CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID 1611210_at

Gene name
Homology with Arabidopsis Similar to At5g09250: KIWI (HF=3e-1)

Module size 6 genes

NF 0.02

%ile 4.5

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
0.91 98.8 0.77 1611210_at CD009361 - - 3e-1 At5g09250 KIWI O.I. H.G. S.X.
0.03 4.2 0.94 1617607_at CB918932 - - 3e-2 At4g17090 CT-BMY (CHLOROPLAST BETA-AMYLASE) O.I. H.G. S.X.
0.02 3.2 0.96 1612117_at CF212666 hypothetical protein LOC100258476 - 2e-33 At1g01650 aspartic-type endopeptidase/ peptidase O.I. H.G. S.X.
0.01 2.1 0.96 1607928_at CF201793.1 - - 5e-3 At4g08230 glycine-rich protein O.I. H.G. S.X.
0.01 2.1 0.95 1615235_at CD717990 hypothetical protein LOC100262830 - 1e-16 At3g43240 ARID/BRIGHT DNA-binding domain-containing protein O.I. H.G. S.X.
0.01 2.1 0.96 1619711_at CF211123 hypothetical protein LOC100248740 - 3e-1 At3g48940 remorin family 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.
0.91	98.8	0.77	1611210_at	CD009361	-	-	3e-1	At5g09250	KIWI	O.I.	H.G.	S.X.
0.03	4.2	0.94	1617607_at	CB918932	-	-	3e-2	At4g17090	CT-BMY (CHLOROPLAST BETA-AMYLASE)	O.I.	H.G.	S.X.
0.02	3.2	0.96	1612117_at	CF212666	hypothetical protein LOC100258476	-	2e-33	At1g01650	aspartic-type endopeptidase/ peptidase	O.I.	H.G.	S.X.
0.01	2.1	0.96	1607928_at	CF201793.1	-	-	5e-3	At4g08230	glycine-rich protein	O.I.	H.G.	S.X.
0.01	2.1	0.95	1615235_at	CD717990	hypothetical protein LOC100262830	-	1e-16	At3g43240	ARID/BRIGHT DNA-binding domain-containing protein	O.I.	H.G.	S.X.
0.01	2.1	0.96	1619711_at	CF211123	hypothetical protein LOC100248740	-	3e-1	At3g48940	remorin family 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
8.2 99.4 GSM299457 C_i_rep2 GSE11857 Gene expression patterns associated with grapevine resistance to downy mildew mediated by the Rpv1 and Rpv2 genes
6.6 98.9 GSM299456 C_i_rep1 GSE11857 Gene expression patterns associated with grapevine resistance to downy mildew mediated by the Rpv1 and Rpv2 genes
4.7 97.7 GSM299453 B_i_rep1 GSE11857 Gene expression patterns associated with grapevine resistance to downy mildew mediated by the Rpv1 and Rpv2 genes
4.3 97.2 GSM299454 B_i_rep2 GSE11857 Gene expression patterns associated with grapevine resistance to downy mildew mediated by the Rpv1 and Rpv2 genes
3.4 95.5 GSM322369 genotype: Incrocio Manzoni - disease type: Healthy - rep1 GSE12842 Gene expression in grapevine in response to Bois noir infection
3.2 94.9 GSM147690 Vitis vinifera 'Cabernet sauvignon' mock inoculated at 0 h post inoculation 19
3.0 94.2 GSM436423 V. riparia (VR, PI588259) SD, 13h 21 days - rep3 GSE17502 Photoperiod regulation of grape bud dormancy
2.6 92.5 GSM436367 Seyval (SV, Seyve Villard 5-276) SD, 13h 1 days - rep1 GSE17502 Photoperiod regulation of grape bud dormancy
2.3 90.7 GSM299451 B_ni_rep1 GSE11857 Gene expression patterns associated with grapevine resistance to downy mildew mediated by the Rpv1 and Rpv2 genes
2.3 90.7 GSM147675 Vitis vinifera 'Cabernet sauvignon' infected w/ powdery mildew (Erysiphe necator) conidiospores 12 h post inoculation 4

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
8.2	99.4	GSM299457	C_i_rep2	GSE11857	Gene expression patterns associated with grapevine resistance to downy mildew mediated by the Rpv1 and Rpv2 genes
6.6	98.9	GSM299456	C_i_rep1	GSE11857	Gene expression patterns associated with grapevine resistance to downy mildew mediated by the Rpv1 and Rpv2 genes
4.7	97.7	GSM299453	B_i_rep1	GSE11857	Gene expression patterns associated with grapevine resistance to downy mildew mediated by the Rpv1 and Rpv2 genes
4.3	97.2	GSM299454	B_i_rep2	GSE11857	Gene expression patterns associated with grapevine resistance to downy mildew mediated by the Rpv1 and Rpv2 genes
3.4	95.5	GSM322369	genotype: Incrocio Manzoni - disease type: Healthy - rep1	GSE12842	Gene expression in grapevine in response to Bois noir infection
3.2	94.9	GSM147690	Vitis vinifera 'Cabernet sauvignon' mock inoculated at 0 h post inoculation	19
3.0	94.2	GSM436423	V. riparia (VR, PI588259) SD, 13h 21 days - rep3	GSE17502	Photoperiod regulation of grape bud dormancy
2.6	92.5	GSM436367	Seyval (SV, Seyve Villard 5-276) SD, 13h 1 days - rep1	GSE17502	Photoperiod regulation of grape bud dormancy
2.3	90.7	GSM299451	B_ni_rep1	GSE11857	Gene expression patterns associated with grapevine resistance to downy mildew mediated by the Rpv1 and Rpv2 genes
2.3	90.7	GSM147675	Vitis vinifera 'Cabernet sauvignon' infected w/ powdery mildew (Erysiphe necator) conidiospores 12 h post inoculation	4

Inter-species module comparison

A co-expression module including the Arabidopsis gene, At5g09250, orthologous to the query gene, 1611210_at

VF %ile Gene ID Repr. ID Gene Name Func. O.I. H.G. S.X. Other DB
0.58 73.8 At5g09250 830784 KIWI putative transcriptional co-activator (KIWI) mRNA, complete O.I. H.G. S.X.
0.55 70.6 At3g03110 821074 XPO1B Encodes a member of the exportin family (XPO1B)which function as receptors for nuclear transport.Along with XPO1A involved in the development of male and female gametophytes. O.I. H.G. S.X.
0.49 63.5 At3g12530 820432 PSF2 F:molecular_function unknown;P:DNA replication;C:nucleus;MFOP O.I. H.G. S.X.
0.49 63.5 At1g71350 843476 eukaryotic translation initiation factor SUI1 family protein F:RNA binding, translation initiation factor activity;P:translational initiation;C:unknown;MFOPA O.I. H.G. S.X.
0.48 62.5 At1g03110 839572 transducin family protein / WD-40 repeat family protein F:nucleotide binding;P:biological_process unknown;C:cellular_component unknown;MBFOPA O.I. H.G. S.X.
0.47 61.2 At1g04230 839575 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFOPBV O.I. H.G. S.X.
0.47 61.2 At4g11560 826760 bromo-adjacent homology (BAH) domain-containing protein F:DNA binding;P:transcription;C:cellular_component unknown;MOFPVBA O.I. H.G. S.X.
0.46 59.8 At4g31400 829267 DNA-directed DNA polymerase/ damaged DNA binding F:damaged DNA binding, DNA-directed DNA polymerase activity;P:DNA repair;C:unknown;MFPOB O.I. H.G. S.X.
0.46 59.8 At5g18420 831960 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOP O.I. H.G. S.X.
0.46 59.8 At5g65000 836624 nucleotide-sugar transporter family protein F:nucleotide-sugar transmembrane transporter activity, sugar:hydrogen symporter activity;P:carbohydrate transport, nucleotide-sugar transport;C:integral to membrane, Golgi membrane;MPOFAB O.I. H.G. S.X.
0.46 59.8 At1g07210 837232 30S ribosomal protein S18 family F:structural constituent of ribosome;P:translation;C:ribosome, intracellular;BOPMF O.I. H.G. S.X.
0.45 58.3 At1g63160 842620 replication factor C 40 kDa, putative F:in 6 functions;P:DNA replication;C:DNA replication factor C complex;BOMFAPV O.I. H.G. S.X.
0.44 57.2 At5g55300 835623 TOP1ALPHA (DNA TOPOISOMERASE I ALPHA) Encodes a type-I DNA topoisomerase I. Disruptions in this gene affect phyllotaxis and plant architecture suggesting that the gene plays a critical role in the maintenance of a regular pattern of organ initiation. Isolated as a protein oxidized during seed germination; proteomics approach revealed differences in de novo synthesis levels of this protein in condition with vs. without salicylic acid in the period from 0 to 40 hrs. following seed imbibition. O.I. H.G. S.X.
0.44 57.2 At1g04790 839412 zinc finger (C3HC4-type RING finger) family protein F:protein binding, zinc ion binding;P:unknown;C:unknown;PMOFV O.I. H.G. S.X.
0.44 57.2 At3g02920 821187 replication protein-related F:nucleic acid binding;P:biological_process unknown;C:unknown;MFPO O.I. H.G. S.X.
0.43 55.3 At1g47570 841166 zinc finger (C3HC4-type RING finger) family protein F:protein binding, zinc ion binding;P:unknown;C:unknown;MOFPV O.I. H.G. S.X.
0.41 52.4 At2g30350 817585 endo/excinuclease amino terminal domain-containing protein F:nuclease activity;P:DNA repair;C:intracellular;MOFPBV O.I. H.G. S.X.
0.40 50.8 At3g24200 822006 FAD binding / monooxygenase/ oxidoreductase/ oxidoreductase, acting on paired donors, with incorporation or reduction of molecular oxygen, NADH or NADPH as one donor, and incorporation of one atom of oxygen F:oxidoreductase activity, monooxygenase activity, FAD binding, oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NADH or NADPH as one donor, and incorporation of one atom of oxygen;P:ubiquinone biosynthetic process, metabolic process;C:unknown;BOFMPA O.I. H.G. S.X.
0.37 45.0 At5g66010 836731 RNA binding / nucleic acid binding / nucleotide binding F:RNA binding, nucleotide binding, nucleic acid binding;P:biological_process unknown;C:cellular_component unknown;MOPF O.I. H.G. S.X.
0.37 45.0 At3g54380 824604 SAC3/GANP family protein F:molecular_function unknown;P:biological_process unknown;C:unknown;MFPO O.I. H.G. S.X.
0.36 43.6 At4g17060 827414 unknown protein Encodes one of the FRI interacting proteins: FRIGIDA INTERACTING PROTEIN 1 (FIP1)/At2g06005, FIP2/ At4g17060. FRI (At4G00650) is a major determinant of natural variation in Arabidopsis flowering time. O.I. H.G. S.X.
0.34 39.8 At1g71800 843510 cleavage stimulation factor, putative F:protein binding, RNA binding;P:biological_process unknown;C:cellular_component unknown;MPFOBA O.I. H.G. S.X.
0.33 38.1 At4g16100 827296 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO O.I. H.G. S.X.
0.31 33.8 At1g77180 844055 chromatin protein family Encodes a protein with a putative role in mRNA splicing. O.I. H.G. S.X.
0.31 33.8 At1g10230 837562 ASK18 (ARABIDOPSIS SKP1-LIKE 18) F:ubiquitin-protein ligase activity, protein binding;P:ubiquitin-dependent protein catabolic process;C:unknown;MPOFV O.I. H.G. S.X.
0.30 32.1 At5g04110 830289 DNA topoisomerase II family protein F:DNA topoisomerase (ATP-hydrolyzing) activity, DNA binding, ATP binding;P:DNA topological change, DNA metabolic process;C:chromosome;BOPMAFV O.I. H.G. S.X.
0.29 30.3 At5g49010 834960 SLD5 (SYNTHETIC LETHALITY WITH DPB11-1 5) Similar to the SLD5 component of GINS complex, which in other organism was shown to be involved in the initiation of DNA replication. O.I. H.G. S.X.
0.26 24.4 At4g33140 829451 unknown protein F:unknown;P:unknown;C:unknown;OBPFV O.I. H.G. S.X.
0.24 20.7 At2g30530 817602 unknown protein F:unknown;P:unknown;C:cellular_component unknown;OMFPBV O.I. H.G. S.X.
0.23 19.3 At1g78650 844201 POLD3 Similar to DNA polymerase delta (POLD3), which in other organism was shown to be involved in the elongation of DNA replication. O.I. H.G. S.X.
0.23 19.3 At1g59890 842283 SNL5 (SIN3-LIKE 5) F:molecular_function unknown;P:regulation of transcription, DNA-dependent;C:nucleus;MFPOB O.I. H.G. S.X.

VF	%ile	Gene ID	Repr. ID	Gene Name	Func.	O.I.	H.G.	S.X.
0.58	73.8	At5g09250	830784	KIWI	putative transcriptional co-activator (KIWI) mRNA, complete	O.I.	H.G.	S.X.
0.55	70.6	At3g03110	821074	XPO1B	Encodes a member of the exportin family (XPO1B)which function as receptors for nuclear transport.Along with XPO1A involved in the development of male and female gametophytes.	O.I.	H.G.	S.X.
0.49	63.5	At3g12530	820432	PSF2	F:molecular_function unknown;P:DNA replication;C:nucleus;MFOP	O.I.	H.G.	S.X.
0.49	63.5	At1g71350	843476	eukaryotic translation initiation factor SUI1 family protein	F:RNA binding, translation initiation factor activity;P:translational initiation;C:unknown;MFOPA	O.I.	H.G.	S.X.
0.48	62.5	At1g03110	839572	transducin family protein / WD-40 repeat family protein	F:nucleotide binding;P:biological_process unknown;C:cellular_component unknown;MBFOPA	O.I.	H.G.	S.X.
0.47	61.2	At1g04230	839575	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFOPBV	O.I.	H.G.	S.X.
0.47	61.2	At4g11560	826760	bromo-adjacent homology (BAH) domain-containing protein	F:DNA binding;P:transcription;C:cellular_component unknown;MOFPVBA	O.I.	H.G.	S.X.
0.46	59.8	At4g31400	829267	DNA-directed DNA polymerase/ damaged DNA binding	F:damaged DNA binding, DNA-directed DNA polymerase activity;P:DNA repair;C:unknown;MFPOB	O.I.	H.G.	S.X.
0.46	59.8	At5g18420	831960	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOP	O.I.	H.G.	S.X.
0.46	59.8	At5g65000	836624	nucleotide-sugar transporter family protein	F:nucleotide-sugar transmembrane transporter activity, sugar:hydrogen symporter activity;P:carbohydrate transport, nucleotide-sugar transport;C:integral to membrane, Golgi membrane;MPOFAB	O.I.	H.G.	S.X.
0.46	59.8	At1g07210	837232	30S ribosomal protein S18 family	F:structural constituent of ribosome;P:translation;C:ribosome, intracellular;BOPMF	O.I.	H.G.	S.X.
0.45	58.3	At1g63160	842620	replication factor C 40 kDa, putative	F:in 6 functions;P:DNA replication;C:DNA replication factor C complex;BOMFAPV	O.I.	H.G.	S.X.
0.44	57.2	At5g55300	835623	TOP1ALPHA (DNA TOPOISOMERASE I ALPHA)	Encodes a type-I DNA topoisomerase I. Disruptions in this gene affect phyllotaxis and plant architecture suggesting that the gene plays a critical role in the maintenance of a regular pattern of organ initiation. Isolated as a protein oxidized during seed germination; proteomics approach revealed differences in de novo synthesis levels of this protein in condition with vs. without salicylic acid in the period from 0 to 40 hrs. following seed imbibition.	O.I.	H.G.	S.X.
0.44	57.2	At1g04790	839412	zinc finger (C3HC4-type RING finger) family protein	F:protein binding, zinc ion binding;P:unknown;C:unknown;PMOFV	O.I.	H.G.	S.X.
0.44	57.2	At3g02920	821187	replication protein-related	F:nucleic acid binding;P:biological_process unknown;C:unknown;MFPO	O.I.	H.G.	S.X.
0.43	55.3	At1g47570	841166	zinc finger (C3HC4-type RING finger) family protein	F:protein binding, zinc ion binding;P:unknown;C:unknown;MOFPV	O.I.	H.G.	S.X.
0.41	52.4	At2g30350	817585	endo/excinuclease amino terminal domain-containing protein	F:nuclease activity;P:DNA repair;C:intracellular;MOFPBV	O.I.	H.G.	S.X.
0.40	50.8	At3g24200	822006	FAD binding / monooxygenase/ oxidoreductase/ oxidoreductase, acting on paired donors, with incorporation or reduction of molecular oxygen, NADH or NADPH as one donor, and incorporation of one atom of oxygen	F:oxidoreductase activity, monooxygenase activity, FAD binding, oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NADH or NADPH as one donor, and incorporation of one atom of oxygen;P:ubiquinone biosynthetic process, metabolic process;C:unknown;BOFMPA	O.I.	H.G.	S.X.
0.37	45.0	At5g66010	836731	RNA binding / nucleic acid binding / nucleotide binding	F:RNA binding, nucleotide binding, nucleic acid binding;P:biological_process unknown;C:cellular_component unknown;MOPF	O.I.	H.G.	S.X.
0.37	45.0	At3g54380	824604	SAC3/GANP family protein	F:molecular_function unknown;P:biological_process unknown;C:unknown;MFPO	O.I.	H.G.	S.X.
0.36	43.6	At4g17060	827414	unknown protein	Encodes one of the FRI interacting proteins: FRIGIDA INTERACTING PROTEIN 1 (FIP1)/At2g06005, FIP2/ At4g17060. FRI (At4G00650) is a major determinant of natural variation in Arabidopsis flowering time.	O.I.	H.G.	S.X.
0.34	39.8	At1g71800	843510	cleavage stimulation factor, putative	F:protein binding, RNA binding;P:biological_process unknown;C:cellular_component unknown;MPFOBA	O.I.	H.G.	S.X.
0.33	38.1	At4g16100	827296	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO	O.I.	H.G.	S.X.
0.31	33.8	At1g77180	844055	chromatin protein family	Encodes a protein with a putative role in mRNA splicing.	O.I.	H.G.	S.X.
0.31	33.8	At1g10230	837562	ASK18 (ARABIDOPSIS SKP1-LIKE 18)	F:ubiquitin-protein ligase activity, protein binding;P:ubiquitin-dependent protein catabolic process;C:unknown;MPOFV	O.I.	H.G.	S.X.
0.30	32.1	At5g04110	830289	DNA topoisomerase II family protein	F:DNA topoisomerase (ATP-hydrolyzing) activity, DNA binding, ATP binding;P:DNA topological change, DNA metabolic process;C:chromosome;BOPMAFV	O.I.	H.G.	S.X.
0.29	30.3	At5g49010	834960	SLD5 (SYNTHETIC LETHALITY WITH DPB11-1 5)	Similar to the SLD5 component of GINS complex, which in other organism was shown to be involved in the initiation of DNA replication.	O.I.	H.G.	S.X.
0.26	24.4	At4g33140	829451	unknown protein	F:unknown;P:unknown;C:unknown;OBPFV	O.I.	H.G.	S.X.
0.24	20.7	At2g30530	817602	unknown protein	F:unknown;P:unknown;C:cellular_component unknown;OMFPBV	O.I.	H.G.	S.X.
0.23	19.3	At1g78650	844201	POLD3	Similar to DNA polymerase delta (POLD3), which in other organism was shown to be involved in the elongation of DNA replication.	O.I.	H.G.	S.X.
0.23	19.3	At1g59890	842283	SNL5 (SIN3-LIKE 5)	F:molecular_function unknown;P:regulation of transcription, DNA-dependent;C:nucleus;MFPOB	O.I.	H.G.	S.X.

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

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Gene ID	1611210_at
Gene name
Homology with Arabidopsis	Similar to At5g09250: KIWI (HF=3e-1)
Module size	6 genes
NF	0.02
%ile	4.5

Co-expression analysis

Gene ID 1611210_at Gene name Homology with ArabidopsisSimilar to At5g09250: KIWI (HF=3e-1) Module size 6 genes NF 0.02 %ile 4.5

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_trichocarpaTriticum_aestivumZea_mays

Gene ID 1611210_at

Gene name
Homology with Arabidopsis Similar to At5g09250: KIWI (HF=3e-1)

Module size 6 genes

NF 0.02

%ile 4.5

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