Co-expression analysis

Gene ID At4g33410
Gene name signal peptide peptidase family protein
Module size 40 genes
NF 0.27
%ile 31.1



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
1.00100.01.00At4g33410829478signal peptide peptidase family proteinF:aspartic-type endopeptidase activity;P:biological_process unknown;C:endomembrane system, integral to membrane;MPOFO.I.H.G.S.X.
0.5469.50.91At1g19080838490TTN10 (TITAN 10)This gene is predicted to encode a PSF3 component of the GINS complex. This complex has been implicated in the initiation of DNA replication in Xenopus. Mutations in this gene cause defects in embryo development.O.I.H.G.S.X.
0.4862.50.92At1g21710838775OGG1 (8-OXOGUANINE-DNA GLYCOSYLASE 1)Encodes 8-oxoguanine-DNA glycosylase. DNA repair enzyme.O.I.H.G.S.X.
0.4659.80.92At1g08750837397GPI-anchor transamidase, putativeF:GPI-anchor transamidase activity, cysteine-type endopeptidase activity;P:proteolysis;C:endomembrane system;MPOFABO.I.H.G.S.X.
0.4558.30.93At1g18340838415basal transcription factor complex subunit-relatedF:general RNA polymerase II transcription factor activity;P:DNA repair, regulation of transcription, DNA-dependent;C:core TFIIH complex;MFOPO.I.H.G.S.X.
0.4558.30.91At4g39170830072SEC14 cytosolic factor, putative / phosphoglyceride transfer protein, putativeF:phosphatidylinositol transporter activity, transporter activity;P:transport;C:plasma membrane;MPFOO.I.H.G.S.X.
0.4050.80.92At5g41760834180nucleotide-sugar transporter family proteinF:nucleotide-sugar transmembrane transporter activity, CMP-sialic acid transmembrane transporter activity;P:carbohydrate transport, nucleotide-sugar transport;C:endomembrane system, integral to membrane, Golgi membrane;MOPFO.I.H.G.S.X.
0.4050.80.92At1g55130841956endomembrane protein 70, putativeF:unknown;P:unknown;C:integral to membrane, Golgi apparatus;MPOFBO.I.H.G.S.X.
0.3948.40.90At3g52610824427unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PBOO.I.H.G.S.X.
0.3745.00.91At4g24880828590unknown proteinF:unknown;P:unknown;C:unknown;MPOFO.I.H.G.S.X.
0.3745.00.91At1g73720843707transducin family protein / WD-40 repeat family proteinF:nucleotide binding;P:biological_process unknown;C:CUL4 RING ubiquitin ligase complex;MFOBPAVO.I.H.G.S.X.
0.3643.60.90At1g05055839332GTF2H2 (GENERAL TRANSCRIPTION FACTOR IIH 2)Member of transcription factor TFIIH complex. Involved in transcription and DNA repair and interacts with AtXPD.O.I.H.G.S.X.
0.3643.60.91At4g35910829746unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFPOAO.I.H.G.S.X.
0.3439.80.90At3g47390823893cytidine/deoxycytidylate deaminase family proteinF:in 6 functions;P:riboflavin biosynthetic process;C:unknown;BOAFPMVO.I.H.G.S.X.
0.3338.10.90At2g46470819256OXA1L (INNER MEMBRANE PROTEIN OXA1-LIKE)F:molecular_function unknown;P:protein import into mitochondrial inner membrane;C:mitochondrion, membrane;BOMFPO.I.H.G.S.X.
0.3235.70.92At5g10630830928elongation factor 1-alpha, putative / EF-1-alpha, putativeF:GTP binding, translation elongation factor activity, GTPase activity, zinc ion binding;P:biological_process unknown;C:intracellular;BMOFPAVO.I.H.G.S.X.
0.3032.10.92At5g18580831976FASS (FASS 1)fass mutants have aberrant cell shapes due to defects in arrangement of cortical microtubules. Encodes a protein highly conserved in higher plants and similar in its C-terminal part to B' regulatory subunits of type 2A protein phosphatases. Interacts with an Arabidopsis type A subunit of PP2A in the yeast two-hybrid system.O.I.H.G.S.X.
0.3032.10.90At3g12010820375-F:molecular_function unknown;P:biological_process unknown;C:unknown;MOPO.I.H.G.S.X.
0.2930.30.91At2g05755815126integral membrane family proteinF:unknown;P:unknown;C:membrane;OBMFAPO.I.H.G.S.X.
0.2930.30.91At5g61970836318signal recognition particle-related / SRP-relatedF:unknown;P:biological_process unknown;C:cellular_component unknown;MFOPBAO.I.H.G.S.X.
0.2830.30.92At4g39240830080kelch repeat-containing F-box family proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPBOAVFO.I.H.G.S.X.
0.2830.30.90At1g78690844205phospholipid/glycerol acyltransferase family proteinF:acyltransferase activity;P:metabolic process;C:unknown;BMOFPO.I.H.G.S.X.
0.2726.20.91At5g49230834983HRB1 (HYPERSENSITIVE TO RED AND BLUE)Identified in a screen for mutations hypersensitive to red and blue light. Mutants have shorter hypocotyls. Encodes a nuclear localized protein with similarity to drought induced proteins. Contains a ZZ zinc finger domain which is thought to mediate protein-protein interactions.May be involved in red and blue light signal transduction.O.I.H.G.S.X.
0.2624.40.90At1g72480843580-F:molecular_function unknown;P:biological_process unknown;C:Golgi apparatus;MFPOO.I.H.G.S.X.
0.2522.60.91At4g08960826474phosphotyrosyl phosphatase activator (PTPA) family proteinF:phosphatase activator activity;P:biological_process unknown;C:cellular_component unknown;MFOPBO.I.H.G.S.X.
0.2522.60.91At1g71310843472unknown proteinF:molecular_function unknown;P:unknown;C:unknown;POBO.I.H.G.S.X.
0.2522.60.90At2g30100817561ubiquitin family proteinF:protein binding;P:protein modification process;C:chloroplast;MPBOFAVO.I.H.G.S.X.
0.2319.30.91At1g26370839179RNA helicase, putativeF:in 6 functions;P:biological_process unknown;C:chloroplast;MBOFVPAO.I.H.G.S.X.
0.2319.30.91At1g78800844216glycosyl transferase family 1 proteinF:transferase activity, transferring glycosyl groups;P:biosynthetic process;C:cellular_component unknown;BOAPMFO.I.H.G.S.X.
0.2217.50.90At5g11980831071conserved oligomeric Golgi complex component-related / COG complex component-relatedF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFOPO.I.H.G.S.X.
0.2217.50.91At5g45300834566BMY2 (BETA-AMYLASE 2)F:cation binding, beta-amylase activity, catalytic activity;P:cellulose biosynthetic process, carbohydrate metabolic process, polysaccharide catabolic process;C:cellular_component unknown;PMBOFO.I.H.G.S.X.
0.2115.80.90At5g63110836431HDA6 (HISTONE DEACETYLASE 6)RPD3-like histone deacetylase. HDA6 mutations specifically increase the expression of auxin-responsive transgenes, suggesting a role in transgene silencing.O.I.H.G.S.X.
0.2014.40.91At3g12180820395cornichon family proteinF:molecular_function unknown;P:intracellular signaling cascade;C:endomembrane system, membrane;MFPOO.I.H.G.S.X.
0.1710.20.91At1g55150841958DEAD box RNA helicase, putative (RH20)F:helicase activity, ATP-dependent helicase activity, ATP binding, nucleic acid binding;P:unknown;C:cellular_component unknown;BOMFPAVO.I.H.G.S.X.
0.168.80.90At1g61010842393CPSF73-I (CLEAVAGE AND POLYADENYLATION SPECIFICITY FACTOR 73-I)F:protein binding;P:mRNA polyadenylation;C:mRNA cleavage and polyadenylation specificity factor complex, nucleus;BOMAFPVO.I.H.G.S.X.
0.146.80.91At3g19460821480reticulon family protein (RTNLB11)F:molecular_function unknown;P:biological_process unknown;C:endoplasmic reticulum;MPOFO.I.H.G.S.X.
0.146.80.91At4g32620829397nucleic acid bindingF:nucleic acid binding;P:biological_process unknown;C:cellular_component unknown;OPMFBO.I.H.G.S.X.
0.135.80.90At3g01150821129PTB1 (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.
0.114.10.91At5g54750835565transport protein particle (TRAPP) component Bet3, putativeF:molecular_function unknown;P:ER to Golgi vesicle-mediated transport;C:cellular_component unknown;MFOPO.I.H.G.S.X.
0.103.40.90At5g58030835915transport 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
56.799.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
52.299.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
48.399.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
46.499.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
46.299.8GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
45.799.8GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
45.599.8GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
43.899.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
43.299.8GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
43.299.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
43.099.8GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
42.899.8GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
42.399.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
42.399.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
41.099.8GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
39.599.8GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
39.099.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
38.799.8GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
37.099.7GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
36.499.7GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
23.999.6GSM131321AtGen_6-3421_Saltstress-Roots-6.0h_Rep1GSE5623AtGenExpress: Stress Treatments (Salt stress)Link to GEO
22.999.6GSM131322AtGen_6-3422_Saltstress-Roots-6.0h_Rep2GSE5623AtGenExpress: Stress Treatments (Salt stress)Link to GEO
20.699.6GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
20.199.6GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
19.899.6E-MEXP-807-raw-cel-1173273196
18.599.5GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
18.399.5GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
17.699.5GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
15.299.4GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
13.899.4GSM131318AtGen_6-3322_Saltstress-Roots-3.0h_Rep2GSE5623AtGenExpress: Stress Treatments (Salt stress)Link to GEO
12.999.3GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
12.599.3GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
12.499.3GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
10.999.2E-MEXP-807-raw-cel-1173273170
10.599.2GSM311296Laser 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
9.099.1E-MEXP-807-raw-cel-1173273116
9.099.1GSM184497Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
8.799.0GSM133766Lindsey_1-18_torpedo-root_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0632GO:0006888The directed movement of substances from the endoplasmic reticulum (ER) to the Golgi, mediated by COP II vesicles. Small COP II coated vesicles form from the ER and then fuse directly with the cis-Golgi. Larger structures are transported along microtubules to the cis-Golgi.Link to AmiGO
0.0481GO:0006358Any process that modulates the frequency, rate or extent of global transcription from Pol II promoter.Link to AmiGO
0.0471GO:0006261The process whereby new strands of DNA are synthesized, using parental DNA as a template for the DNA-dependent DNA polymerases that synthesize the new strands.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.061203060Protein exportLink to KEGG PATHWAY
0.055203022Basal transcription factorsLink to KEGG PATHWAY
0.044203420Nucleotide 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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