CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID Zm.6196.2.S1_at

Gene name
Homology with Arabidopsis Similar to At5g26880: tRNA/rRNA methyltransferase (SpoU) family protein (HF=3e+0)

Module size 6 genes

NF 0.56

%ile 73.8

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. Ev AGI code Arabidopsis gene name O.I. H.G. S.X. Other DB
0.91 99.0 0.97 Zm.6196.2.S1_at AI677134 - - 3e+0 At5g26880 tRNA/rRNA methyltransferase (SpoU) family protein O.I. H.G. S.X.
0.67 85.8 0.98 Zm.3780.1.S1_at AW438304 low-molecular-weight cysteine-rich protein LCR69 - 9e-2 At1g47317 - O.I. H.G. S.X.
0.50 65.7 0.98 Zm.13808.2.A1_a_at AI665043 - - 4e-7 At4g03240 FH (FRATAXIN HOMOLOG) O.I. H.G. S.X.
0.50 65.7 0.98 Zm.4845.1.S1_x_at CD442886 alcohol dehydrogenase1 /// syntaxin-related protein KNOLLE - 4e-5 At4g03330 SYP123 (SYNTAXIN OF PLANTS 123) O.I. H.G. S.X.
0.42 51.3 0.97 Zm.17701.1.S1_at CK370965 hypothetical protein LOC100278172 - 4e-1 At4g19400 actin binding O.I. H.G. S.X.
0.31 31.6 0.98 Zm.9411.1.S1_at CA827391 SNF1-related protein kinase regulatory subunit beta-2 - 4e-1 At4g26150 CGA1 (CYTOKININ-RESPONSIVE GATA FACTOR 1) O.I. H.G. S.X.

Click More genes

Specific experiments for the module

Std2 GX %ile GSM ID Assay name GSE ID Experiment title Link to GEO
8.6 98.1 GSM320452 protocol: Cot filtration (CF) - genotype: Mo17 maize inbred - rep3 GSE12770 Evaluation of Target Preparation Methods for Single-Feature Polymorphism Detection in Large Complex Plant Genomes
8.4 98.1 GSM320453 protocol: Cot filtration (CF) - genotype: CML69 maize inbred - rep1 GSE12770 Evaluation of Target Preparation Methods for Single-Feature Polymorphism Detection in Large Complex Plant Genomes
8.1 98.0 GSM320455 protocol: Cot filtration (CF) - genotype: CML69 maize inbred - rep3 GSE12770 Evaluation of Target Preparation Methods for Single-Feature Polymorphism Detection in Large Complex Plant Genomes
7.9 97.9 GSM320454 protocol: Cot filtration (CF) - genotype: CML69 maize inbred - rep2 GSE12770 Evaluation of Target Preparation Methods for Single-Feature Polymorphism Detection in Large Complex Plant Genomes
7.2 97.8 GSM320449 protocol: Cot filtration (CF) - genotype: B73 maize inbred - rep3 GSE12770 Evaluation of Target Preparation Methods for Single-Feature Polymorphism Detection in Large Complex Plant Genomes
7.0 97.7 GSM320447 protocol: Cot filtration (CF) - genotype: B73 maize inbred - rep1 GSE12770 Evaluation of Target Preparation Methods for Single-Feature Polymorphism Detection in Large Complex Plant Genomes
6.5 97.5 GSM320450 protocol: Cot filtration (CF) - genotype: Mo17 maize inbred - rep1 GSE12770 Evaluation of Target Preparation Methods for Single-Feature Polymorphism Detection in Large Complex Plant Genomes
6.2 97.4 GSM320451 protocol: Cot filtration (CF) - genotype: Mo17 maize inbred - rep2 GSE12770 Evaluation of Target Preparation Methods for Single-Feature Polymorphism Detection in Large Complex Plant Genomes
5.2 96.9 GSM320448 protocol: Cot filtration (CF) - genotype: B73 maize inbred - rep2 GSE12770 Evaluation of Target Preparation Methods for Single-Feature Polymorphism Detection in Large Complex Plant Genomes
2.6 92.9 GSM206325 Upper pulvinus 5 min polysomal RNA biorep 2 GSE8320 Transcriptional and translational gene regulation in the maize pulvinus

Inter-species module comparison

A co-expression module including the Arabidopsis gene, At5g26880, orthologous to the query gene, Zm.6196.2.S1_at

VF %ile Gene ID Repr. ID Gene Name Func. O.I. H.G. S.X. Other DB
0.55 70.6 At5g26880 832746 tRNA/rRNA methyltransferase (SpoU) family protein F:RNA binding, RNA methyltransferase activity;P:RNA processing;C:unknown;BOPM O.I. H.G. S.X.
0.63 78.1 At2g39080 818494 binding / catalytic F:binding, catalytic activity;P:metabolic process;C:chloroplast stroma, chloroplast;BOPA O.I. H.G. S.X.
0.55 70.6 At3g20320 821576 TGD2 (TRIGALACTOSYLDIACYLGLYCEROL2) Encodes a permease-like component of an ABC transporter involved in lipid transfer from ER to chloroplast. A phosphatidic acid-binding protein with a predicted mycobacterial cell entry domain. It is tethered to the inner chloroplast envelope membrane facing the outer envelope membrane. Presumed bacterial orthologs of TGD1 and TGD2 in Gram-negative bacteria are typically organized in transcriptional units, suggesting their involvement in a common biological process. O.I. H.G. S.X.
0.47 61.2 At5g63890 836509 ATHDH (HISTIDINOL DEHYDROGENASE) Encodes histidinol dehydrogenase. Up-regulated in response to UV-B. O.I. H.G. S.X.
0.44 57.2 At2g19940 816513 N-acetyl-gamma-glutamyl-phosphate reductase/ NAD or NADH binding / binding / catalytic/ oxidoreductase, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor / protein dimerization F:in 6 functions;P:amino acid metabolic process, response to cadmium ion;C:nucleolus, chloroplast stroma, chloroplast, membrane;BOAFP O.I. H.G. S.X.
0.43 55.3 At3g49560 824118 mitochondrial import inner membrane translocase subunit Tim17/Tim22/Tim23 family protein F:protein transporter activity, P-P-bond-hydrolysis-driven protein transmembrane transporter activity;P:protein transport;C:in 6 components;PMO O.I. H.G. S.X.
0.42 53.9 At1g80600 844399 WIN1 (HOPW1-1-INTERACTING 1) Encodes HopW1-1-Interacting protein 1 (WIN1). Interacts with the P. syringae effector HopW1-1. WIN1 is a putative acetylornithine transaminase. Modulates plant defenses against bacteria. Three WIN proteins are identified so far (WIN1: AT1G80600; WIN2: AT4G31750; WIN3: AT5G13320). O.I. H.G. S.X.
0.42 53.9 At3g60210 825191 chloroplast chaperonin 10, putative F:ATP binding;P:protein folding;C:chloroplast;OBPMA O.I. H.G. S.X.
0.42 53.9 At5g04710 830349 aspartyl aminopeptidase, putative F:aminopeptidase activity, zinc ion binding;P:proteolysis;C:chloroplast, vacuole;BOFMPA O.I. H.G. S.X.
0.38 46.7 At3g57560 824923 aspartate/glutamate/uridylate kinase family protein encodes a N-acetylglutamate kinase, involved in arginine biosynthesis O.I. H.G. S.X.
0.34 39.8 At1g19800 838568 TGD1 (TRIGALACTOSYLDIACYLGLYCEROL 1) Encodes a permease-Like protein involved in lipid transfer from the ER to the chloroplast, more specifically, transfer of phosphatidate across the chloroplast inner membrane. Mutant leaves accumulate trigalactosyldiacylglycerol, triacylglycerol and phosphatidate. Chloroplast lipids are altered in their fatty acid composition and as a consequence the development of chloroplasts in the mutants are impacted. The mutant seeds has a higher abortion rate. O.I. H.G. S.X.
0.32 35.7 At2g39290 818514 PGP1 (PHOSPHATIDYLGLYCEROLPHOSPHATE SYNTHASE 1) Encodes a phosphatidylglycerolphosphate synthase 2C which is dual-targeted into chloroplasts and mitochondria. Mutant plants have mutant chloroplasts but normal mitochondria. O.I. H.G. S.X.
0.29 30.3 At2g42070 818807 ATNUDX23 (ARABIDOPSIS THALIANA NUDIX HYDROLASE HOMOLOG 23) F:hydrolase activity, FAD diphosphatase activity;P:unknown;C:chloroplast;BOMAPF O.I. H.G. S.X.
0.29 30.3 At3g20390 821584 endoribonuclease L-PSP family protein F:endoribonuclease activity;P:response to cadmium ion;C:thylakoid, mitochondrion, chloroplast, plastid, vacuole;BOFMAP O.I. H.G. S.X.
0.25 22.6 At5g16620 831524 TIC40 chloroplast protein import (Tic40) O.I. H.G. S.X.
0.23 19.3 At5g19370 832057 rhodanese-like domain-containing protein / PPIC-type PPIASE domain-containing protein F:isomerase activity;P:biological_process unknown;C:chloroplast;BOMFPA O.I. H.G. S.X.
0.17 10.2 At3g24570 822053 peroxisomal membrane 22 kDa family protein F:molecular_function unknown;P:biological_process unknown;C:mitochondrion, integral to membrane, peroxisomal membrane;MFPO O.I. H.G. S.X.

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

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