CoP: Co-expressed Biological Processes

Gene omics information

Query gene ID At1g03360

Gene name ATRRP4 (ARABIDOPSIS THALIANA RIBOSOMAL RNA PROCESSING 4)

Organism Arabidopsis thaliana

Co-expressed genes

As this page just shows up to 10 genes to the query, if you wish to have the complete list of co-expressed genes, click Gene/Probe ID.

VF %ile Gene/Probe ID Repr.ID Gene Name Functional Description S.X. H.G. Other DB
0.40 50.8 At1g03360 839521 ATRRP4 (ARABIDOPSIS THALIANA RIBOSOMAL RNA PROCESSING 4) F:RNA binding, exonuclease activity;P:unknown;C:mitochondrion;OMAFP S.X. H.G.
0.60 75.7 At2g19385 816457 zinc ion binding F:zinc ion binding;P:biological_process unknown;C:intracellular;MOFPB S.X. H.G.
0.50 65.3 At1g52930 841726 brix domain-containing protein F:unknown;P:unknown;C:cellular_component unknown;MFOP S.X. H.G.
0.44 57.2 At3g12270 820407 PRMT3 (PROTEIN ARGININE METHYLTRANSFERASE 3) F:methyltransferase activity, zinc ion binding;P:metabolic process;C:intracellular;MBOFPA S.X. H.G.
0.40 50.8 At1g04870 839393 PRMT10 Encodes a type I protein arginine methyltransferase based on the At1g04870.2 gene model. PRMT10 can catalyze the asymmetric dimethylation of arginine 3 on histone 4 and can also methylate myelin basic protein in vitro. Mutants lacking PRMT10 flower late due to defects in the autonomous pathway and they have elevated levels of FLC transcripts. S.X. H.G.
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Specifically expressed experiments

As this page just shows up to 10 assays to the query, if you wish to have the complete list of assays that the query gene/probe was specifically expressed, click here.
Std2 GX %ile GSM ID Assay Name GSE ID Experiment Title
46.8 99.8 GSM184556 Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
36.5 99.7 E-MEXP-849-raw-cel-1181981006
33.9 99.7 E-MEXP-849-raw-cel-1181981030
32.7 99.7 E-MEXP-849-raw-cel-1181981046
31.2 99.7 E-MEXP-849-raw-cel-1181981022
30.0 99.7 E-MEXP-849-raw-cel-1181981038
28.6 99.7 GSM133119 RIKEN-YAMAUCHI2A GSE5687 AtGenExpress: Different temperature treatment of seeds
28.5 99.7 GSM242959 Steroid day 3 (day3D1) GSE9605 Target genes of AGAMOUS during early flower development in Arabidopsis
27.1 99.7 GSM242954 Mock day 1 (day1E2) GSE9605 Target genes of AGAMOUS during early flower development in Arabidopsis
26.8 99.7 GSM133975 Birnbaum_1-5_StageI-2_Rep2_ATH1 GSE5749 A gene expression map of the Arabidopsis root
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Homologous genes

Paralogous genes

Click Gene ID to show a list of homologous genes.

HF Ev BS Gene ID Repr. ID Gene Name Functional description C.G. S.X. Other DB
0.01 5e-1 36 At3g07610 819952 IBM1 (increase in bonsai methylation 1) IBM1 likely encodes a protein with histone H3mK9 demethylation activity. It may preferentially demethylate H3mK9 at low-copy loci to protect them from silencing by nearby heterochromatin by preventing the spread of cytosine methylation. BONSAI (At1g73177) is hypermethylated in ibm1 mutants. ibm1 mutants have morphological defects that become apparent at the F3 generation, including small narrow leaves, arrested flower development, and faulty pollen development. These phenotypes cannot result solely from the BONSAI hypermethylation. Aberrant phenotypes in ibm1 mutants in both DNA methylation and plant development can be suppressed by mutations in the KYP H3K9 methyltransferase or he CMT3 non CG-cytosine methylase. C.G. S.X.
0.01 2e+0 34 At5g54380 835526 THE1 (THESEUS1) F:protein kinase activity, kinase activity;P:protein amino acid autophosphorylation;C:plasma membrane;MPOBFVA C.G. S.X.
0.02 2e+0 34 At4g03950 825705 glucose-6-phosphate/phosphate translocator, putative F:glucose-6-phosphate transmembrane transporter activity, glucose transmembrane transporter activity;P:hexose phosphate transport;C:unknown;PMOFB C.G. S.X.
0.02 2e+0 34 At3g23090 821884 - F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPOFBA C.G. S.X.
0.02 2e+0 34 At3g52230 824388 unknown protein F:molecular_function unknown;P:biological_process unknown;C:chloroplast outer membrane, chloroplast thylakoid membrane, chloroplast, chloroplast envelope;PM C.G. S.X.
0.01 2e+0 34 At1g71270 843468 POK (POKY POLLEN TUBE) Encodes a homolog of the yeast Vps52p/SAC2. Involved in pollen tube germination and growth. Located in multiple endomembrane organelles including the golgi. The yeast protein has been shown to be located at the late Golgi and to function in a complex involved in retrograde trafficking of vesicles between the early endosomal compartment and the trans-Golgi network. C.G. S.X.
0.01 2e+0 34 At1g69360 843268 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMOF C.G. S.X.
0.02 8e+0 32 At5g41810 834186 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;OMFPBV C.G. S.X.
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Orthologous genes

Click Gene ID to show a list of orthologous genes.

HF Ev BS Species Gene ID Repr. ID Gene Name Functional description Ev AGI code Arabidopsis gene name C.G. S.X. Other DB
0.16 3e-21 103 Glycine max GmaAffx.63608.1.S1_at BG406170 - - 2e-21 At1g03360 ATRRP4 (ARABIDOPSIS THALIANA RIBOSOMAL RNA PROCESSING 4) C.G. S.X.
0.03 6e-2 38 Hordeum vulgare HT09C18u_at HT09C18u - - 4e-2 At1g03360 ATRRP4 (ARABIDOPSIS THALIANA RIBOSOMAL RNA PROCESSING 4) C.G. S.X.
0.04 3e-4 48 Oryza sativa Os04g0520000 AK073454.1 - Nucleic acid-binding OB-fold domain containingprotein 4e-4 At1g03360 ATRRP4 (ARABIDOPSIS THALIANA RIBOSOMAL RNA PROCESSING 4) C.G. S.X.
0.15 5e-17 89 Populus trichocarpa Ptp.4077.1.S1_at CV266405 hypothetical protein - 6e-17 At1g03360 ATRRP4 (ARABIDOPSIS THALIANA RIBOSOMAL RNA PROCESSING 4) C.G. S.X.
0.02 5e-1 36 Triticum aestivum Ta.9400.3.S1_x_at CA699028 - - 1e-6 At3g15353 MT3 (METALLOTHIONEIN 3) C.G. S.X.
0.03 2e+0 32 Vitis vinifera 1619771_s_at CD798243 geranyl diphosphate synthase - 1e+0 At5g64350 FKBP12 (FK506-BINDING PROTEIN) C.G. S.X.
0.03 8e-1 34 Zea mays Zm.3025.1.S1_at AW288746 - - 1e+1 At5g11500 unknown protein C.G. S.X.
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Biological processes

Click GO ID to show a list of genes that are associated with the GO ID.

ECC GO ID Process Name
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Metabolic pathways

Click KaPPA-View ID to show a list of genes that are assigned to the KaPPA-View ID.

KaPPA-View ID Link to Kappa-View Pathway Name

Click KEGG PATHWAY ID to show a list of genes that are assigned to the KEGG PATHWAY ID.

KEGG PATHWAY ID Link to KEGG PATHWAY Pathway Name
03018 RNA degradation
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