Co-expression analysis

Gene ID At5g52200
Gene name unknown protein
Module size 41 genes
NF 0.22
%ile 21.0

Co-expression network

pink confeito: Transcription factor, green bicone: Binding protein, red cone: Enzyme protein, blue sphere: Other protein
large node: VF over 0.50, middle node: over 0.25, small node: 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
1.00100.01.00At5g52200835296unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFOPVO.I.H.G.S.X.
0.3133.80.91At1g14000837960VIK (VH1-INTERACTING KINASE)Encodes a protein with similarity to members of the C1 subgroup of MAP kinase kinase kinases. Interacts physically with the receptor kinase BRL2/VH1 and appears to be involved in auxin and brassinosteriod signaling.O.I.H.G.S.X.
0.3032.10.91At2g27490817294ATCOAEAT2G27490 encodes dephospho-CoA kinase. The molecular function was shown to phosphorylate the ribosyl moiety forming CoA.O.I.H.G.S.X.
0.2930.30.92At1g80950844435phospholipid/glycerol acyltransferase family proteinF:acyltransferase activity;P:metabolic process;C:endoplasmic reticulum, nucleus;BOMPFO.I.H.G.S.X.
0.2930.30.93At3g24350822024SYP32 (SYNTAXIN OF PLANTS 32)member of Glycoside Hydrolase Family 17O.I.H.G.S.X.
0.2930.30.91At3g27310822350PUX1 (PLANT UBX DOMAIN-CONTAINING PROTEIN 1)encodes a protein that contains a UBX domain and regulates AtCDC48 by inhibiting its ATPase activity and by promoting the disassembly of the active hexamer. Phenotypic analysis of pux1 plants revealed that the loss of PUX1 accelerated the growth of various plant organs including roots and inflorescence shoots. AtCDC48 and SYP31 colocalize at the division plane during cytokinesis and to interact in vitro and in vivo.O.I.H.G.S.X.
0.2930.30.91At1g21380838737VHS domain-containing protein / GAT domain-containing proteinF:protein transporter activity;P:intracellular protein transport, intra-Golgi vesicle-mediated transport;C:Golgi stack, intracellular;MFPOBO.I.H.G.S.X.
0.2930.30.92At5g40930834094TOM20-4 (TRANSLOCASE OF OUTER MEMBRANE 20-4)Form of TOM20, which is a component of the TOM complex involved in transport of nuclear-encoded mitochondrial proteinsO.I.H.G.S.X.
0.2726.20.91At3g05710819740SYP43 (SYNTAXIN OF PLANTS 43)member of SYP4 Gene FamilyO.I.H.G.S.X.
0.2624.40.92At3g03740821170ATBPM4 (BTB-POZ and MATH domain 4)F:protein binding;P:biological_process unknown;C:unknown;MPOFVO.I.H.G.S.X.
0.2624.40.92At1g78800844216glycosyl transferase family 1 proteinF:transferase activity, transferring glycosyl groups;P:biosynthetic process;C:cellular_component unknown;BOAPMFO.I.H.G.S.X.
0.2420.70.91At5g11030830970ALF4 (ABERRANT LATERAL ROOT FORMATION 4)alf4-1 prevents initiation of lateral roots. Cannot be rescued by IAA. Protein belongs to a plant-specific gene family and is localized to the nucleus.O.I.H.G.S.X.
0.2420.70.92At4g30480829171tetratricopeptide repeat (TPR)-containing proteinF:binding;P:unknown;C:cellular_component unknown;MOPFBAVO.I.H.G.S.X.
0.2420.70.91At3g51100824274unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.2420.70.92At5g50840835156-F:unknown;P:biological_process unknown;C:unknown;MOBFPAVO.I.H.G.S.X.
0.2319.30.91At2g45140819122PVA12 (PLANT VAP HOMOLOG 12)Encodes a Plant VAMP-Associated protein that localizes to the ER and binds to the sitosterol-binding protein ORP3a. The WFDE motif in ORP3a appears to be important for this direct interaction. Mutation of this motif causes ORP3a to relocalize to the Golgi and cytosol. The interaction between PVA12 and ORP3a does not appear to be sterol-dependent.O.I.H.G.S.X.
0.2319.30.91At1g16010838171magnesium transporter CorA-like family protein (MRS2-1)F:metal ion transmembrane transporter activity;P:metal ion transport;C:vacuole, membrane;PFOMBAO.I.H.G.S.X.
0.2319.30.93At5g08290830725YLS8Encodes Dim1 homolog.O.I.H.G.S.X.
0.2217.50.91At3g13200820510EMB2769 (EMBRYO DEFECTIVE 2769)F:molecular_function unknown;P:nuclear mRNA splicing, via spliceosome;C:spliceosome;MOFPBVAO.I.H.G.S.X.
0.2115.80.92At1g09920837524TRAF-type zinc finger-relatedF:zinc ion binding;P:biological_process unknown;C:cellular_component unknown;MOFPO.I.H.G.S.X.
0.2115.80.91At4g00170828017vesicle-associated membrane family protein / VAMP family proteinF:structural molecule activity;P:biological_process unknown;C:cellular_component unknown;MPFOO.I.H.G.S.X.
0.2115.80.91At2g17190816224ubiquitin family proteinF:molecular_function unknown;P:protein modification process;C:unknown;MOPFBVAO.I.H.G.S.X.
0.2014.40.91At1g69960843333PP2A (SERINE/THREONINE PROTEIN PHOSPHATASE 2A)type 2A serine/threonine protein phosphatase (PP2A) mRNA,O.I.H.G.S.X.
0.2014.40.91At3g19950821533zinc finger (C3HC4-type RING finger) family proteinF:protein binding, zinc ion binding;P:unknown;C:unknown;PMOFVBO.I.H.G.S.X.
0.2014.40.92At3g01150821129PTB1 (POLYPYRIMIDINE TRACT-BINDING PROTEIN 1)Encodes one of the two polypyrimidine tract-binding (PTB) protein homologs in the Arabidopsis genome. Double mutants have defects in pollen germination.O.I.H.G.S.X.
0.2014.40.91At5g52210835297ATGB1 (ARABIDOPSIS THALIANA GTP-BINDING PROTEIN 1)A member of ARF-like GTPase family. A thaliana has 21 members, in two subfamilies, ARF and ARF-like (ARL) GTPases.O.I.H.G.S.X.
0.2014.40.91At1g17730838349VPS46.1 (VACUOLAR PROTEIN SORTING 46.1)F:unknown;P:vesicle-mediated transport;C:cellular_component unknown;MPFOAO.I.H.G.S.X.
0.1912.70.92At5g50870835159UBC27 (ubiquitin-conjugating enzyme 27)F:ubiquitin-protein ligase activity;P:ubiquitin-dependent protein catabolic process;C:cellular_component unknown;MFOPVO.I.H.G.S.X.
0.1811.40.91At2g27600817306SKD1 (SUPPRESSOR OF K+ TRANSPORT GROWTH DEFECT1)Encodes a SKD1 (Suppressor of K+ Transport Growth Defect1) homolog. Localized to the cytoplasm and to multivesicular endosomes. Involved in multivesicular endosome function.O.I.H.G.S.X.
0.1811.40.91At3g25800822171PP2AA2 (PROTEIN PHOSPHATASE 2A SUBUNIT A2)one of three genes encoding the protein phosphatase 2A regulatory subunitO.I.H.G.S.X.
0.1811.40.91At3g04780819638-Encodes a protein with little sequence identity with any other protein of known structure or function. Part of this protein shows a 42% sequence identity with the C-terminal domain of the 32-kD human thioredoxin-like protein.O.I.H.G.S.X.
0.1710.20.91At3g05530819718RPT5A (REGULATORY PARTICLE TRIPLE-A ATPASE 5A)Encodes RPT5a (Regulatory Particle 5a), one of the six AAA-ATPases of the proteasome regulatory particle. Essential for gametophyte development. In Arabidopsis, the RPT5 subunit is encoded by two highly homologous genes, RPT5a and RPT5b. RPT5a and RPT5b show accession-dependent functional redundancy. In Wassilewskija (Ws) accession: mutant alleles of RPT5a displayed 50% pollen lethality, indicating that RPT5a is essential for male gametophyte development. In the Columbia (Col) accession, a rpt5a mutant allele did not display such a phenotype because the RPT5b Col allele complements the rpt5a defect in the male gametophyte, whereas the RPT5b Ws allele does not. Double rpt5a rpt5b mutants in Col background showed a complete male and female gametophyte lethal phenotype.O.I.H.G.S.X. EF hand family proteinF:calcium ion binding;P:N-terminal protein myristoylation;C:vacuole;MPOFBO.I.H.G.S.X. (CULLIN4)Arabidopsis CULLIN4 (CUL4) forms an E3 ubiquitin ligase with the CDD complex and a common catalytic subunit RBX1 in mediating light control of development. This CUL4-based E3 ligase is essential for the repression of photomorphogenesis. The partial loss of CUL4 function resulted in a constitutive photomorphogenic phenotype with respect to morphogenesis and light-regulated gene expression. CUL4 exhibits a synergistic genetic interaction with COP10 and DET1.O.I.H.G.S.X. protein-relatedF:molecular_function unknown;P:biological_process unknown;C:endomembrane system;BOMFPO.I.H.G.S.X. oxidoreductase, putativeF:oxidoreductase activity, acting on NADH or NADPH, NAD or NADP as acceptor, malic enzyme activity, ATP binding;P:oxidation reduction, malate metabolic process, metabolic process;C:mitochondrion, chloroplast;BOMPFAO.I.H.G.S.X. (F-BOX PROTEIN 2)Encodes an F-box containing protein that interacts physically with BHLH32 and appears to be involved in mediating phosphate starvation responses.O.I.H.G.S.X. unknown;P:biological_process unknown;C:cellular_component unknown;MFOPVO.I.H.G.S.X. ATPase, putativeF:ATP binding;P:cellular metal ion homeostasis, anion transport;C:membrane;BOMAFPO.I.H.G.S.X. protein particle (TRAPP) component Bet3 family proteinF:molecular_function unknown;P:ER to Golgi vesicle-mediated transport;C:cellular_component unknown;MFOPO.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
53.699.8GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
40.799.8GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
37.899.8GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
37.499.7GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
37.399.7GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
35.999.7GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
35.199.7GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
33.799.7GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
33.699.7GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
33.299.7GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
32.299.7GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
32.299.7GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
31.899.7GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
31.699.7GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
31.599.7GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
30.899.7GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
29.999.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
28.499.7GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
27.999.7GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
27.899.7GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
24.999.6GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
24.899.6GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
24.499.6GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
23.599.6GSM133776Lindsey_1-1_globular-apical_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
22.999.6GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
22.799.6GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
20.699.6GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
16.499.5GSM284394Arabidopsis GCE3GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
15.299.4GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
13.599.4GSM311291Laser capture microdissected (LCM) chalazal endosperm at the linear-cotyledon stage, biological replicate 1GSE12403Expression data from Arabidopsis seed compartments at the linear-cotyledon stageLink to GEO
13.499.4GSM311292Laser capture microdissected (LCM) chalazal endosperm at the linear-cotyledon stage, biological replicate 2GSE12403Expression data from Arabidopsis seed compartments at the linear-cotyledon stageLink to GEO
12.999.3GSM284389Arabidopsis GMPE2GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
10.599.2GSM133766Lindsey_1-18_torpedo-root_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
10.499.2GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
8.799.0GSM131704ATGE_83_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0562GO:0006944The joining of two lipid bilayers to form a single membrane.Link to AmiGO
0.0481GO:0000209Addition of multiple ubiquitin moieties to a protein, forming a ubiquitin chain.Link to AmiGO
0.0481GO:0043241The disaggregation of a protein complex into its constituent components. Protein complexes may have other associated non-protein prosthetic groups, such as nucleic acids, metal ions or carbohydrate groups.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.045204130SNARE interactions in vesicular transportLink to KEGG PATHWAY
0.038204144EndocytosisLink to KEGG PATHWAY
0.036100770Pantothenate and CoA biosynthesisLink to KEGG PATHWAY

Inter-species module comparison

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

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