Co-expression analysis

Gene ID At3g60520
Gene name unknown protein
Module size 43 genes
NF 0.26
%ile 28.1



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
1.00100.01.00At3g60520825223unknown proteinF:unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.5368.60.85At1g31940840084unknown proteinF:unknown;P:unknown;C:plasma membrane;PO.I.H.G.S.X.
0.4659.80.83At1g69640843300SBH1 (SPHINGOID BASE HYDROXYLASE 1)Encodes one of the two redundant sphingoid base hydroxylases (SBH). Involved in sphingolipid trihydroxy long-chain base (4-hydroxysphinganine) biosynthesis. Double mutants of SBHs were dwarfed and not able to progress from vegetative to reproductive growth.O.I.H.G.S.X.
0.4659.80.84At3g57090824876BIGYINEncodes a protein with similarity to yeast FIS proteins. These membrane anchored proteins bind DRP proteins and function during organelle division. FIS1B is expressed ubiquitously and appears to be involved in peroxisome division.O.I.H.G.S.X.
0.4659.80.83At4g22260828321IM (IMMUTANS)Similar to mitochondrial alternative oxidase. im mutants have a variegated phenotype and fail to differentiate chloroplasts in the majority of their cells under high light intensity continuous illumination. The white tissues of immutans accumulate phytoene, a non-colored C40 carotenoid intermediate. This suggests that immutans controls, either directly or indirectly, the activity of phytoene desaturase (PDS), the enzyme that converts phytoene to zeta-carotene in higher plants. However, im is not the structural gene for PDS. It is located in the lumenar face of the thylakoid membrane. IM is expressed ubiquitously in plant tissues.O.I.H.G.S.X.
0.4152.40.83At4g37470829902hydrolase, alpha/beta fold family proteinF:hydrolase activity;P:catechol catabolic process, ortho-cleavage, protocatechuate catabolic process, ortho-cleavage;C:cellular_component unknown;BOPMFAVO.I.H.G.S.X.
0.4050.80.83At3g63420825517AGG1 (Arabidopsis Ggamma-subunit 1)heterotrimeric G protein gamma-subunit (AGG1) mRNA,O.I.H.G.S.X.
0.4050.80.83At5g07910830685leucine-rich repeat family proteinF:protein binding;P:N-terminal protein myristoylation;C:plasma membrane;MPBOFAO.I.H.G.S.X.
0.3948.40.82At5g53330835414-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMFO.I.H.G.S.X.
0.3846.70.83At5g04830830362unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PFMBOO.I.H.G.S.X.
0.3745.00.83At5g04260830305WCRKC2 (WCRKC THIOREDOXIN 2)Encodes a thioredoxin (WCRKC2) localized in chloroplast stroma. Contains a WCRKC motif.O.I.H.G.S.X.
0.3643.60.83At3g01170820469structural constituent of ribosomeF:structural constituent of ribosome;P:translation;C:ribosome, intracellular, chloroplast;PO.I.H.G.S.X.
0.3541.60.85At1g73030843634VPS46.2F:unknown;P:vesicle-mediated transport;C:cellular_component unknown;MPFOO.I.H.G.S.X.
0.3133.80.85At5g54760835566eukaryotic translation initiation factor SUI1, putativeF:translation initiation factor activity;P:translational initiation, translation;C:cellular_component unknown;MPFOAVBO.I.H.G.S.X.
0.3133.80.82At1g22750838881unknown proteinF:molecular_function unknown;P:biological_process unknown;C:vacuole;OPBMO.I.H.G.S.X.
0.2930.30.83At1g23490838957ATARF1 (ADP-RIBOSYLATION FACTOR 1)Gene encoding ADP-ribosylation factor and similar to other ARFs and ARF-like proteins. A member of ARF GTPase family. Arabidopsis has 21 known members, known to be essential for vesicle coating and uncoating and functions in GTP-binding. The gene is shown to play a role in cell division, cell expansion and cellulose production using antisense construct.O.I.H.G.S.X.
0.2930.30.83At3g62560825430GTP-binding protein, putativeF:GTP binding;P:intracellular protein transport;C:endomembrane system, intracellular;MOFPBAO.I.H.G.S.X.
0.2830.30.85At4g04210825736PUX4Arabidopsis thaliana CDC48-interacting UBX-domain protein (PUX4)O.I.H.G.S.X.
0.2726.20.82At3g23600821939dienelactone hydrolase family proteinF:hydrolase activity;P:response to salt stress;C:apoplast, nucleus, plasma membrane, cytoplasm;FBPMOAO.I.H.G.S.X.
0.2726.20.82At4g17310827444unknown proteinF:unknown;P:unknown;C:chloroplast;PO.I.H.G.S.X.
0.2726.20.82At3g29350822593AHP2 (HISTIDINE-CONTAINING PHOSPHOTRANSMITTER 2)Encodes AHP2, one of the six Arabidopsis thaliana histidine phosphotransfer proteins (AHPs). AHPs function in His-to-Asp phosphorelay signal transduction and as redundant positive regulators of cytokinin signaling. Members of the AHP gene family include: AT3G21510 (AHP1), AT3G29350 (AHP2), AT5G39340 (AHP3), AT3G16360 (AHP4), AT1G03430 (AHP5) and AT1G80100 (AHP6).O.I.H.G.S.X.
0.2624.40.83At2g44310819039calcium-binding EF hand family proteinF:calcium ion binding;P:biological_process unknown;C:cellular_component unknown;POMO.I.H.G.S.X.
0.2522.60.83At3g55830824749EPC1 (ECTOPICALLY PARTING CELLS)A member of the Glycosyltransferase Family 64, homologous to Poplar cambium-expressed GT64 gene. The EPC1 protein plays a critical role during plant development in maintaining the integrity of organs via cell-cell adhesion, thereby providing mechanical strength and facilitating the movement of metabolites throughout the plant.O.I.H.G.S.X.
0.2420.70.83At3g46000823743ADF2 (ACTIN DEPOLYMERIZING FACTOR 2)Encodes depolymerizing factor 2.O.I.H.G.S.X.
0.2319.30.83At1g15860838156-F:unknown;P:biological_process unknown;C:unknown;MFPOO.I.H.G.S.X.
0.2319.30.83At5g21090832233leucine-rich repeat protein, putativeF:protein binding;P:signal transduction;C:endomembrane system;PMOBFAO.I.H.G.S.X.
0.2319.30.82At1g27930839686unknown proteinF:molecular_function unknown;P:biological_process unknown;C:endomembrane system;POBO.I.H.G.S.X.
0.2217.50.83At5g53530835435VPS26A (VACUOLAR PROTEIN SORTING 26A)Homolog of yeast retromer subunit VPS26. Part of a retromer-like protein complex involved in endosome to lysosome protein transport.O.I.H.G.S.X.
0.2115.80.84At1g10500837590ATCPISCA (chloroplast-localized IscA-like protein)Involved in chloroplast Fe-S cluster assembly. Located in the chloroplast stroma. Expressed preferentially in green tissues.O.I.H.G.S.X.
0.2115.80.82At1g70490843385ARFA1DA member of ARF GTPase family. A thaliana has 21 members of this family, known to be essential for vesicle coating and uncoating and functions in GTP-binding. Gene encoding ADP-ribosylation factor and similar to other ARFs and ARF-like proteins. The gene is shown to play a role in cell division, cell expansion and cellulose production using antisense construct.O.I.H.G.S.X.
0.1912.70.83At5g54540835542-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PBMO.I.H.G.S.X.
0.1912.70.83At5g14680831320universal stress protein (USP) family proteinF:molecular_function unknown;P:response to stress;C:cellular_component unknown;BPAMOFO.I.H.G.S.X.
0.1912.70.83At4g02080827368ATSAR2 (ARABIDOPSIS THALIANA SECRETION-ASSOCIATED RAS SUPER FAMILY 2)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.
0.1811.40.83At5g08320830728unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOPO.I.H.G.S.X.
0.1710.20.83At1g01230839331ORMDL family proteinF:molecular_function unknown;P:protein folding;C:integral to membrane, endoplasmic reticulum;MFPOO.I.H.G.S.X.
0.1710.20.83At1g03250838557unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPOO.I.H.G.S.X.
0.1710.20.83At1g75370843873SEC14 cytosolic factor, putative / phosphatidylinositol transfer-like protein, putativeF:transporter activity;P:transport;C:plasma membrane;MPFOO.I.H.G.S.X.
0.1710.20.83At3g13410820541unknown proteinF:molecular_function unknown;P:biological_process unknown;C:endoplasmic reticulum;PO.I.H.G.S.X.
0.168.80.83At5g52880835365F-box family proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPFOO.I.H.G.S.X.
0.157.80.84At1g50170841439ATSIRB (ARABIDOPSIS THALIANA SIROHYDROCHLORIN FERROCHELATASE B)encodes sirohydrochlorin ferrochelatase catalyzing the last step of the siroheme biosynthesisO.I.H.G.S.X.
0.103.40.82At1g28140839708unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;BPMOO.I.H.G.S.X.
0.103.40.82At5g49940835057NFU2 (NIFU-LIKE PROTEIN 2)Encodes a protein containing the NFU domain and functions as a molecular scaffold for iron-sulfur cluster assembly and delivery. Homologous to the cyanobacterial CNFU protein and is targeted to the chloroplast.O.I.H.G.S.X.
0.082.30.83At4g05000825842VPS28-2F:transporter activity;P:transport;C:ESCRT I complex;MFPOO.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
44.999.8GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
39.399.8GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
37.399.7GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
34.799.7GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
34.399.7GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
33.999.7GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
30.599.7GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
29.099.7GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
28.999.7GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
28.999.7GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
28.699.7GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
28.599.7GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
27.599.7GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
27.199.7GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
26.999.7GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
26.499.7GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
26.099.7GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
25.899.7GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
24.799.6GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
24.399.6GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
23.399.6GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
23.099.6GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
21.099.6GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
20.899.6GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
20.099.6GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
19.099.5GSM184904Arabidopsis, root cells, protophloem, standard conditions, replicate 1GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
17.299.5GSM184906Arabidopsis, root cells, protophloem, standard conditions, replicate 3GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
17.099.5GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
14.499.4E-MEXP-807-raw-cel-1173273223
14.399.4GSM133721Deeken_A-1-Deeke-Tum_SLD_REP2GSE5725Agrobacterium tumefaciens-induced tumour development of Arabidopsis thalianaLink to GEO
13.999.4E-MEXP-807-raw-cel-1173273060
12.099.3GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
11.799.3E-MEXP-807-raw-cel-1173273170
11.399.3GSM184923Arabidopsis, root cells, protophloem, 140 mM NaCl, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
11.399.3GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
11.299.2GSM184905Arabidopsis, root cells, protophloem, standard conditions, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
9.499.1GSM133773Lindsey_1-25_torpedo-meristem_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
9.199.1GSM176876AWP_AL_Txed_1GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO
9.099.1GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0632GO:0016226The incorporation of iron and exogenous sulfur into a metallo-sulfur cluster.Link to AmiGO
0.0472GO:0009658A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of the chloroplast.Link to AmiGO
0.0441GO:0000578The establishment, maintenance and elaboration of a pattern along a line or a point in an embryo.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.037204144EndocytosisLink to KEGG PATHWAY

Inter-species module comparison

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



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