Co-expression analysis

Gene ID At5g61260
Gene name chromosome scaffold protein-related
Module size 46 genes
NF 0.56
%ile 77.7



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
1.00100.01.00At5g61260836247chromosome scaffold protein-relatedF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOBFPVAO.I.H.G.S.X.
0.7385.50.67At2g03770814904sulfotransferase family proteinF:sulfotransferase activity;P:unknown;C:unknown;MOPBFO.I.H.G.S.X.
0.6781.60.68At3g42830823327ring-box protein Roc1/Rbx1/Hrt1, putativeF:ubiquitin-protein ligase activity;P:ubiquitin-dependent protein catabolic process;C:ubiquitin ligase complex;MOFPVO.I.H.G.S.X.
0.6680.10.67At1g76720844006GTP binding / GTPase/ translation initiation factorF:GTP binding, GTPase activity, translation initiation factor activity;P:translational initiation;C:cellular_component unknown;MOBFPAVO.I.H.G.S.X.
0.6478.90.68At1g20140838604ASK4 (ARABIDOPSIS SKP1-LIKE 4)F:ubiquitin-protein ligase activity, protein binding;P:ubiquitin-dependent protein catabolic process;C:SCF ubiquitin ligase complex, nucleolus, nucleus, cytoplasm;MPOFVO.I.H.G.S.X.
0.6478.90.65At5g2451083252260s acidic ribosomal protein P1, putativeF:structural constituent of ribosome;P:translational elongation;C:cytosolic ribosome, ribosome;MFOPAO.I.H.G.S.X.
0.6378.10.66At1g75600843895histone H3.2, putativeF:DNA binding;P:nucleosome assembly;C:nucleus, nucleosome;MFPOO.I.H.G.S.X.
0.6378.10.68At1g10730837616clathrin adaptor complexes medium subunit family proteinF:protein binding;P:intracellular protein transport, transport, vesicle-mediated transport;C:clathrin vesicle coat, clathrin adaptor complex;MFOPO.I.H.G.S.X.
0.6378.10.68At5g41450834146zinc finger (C3HC4-type RING finger) family proteinF:protein binding, zinc ion binding;P:unknown;C:endomembrane system;PMOFVBO.I.H.G.S.X.
0.6277.30.70At5g39560833952-F:molecular_function unknown;P:unknown;C:chloroplast;MPOBVAFO.I.H.G.S.X.
0.6176.70.66At3g60700825241unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.6176.70.66At1g09510837476cinnamyl-alcohol dehydrogenase family / CAD familysimilar to Eucalyptus gunnii alcohol dehydrogenase of unknown physiological function (GI:1143445), Vigna unguiculata (gi:1854445), NOT a cinnamyl-alcohol dehydrogenaseO.I.H.G.S.X.
0.6176.70.66At2g15325816022protease inhibitor/seed storage/lipid transfer protein (LTP) family proteinPredicted to encode a PR (pathogenesis-related) protein. Belongs to the lipid transfer protein (PR-14) family with the following members: At2g38540/LTP1, At2g38530/LTP2, At5g59320/LTP3, At5g59310/LTP4, At3g51600/LTP5, At3g08770/LTP6, At2g15050/LTP7, At2g18370/LTP8, At2g15325/LTP9, At5g01870/LTP10, At4g33355/LTP11, At3g51590/LTP12, At5g44265/LTP13, At5g62065/LTP14, At4g08530/LTP15.O.I.H.G.S.X.
0.6075.70.68At5g65370836662epsin N-terminal homology (ENTH) domain-containing protein / clathrin assembly protein-relatedF:phospholipid binding, binding;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.5974.70.68At2g26320817172AGL33 (AGAMOUS-LIKE 33)F:transcription factor activity, DNA binding;P:regulation of transcription, DNA-dependent;C:nucleus;PMFOO.I.H.G.S.X.
0.5974.70.66At3g03230821322esterase/lipase/thioesterase family proteinF:catalytic activity;P:biological_process unknown;C:membrane;PBOFO.I.H.G.S.X.
0.5974.70.68At4g17160827427ATRABB1A (ARABIDOPSIS RAB GTPASE HOMOLOG B1A)F:GTP binding;P:protein transport, small GTPase mediated signal transduction;C:unknown;MOFPBVAO.I.H.G.S.X.
0.5873.80.67At2g31760817733zinc finger protein-relatedF:protein binding, zinc ion binding;P:unknown;C:unknown;MOFPVO.I.H.G.S.X.
0.5873.80.66At5g05260830408CYP79A2 (CYTOCHROME P450 79A2)Encodes cytochrome P450 CYP79A2.O.I.H.G.S.X.
0.5873.80.67At1g02980839415CUL2 (CULLIN 2)encodes an Arabidopsis cullinO.I.H.G.S.X.
0.5873.80.66At1g73560843690protease inhibitor/seed storage/lipid transfer protein (LTP) family proteinF:lipid binding;P:lipid transport;C:endomembrane system;PO.I.H.G.S.X.
0.5873.80.66At3g09140820068unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.5873.80.69At4g39955830156hydrolase, alpha/beta fold family proteinF:hydrolase activity;P:unknown;C:plasma membrane;BOMPAFO.I.H.G.S.X.
0.5873.80.67At4g37950829951lyaseF:lyase activity;P:biological_process unknown;C:unknown;PFBO.I.H.G.S.X.
0.5773.80.66At2g18490816364zinc finger (C2H2 type) family proteinF:transcription factor activity, zinc ion binding, nucleic acid binding;P:regulation of transcription;C:intracellular;POO.I.H.G.S.X.
0.5773.80.68At4g27890828902nuclear movement family proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOPFBO.I.H.G.S.X.
0.5673.00.66At5g10230830887ANNAT7 (ANNEXIN ARABIDOPSIS 7)Encodes a calcium-binding protein annexin (AnnAt7).O.I.H.G.S.X.
0.5673.00.67At2g15740816068zinc finger (C2H2 type) family proteinF:transcription factor activity, zinc ion binding, nucleic acid binding;P:regulation of transcription;C:intracellular;POMO.I.H.G.S.X.
0.5673.00.66At4g05630825935unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.5673.00.67At1g72580843590unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.5570.60.68At4g25610828666zinc finger (C2H2 type) family proteinF:zinc ion binding, nucleic acid binding;P:biological_process unknown;C:intracellular;OMFBPVO.I.H.G.S.X.
0.5570.60.67At2g20595816583unknown proteinF:molecular_function unknown;P:biological_process unknown;C:endomembrane system;PO.I.H.G.S.X.
0.5570.60.66At5g17470831613calmodulin-related protein, putativeF:calcium ion binding;P:biological_process unknown;C:cellular_component unknown;MFPOBO.I.H.G.S.X.
0.5570.60.68At3g27710822393zinc finger protein-relatedF:protein binding, zinc ion binding;P:unknown;C:unknown;MOFPVBO.I.H.G.S.X.
0.5570.60.65At4g39000830055AtGH9B17 (Arabidopsis thaliana glycosyl hydrolase 9B17)F:hydrolase activity, hydrolyzing O-glycosyl compounds, catalytic activity;P:carbohydrate metabolic process;C:endomembrane system;PBMOFO.I.H.G.S.X.
0.5469.50.67At1g54640841906F-box family protein-relatedF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.5267.40.67At1g57780842153heavy-metal-associated domain-containing proteinF:metal ion binding;P:metal ion transport;C:cellular_component unknown;POMBAFO.I.H.G.S.X.
0.5267.40.66At3g05860819755MADS-box protein (AGL45)F:transcription factor activity, DNA binding;P:regulation of transcription, DNA-dependent;C:nucleus;PMFOO.I.H.G.S.X.
0.5267.40.69At3g15490820788unknown proteinF:unknown;P:biological_process unknown;C:unknown;PFOMO.I.H.G.S.X.
0.5166.30.66At1g51290841552F-box family protein (FBX10)F:ubiquitin-protein ligase activity;P:ubiquitin-dependent protein catabolic process;C:cellular_component unknown;POO.I.H.G.S.X.
0.5166.30.69At3g03520821244phosphoesterase family proteinF:hydrolase activity, acting on ester bonds;P:biological_process unknown;C:vacuole, membrane;BFPOAO.I.H.G.S.X.
0.4963.50.65At2g07120815281F-box family protein-relatedF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.4963.50.66At5g53840835465F-box family protein (FBL13)F:ubiquitin-protein ligase activity;P:ubiquitin-dependent protein catabolic process;C:cellular_component unknown;PO.I.H.G.S.X.
0.4963.50.67At4g35985829753senescence/dehydration-associated protein-relatedF:unknown;P:unknown;C:chloroplast;MPFOO.I.H.G.S.X.
0.4761.20.67At4g36590829811MADS-box protein (AGL40)F:transcription factor activity, DNA binding;P:regulation of transcription, DNA-dependent;C:nucleus;PMFOO.I.H.G.S.X.
0.2726.20.67At3g21810821735zinc finger (CCCH-type) family proteinF:zinc ion binding, nucleic acid binding;P:biological_process unknown;C:cellular_component unknown;MOPFBAVO.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
44.599.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
40.099.8GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
37.599.7GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
37.599.7GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
36.899.7GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
35.999.7GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
35.799.7GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
35.399.7GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
35.099.7GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
35.099.7GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
34.999.7GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
34.699.7GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
33.999.7GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
32.799.7GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
32.299.7GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
32.099.7GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
31.999.7GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
31.899.7GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
31.299.7GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
29.999.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
29.799.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
28.399.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
27.799.7GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
25.199.6E-ATMX-35-raw-cel-1574334800
23.799.6GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
23.599.6E-ATMX-35-raw-cel-1574334832
20.399.6E-NASC-76-raw-cel-1359878900
20.099.6GSM184481Lateral Root Cap root cells 2hr transitory KNO3 treated, biological rep3GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
19.899.6E-ATMX-35-raw-cel-1574334816
19.399.6GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
16.899.5E-NASC-76-raw-cel-1359878976
16.599.5GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
16.099.5GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
14.899.4E-MEXP-285-raw-cel-440782725
13.499.4GSM226546Slice4JWGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
13.299.4GSM311296Laser capture microdissected (LCM) general seed coat at the linear-cotyledon stage, biological replicate 2GSE12403Expression data from Arabidopsis seed compartments at the linear-cotyledon stageLink to GEO
12.899.3GSM184480Lateral Root Cap root cells 2hr transitory KNO3 treated, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
12.899.3GSM226554Slice12JWGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
11.399.3GSM184477Lateral Root Cap root cells 2hr KCl control treated, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
10.999.2E-MEXP-285-raw-cel-440782791
9.799.1GSM284394Arabidopsis GCE3GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
9.199.1GSM226552Slice10JWGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
8.899.0GSM284392Arabidopsis GCE1GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0321GO:0007049The progression of biochemical and morphological phases and events that occur in a cell during successive cell replication or nuclear replication events. Canonically, the cell cycle comprises the replication and segregation of genetic material followed by the division of the cell, but in endocycles or syncytial cells nuclear replication or nuclear division may not be followed by cell division.Link to AmiGO
0.0281GO:0019761The chemical reactions and pathways resulting in the formation of glucosinolates, substituted thioglucosides found in rapeseed products and related cruciferae.Link to AmiGO
0.0242GO:0006869The directed movement of lipids into, out of, within or between cells. Lipids are compounds soluble in an organic solvent but not, or sparingly, in an aqueous solvent.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.030100966Glucosinolate biosynthesisLink to KEGG PATHWAY
0.028204120Ubiquitin mediated proteolysisLink to KEGG PATHWAY
0.021103420Nucleotide excision repairLink 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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