Co-expression analysis

Gene ID At5g55750
Gene name hydroxyproline-rich glycoprotein family protein
Module size 23 genes
NF 0.79
%ile 93.8



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
0.8290.91.00At5g55750835669hydroxyproline-rich glycoprotein family proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMOFBVAO.I.H.G.S.X.
0.9195.60.94At1g02700839492unknown proteinF:molecular_function unknown;P:biological_process unknown;C:mitochondrion;PMFOO.I.H.G.S.X.
0.8994.60.94At1g27990839692unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.8793.50.94At3g05260819690short-chain dehydrogenase/reductase (SDR) family proteinF:oxidoreductase activity, binding, catalytic activity;P:metabolic process;C:cellular_component unknown;BOMFPAVO.I.H.G.S.X.
0.8693.10.91At3g11050820276ATFER2 (ferritin 2)F:oxidoreductase activity, ferric iron binding, binding, transition metal ion binding;P:response to oxidative stress, cellular iron ion homeostasis, response to abscisic acid stimulus, iron ion transport;C:chloroplast;MBPOAFO.I.H.G.S.X.
0.8592.40.93At5g01670831701aldose reductase, putativeF:oxidoreductase activity;P:oxidation reduction;C:unknown;BMOFPAO.I.H.G.S.X.
0.8391.40.91At2g19900816509ATNADP-ME1 (NADP-malic enzyme 1)The malic enzyme (EC 1.1.1.40) encoded by AtNADP-ME1 is expressed in response to developmental and cell-specific signals.O.I.H.G.S.X.
0.8290.90.91At4g21020827849late embryogenesis abundant domain-containing protein / LEA domain-containing proteinF:unknown;P:embryonic development ending in seed dormancy;C:unknown;OMBPFVAO.I.H.G.S.X.
0.8190.40.94At4g27530828862unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.8190.40.91At5g22470832308NAD+ ADP-ribosyltransferaseF:NAD+ ADP-ribosyltransferase activity;P:protein amino acid ADP-ribosylation;C:intracellular, nucleus;MOPFBVO.I.H.G.S.X.
0.8089.80.89At4g09600826545GASA3 (GAST1 PROTEIN HOMOLOG 3)One of GASA gene family which is related to a GA-stimulated transcript (GAST) from tomato.O.I.H.G.S.X.
0.7989.10.90At3g12960820482unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.7989.10.88At3g50980824262XERO1 (DEHYDRIN XERO 1)F:molecular_function unknown;P:response to water, response to stress;C:cellular_component unknown;PMO.I.H.G.S.X.
0.7888.60.93At4g10020826593AtHSD5 (hydroxysteroid dehydrogenase 5)F:oxidoreductase activity, binding, catalytic activity;P:metabolic process;C:endomembrane system;BOMFPAVO.I.H.G.S.X.
0.7888.60.90At2g19320816449unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.7687.40.96At1g75490843885DNA binding / transcription factorencodes a member of the DREB subfamily A-2 of ERF/AP2 transcription factor family. The protein contains one AP2 domain. There are eight members in this subfamily including DREB2A AND DREB2B that are involved in response to drought.O.I.H.G.S.X.
0.7586.90.89At5g42290834234transcription activator-relatedF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POO.I.H.G.S.X.
0.7385.50.94At2g33520817917-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMFO.I.H.G.S.X.
0.7385.50.91At3g58450825014universal stress protein (USP) family proteinF:molecular_function unknown;P:response to stress;C:cellular_component unknown;BPAOFMO.I.H.G.S.X.
0.7284.80.86At3g51810824344EM1 (LATE EMBRYOGENESIS ABUNDANT 1)Encodes a ABA-inducible protein that accumulates during seed maturation, in parallel with its corresponding mRNA but with a 3 d delay. During germination, AtEm1 protein undergoes two successive cleavages before being degraded. Both proteins are more stable than the corresponding mRNA. The gene can be activated by the basic leucine zipper transcription factor ABI5. Expressed predominantly in provascular tissues with the strongest expression in the root tip.O.I.H.G.S.X.
0.7184.20.92At3g56350824802superoxide dismutase (Mn), putative / manganese superoxide dismutase, putativeF:superoxide dismutase activity, metal ion binding;P:superoxide metabolic process, removal of superoxide radicals;C:mitochondrion, endomembrane system;BOFMPAVO.I.H.G.S.X.
0.7083.50.93At2g23640816896reticulon family protein (RTNLB13)F:molecular_function unknown;P:biological_process unknown;C:endoplasmic reticulum;MPOO.I.H.G.S.X.
0.6277.30.91At5g55240835617caleosin-related family protein / embryo-specific protein, putativeF:calcium ion binding;P:biological_process unknown;C:cellular_component unknown;PFOO.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
109.699.9GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
68.699.9GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
63.399.8GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
52.899.8GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
51.099.8GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
47.499.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
47.199.8GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
46.399.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
44.999.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
44.099.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
42.199.8GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
42.099.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
41.799.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
40.899.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
40.799.8GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
40.799.8GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
37.899.8GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
36.699.7GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
36.499.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
36.299.7GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
36.099.7GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
35.999.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
34.799.7GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
34.199.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
31.799.7GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
27.399.7E-MEXP-1443-raw-cel-1581869573
27.299.7E-MEXP-1344-raw-cel-1559561563
24.599.6E-MEXP-1345-raw-cel-1559561139
23.099.6E-MEXP-1345-raw-cel-1559561169
20.099.6E-MEXP-1345-raw-cel-1559561229
19.099.5GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
19.099.5E-MEXP-1344-raw-cel-1559561593
18.599.5GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
18.599.5E-MEXP-1345-raw-cel-1559561259
18.499.5E-MEXP-1345-raw-cel-1559561289
17.999.5E-MEXP-1345-raw-cel-1559561199
17.899.5E-MEXP-1344-raw-cel-1559561683
17.099.5E-MEXP-1443-raw-cel-1581869515
16.699.5GSM284394Arabidopsis GCE3GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
14.899.4E-MEXP-1344-raw-cel-1559561713
13.699.4GSM284392Arabidopsis GCE1GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
13.399.4E-MEXP-1344-raw-cel-1559561623
12.599.3E-ATMX-33-raw-cel-1562596241
12.399.3GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
11.599.3E-MEXP-1344-raw-cel-1559561653
11.199.2GSM311291Laser 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
10.399.2GSM284396Arabidopsis GPSc2GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
10.299.2GSM244442Arabidopsis wild-type_T0 (not inoculated)_biological rep1_exp1GSE9674Expression data from Arabidopsis plants misexpressing AtMYB30 after Xanthomonas inoculation at early timepointsLink to GEO
9.499.1GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
9.399.1GSM131580ATGE_32_B2GSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
9.199.1GSM311280Laser capture microdissected (LCM) chalazal endosperm at the pre-globular stage, biological replicate 2GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
9.199.1GSM284393Arabidopsis GCE2GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
8.999.0GSM284385Arabidopsis GEP6GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
8.999.0GSM284395Arabidopsis GPSc1GSE11262Expression 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
0.0831GO:0006801The chemical reactions and pathways involving superoxide, the superoxide anion O2- (superoxide free radical), or any compound containing this species.Link to AmiGO
0.0771GO:0006471The transfer, from NAD, of ADP-ribose to protein amino acids.Link to AmiGO
0.0651GO:0019430Any process involved in removing superoxide radicals (O2-) from a cell or organism, e.g. by conversion to dioxygen (O2) and hydrogen peroxide (H2O2).Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.023100620Pyruvate metabolismLink to KEGG PATHWAY
0.020100710Carbon fixation in photosynthetic organismsLink to KEGG PATHWAY
0.011101064Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acidLink 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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