	nucleolar essential protein-related	F:molecular_function unknown;P:unknown;C:nucleus;MOFAPBV	O.I.	H.G.	S.X.
0.11	4.1	At3g46040	823747	RPS15AD (ribosomal protein S15A D)	Regulated by TCP20.	O.I.	H.G.	S.X.

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

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Gene ID	TaAffx.82753.2.S1_at
Gene name
Homology with Arabidopsis	Similar to At3g07590: small nuclear ribonucleoprotein D1, putative / snRNP core protein D1, putative / Sm protein D1, putative (HF=6e-1)
Module size	6 genes
NF	0.43
%ile	68.5

Co-expression analysis

Gene ID TaAffx.82753.2.S1_at Gene name Homology with ArabidopsisSimilar to At3g07590: small nuclear ribonucleoprotein D1, putative / snRNP core protein D1, putative / Sm protein D1, putative (HF=6e-1) Module size 6 genes NF 0.43 %ile 68.5

Co-expressed genes

Click More genes

Specific experiments for the module

Inter-species module comparison

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

Gene ID TaAffx.82753.2.S1_at

Gene name
Homology with Arabidopsis Similar to At3g07590: small nuclear ribonucleoprotein D1, putative / snRNP core protein D1, putative / Sm protein D1, putative (HF=6e-1)

Module size 6 genes

NF 0.43

%ile 68.5

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