Co-expression analysis

Gene ID At4g30560
Gene name ATCNGC9 (CYCLIC NUCLEOTIDE GATED CHANNEL 9)
Module size 44 genes
NF 0.88
%ile 97.8



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
0.7284.81.00At4g30560829179ATCNGC9 (CYCLIC NUCLEOTIDE GATED CHANNEL 9)member of Cyclic nucleotide gated channel familyO.I.H.G.S.X.
0.9797.60.89At3g49450824107F-box family proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.9697.30.89At2g44190819026EDE1 (ENDOSPERM DEFECTIVE 1)Encodes a novel microtubule binding protein that preferentially associates with nuclear microtubules during mitosis and is essential during the mitotic and cytokinetic stages that generate the endosperm and embryo.O.I.H.G.S.X.
0.9597.00.88At4g20500827798transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.9597.00.91At1g08600837382ATRXF:helicase activity, DNA binding, nucleic acid binding, ATP binding;P:unknown;C:unknown;MOBFPVAO.I.H.G.S.X.
0.9496.70.89At4g08590826420ORTHL (ORTHRUS-LIKE)F:ubiquitin-protein ligase activity, zinc ion binding;P:protein ubiquitination;C:cytoplasm;MPOFBVO.I.H.G.S.X.
0.9496.70.90At5g58190835931ECT10F:unknown;P:unknown;C:unknown;MPFOO.I.H.G.S.X.
0.9496.70.86At2g17090816214SSP (SHORT SUSPENSOR)F:protein tyrosine kinase activity, binding, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation, N-terminal protein myristoylation;C:cellular_component unknown;PMOBVFO.I.H.G.S.X.
0.9396.40.89At3g01015821318-F:unknown;P:unknown;C:unknown;PMOFO.I.H.G.S.X.
0.9396.40.89At4g35560829708-F:molecular_function unknown;P:unknown;C:CUL4 RING ubiquitin ligase complex;MOFPBO.I.H.G.S.X.
0.9296.00.87At5g49150834974GEX2 (GAMETE EXPRESSED 2)Encodes a transmembrane domain containing protein expressed in sperm cells.O.I.H.G.S.X.
0.9296.00.85At3g60760825247unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.9195.60.86At1g54240841865DNA bindingF:DNA binding;P:nucleosome assembly;C:nucleus, nucleosome;PO.I.H.G.S.X.
0.9195.60.90At1g77410844078BGAL16 (beta-galactosidase 16)F:cation binding, sugar binding, beta-galactosidase activity, catalytic activity;P:lactose catabolic process, using glucoside 3-dehydrogenase, carbohydrate metabolic process, lactose catabolic process via UDP-galactose, lactose catabolic process;C:endomembrane system, beta-galactosidase complex;MBPFOAO.I.H.G.S.X.
0.9195.60.92At5g16630831525RAD4F:damaged DNA binding;P:nucleotide-excision repair;C:nucleus, chloroplast;MFOPO.I.H.G.S.X.
0.9095.10.85At1g23210838930AtGH9B6 (Arabidopsis thaliana glycosyl hydrolase 9B6)F:hydrolase activity, hydrolyzing O-glycosyl compounds, catalytic activity;P:carbohydrate metabolic process;C:endomembrane system;PBMOFO.I.H.G.S.X.
0.9095.10.88At1g64610842769WD-40 repeat family proteinF:signal transducer activity;P:signal transduction;C:heterotrimeric G-protein complex;MFBOPAO.I.H.G.S.X.
0.8994.60.88At5g10950830962cylicin-relatedF:molecular_function unknown;P:biological_process unknown;C:cytosol;MOFBPVAO.I.H.G.S.X.
0.8994.60.87At5g23480832414DNA bindingF:DNA binding;P:histone modification, transcription initiation;C:nucleus;PO.I.H.G.S.X.
0.8994.60.86At5g27610832823DNA binding / transcription factorF:transcription factor activity, DNA binding;P:biological_process unknown;C:cellular_component unknown;MOPFBVO.I.H.G.S.X.
0.8894.00.90At2g06040815159-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPFOBO.I.H.G.S.X.
0.8894.00.93At2g25560817094DNAJ heat shock N-terminal domain-containing proteinF:unfolded protein binding, heat shock protein binding;P:protein folding;C:cellular_component unknown;BOMPFAVO.I.H.G.S.X.
0.8894.00.88At5g09800830840U-box domain-containing proteinF:ubiquitin-protein ligase activity, binding;P:response to chitin;C:ubiquitin ligase complex;POMBFO.I.H.G.S.X.
0.8894.00.87At2g22600816791KH domain-containing proteinF:RNA binding, nucleic acid binding;P:biological_process unknown;C:unknown;MPFOO.I.H.G.S.X.
0.8894.00.90At5g49900835053catalytic/ glucosylceramidaseF:catalytic activity, glucosylceramidase activity;P:glucosylceramide catabolic process, sphingolipid metabolic process;C:integral to membrane, membrane;BPMOAO.I.H.G.S.X.
0.8894.00.88At4g17483827461palmitoyl protein thioesterase family proteinF:palmitoyl-(protein) hydrolase activity;P:protein modification process;C:endomembrane system;MPFOO.I.H.G.S.X.
0.8894.00.86At5g16100831467unknown proteinF:unknown;P:unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.8793.50.87At5g60250836147zinc finger (C3HC4-type RING finger) family proteinF:protein binding, zinc ion binding, nucleic acid binding;P:unknown;C:unknown;MFPOBO.I.H.G.S.X.
0.8793.50.90At1g52920841725GPCR (G PROTEIN COUPLED RECEPTOR)Encodes a plasma membrane–localized ABA receptor, which interacts with the Gαβγ complex. It has been postulated that the binding of ABA to GCR2 results in the release of the G protein and dissociation of the heterotrimeric complex into Gα and the Gβγ dimer to activate downstream ABA effectors and to trigger the ABA responses.O.I.H.G.S.X.
0.8793.50.89At1g12370837792PHR1 (PHOTOLYASE 1)encodes an amino acid sequence with significant homology to the recently characterized type II photolyases. The uvr2-1 mutant is unable to remove CPDs in vivo, and plant extracts lack detectable photolyase activity , is sensitive to UV-B and is an alleleO.I.H.G.S.X.
0.8693.10.91At1g77250844061PHD finger family proteinF:protein binding, DNA binding, zinc ion binding;P:regulation of transcription, DNA-dependent;C:unknown;MPFOO.I.H.G.S.X.
0.8693.10.90At1g48310841251CHR18F:helicase activity, DNA binding, nucleic acid binding, ATP binding;P:biological_process unknown;C:cellular_component unknown;MOFBPVAO.I.H.G.S.X.
0.8693.10.89At5g42010834206WD-40 repeat family proteinF:signal transducer activity;P:signal transduction, response to salt stress;C:heterotrimeric G-protein complex;MFBOPAO.I.H.G.S.X.
0.8592.40.86At4g00240826673PLDBETA2member of C2-PLD subfamilyO.I.H.G.S.X.
0.8491.90.86At2g36660818238PAB7 (POLY(A) BINDING PROTEIN 7)polyadenylate-binding protein, putative / PABP, putative. Member of the class III family of PABP proteins.O.I.H.G.S.X.
0.8491.90.87At1g26840839227ORC6 (ORIGIN RECOGNITION COMPLEX PROTEIN 6)Origin Recognition Complex subunit 6. Involved in the initiation of DNA replication. Regulated transcriptionally during cell cycle, peaking at G1/S-phase. Target of E2F/DF family of transcription factors.O.I.H.G.S.X.
0.8491.90.88At5g05510830434protein kinase-relatedF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFPOBO.I.H.G.S.X.
0.8491.90.87At4g30860829210SDG4 (SET DOMAIN GROUP 4)Encodes a member of the trxG protein family. Contains a SET domain which is known to be involved in modification of histone tails by methylation. Interacts physically with AMS, but the implications of this interaction are unknown.Overexpression results in plieotrophic developmental defects.O.I.H.G.S.X.
0.8391.40.85At5g55490835642GEX1 (GAMETE EXPRESSED PROTEIN 1)Encodes a transmembrane domain containing protein that is expressed in pollen germ cells.O.I.H.G.S.X.
0.8391.40.88At1g75770843910unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.8290.90.86At3g22760821847SOL1CXC domain containing TSO1-like protein 1. The gene is expressed in stamens, pollen mother cells, and immature ovules.O.I.H.G.S.X.
0.8089.80.91At1g79950844335helicase-relatedF:in 6 functions;P:regulation of transcription, DNA-dependent, nucleobase, nucleoside, nucleotide and nucleic acid metabolic process;C:mitochondrion;MBOFAPVO.I.H.G.S.X.
0.7687.40.91At5g07810830674SNF2 domain-containing protein / helicase domain-containing protein / HNH endonuclease domain-containing proteinF:helicase activity, DNA binding, ATP binding, nucleic acid binding, endonuclease activity;P:unknown;C:unknown;MBOFPVAO.I.H.G.S.X.
0.7486.10.90At2g30580817608DRIP2 (DREB2A-INTERACTING PROTEIN 2)Encodes a C3HC4 RING-domain-containing ubiquitin E3 ligase capable of interacting with DREB2A. DRIP2 seems to be involved in regulating stress-related transcriptional changes and drought tolerance.O.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
67.299.8GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
64.399.8GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
61.899.8GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
57.499.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
56.299.8GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
54.199.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
53.899.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
52.199.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
50.399.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
49.599.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
48.799.8GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
48.599.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
47.399.8GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
47.399.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
46.099.8GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
44.599.8GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
39.399.8GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
39.099.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
36.299.7GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
36.099.7GSM311289Laser capture microdissected (LCM) cellularized endosperm at the linear-cotyledon stage, biological replicate 1GSE12403Expression data from Arabidopsis seed compartments at the linear-cotyledon stageLink to GEO
34.799.7GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
34.499.7GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
34.499.7GSM311290Laser capture microdissected (LCM) cellularized endosperm at the linear-cotyledon stage, biological replicate 2GSE12403Expression data from Arabidopsis seed compartments at the linear-cotyledon stageLink to GEO
33.599.7GSM284387Arabidopsis GSUS4bGSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
32.199.7GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
30.699.7GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
28.799.7GSM284386Arabidopsis GSUS3GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
28.699.7GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
26.099.7GSM284394Arabidopsis GCE3GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
25.499.6E-ATMX-35-raw-cel-1574334816
23.999.6GSM284392Arabidopsis GCE1GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
19.399.6GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
18.899.5GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
18.699.5E-ATMX-35-raw-cel-1574334832
18.199.5GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
17.899.5E-ATMX-35-raw-cel-1574334800
17.099.5GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
11.899.3GSM270870Arabidopsis cell culture, 4 h_response to phytoprostane A1_rep3GSE10719Response of Arabidopsis cell culture to phytoprostane A1Link to GEO
10.799.2GSM128662Underwood_1-15_Cor-5x10e7-10h_Rep3_ATH1GSE5520Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interactionLink to GEO
10.499.2GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
10.399.2E-MEXP-509-raw-cel-829148561
9.799.1GSM284393Arabidopsis GCE2GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
9.099.1GSM270868Arabidopsis cell culture, 4 h_response to phytoprostane A1_rep2GSE10719Response of Arabidopsis cell culture to phytoprostane A1Link to GEO
9.099.1GSM176876AWP_AL_Txed_1GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO
8.999.0GSM184497Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
8.699.0GSM311273Laser capture microdissected (LCM) embryo proper at the pre-globular stage, biological replicate 1GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0431GO:0010342The separation of the multi-nucleate endosperm into individual cells. In many plant species, the endosperm that nurtures the embryo in the seed initially develops as a syncytium. This syncytial phase ends with simultaneous partitioning of the multi-nucleate cytoplasm into individual cells, a process referred to as cellularization.Link to AmiGO
0.0431GO:0000719The repair of UV-induced T-T, C-T and C-C dimers by directly reversing the damage to restore the original pyrimidines.Link to AmiGO
0.0431GO:0009650Any process by which an organism or cell protects itself from ultraviolet radiation (UV), which may also result in resistance to repeated exposure to UV.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
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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