CoP: Co-expressed Biological Processes

Gene omics information

Query gene ID At3g58140

Gene name phenylalanyl-tRNA synthetase class IIc family protein

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
0.67 81.6 At3g58140 824983 phenylalanyl-tRNA synthetase class IIc family protein F:in 6 functions;P:tRNA processing, phenylalanyl-tRNA aminoacylation, translation, tRNA aminoacylation for protein translation;C:mitochondrion, chloroplast, membrane;BOMFAP S.X. H.G.
0.63 78.1 At5g13120 831151 peptidyl-prolyl cis-trans isomerase cyclophilin-type family protein F:peptidyl-prolyl cis-trans isomerase activity;P:protein folding;C:thylakoid, thylakoid lumen, chloroplast thylakoid membrane, chloroplast thylakoid lumen, chloroplast;OBMFPAV S.X. H.G.
0.63 78.1 At3g10670 820236 ATNAP7 Plastidic SufC-like ATP-binding cassette/ATPase essential for Arabidopsis embryogenesis. Involved in the biogenesis and/or repair of oxidatively damaged Fe–S clusters. Expressed in embryos and meristems. S.X. H.G.
0.44 57.2 At5g19370 832057 rhodanese-like domain-containing protein / PPIC-type PPIASE domain-containing protein F:isomerase activity;P:biological_process unknown;C:chloroplast;BOMFPA S.X. H.G.
0.43 55.3 At4g36390 829791 radical SAM domain-containing protein / TRAM domain-containing protein F:iron-sulfur cluster binding, catalytic activity;P:biological_process unknown;C:chloroplast;OBMAP S.X. H.G.
0.38 46.7 At3g51140 824278 - F:unknown;P:biological_process unknown;C:chloroplast, chloroplast inner membrane, chloroplast envelope;BPO S.X. H.G.
0.33 38.1 At1g12410 837797 CLP2 (CLP PROTEASE PROTEOLYTIC SUBUNIT 2) Encodes a ClpP-related sequence. Though similar to ClpP proteins, this does not contains the highly conserved catalytic triad of Ser-type proteases (Ser-His-Asp). The name reflects nomenclature described in Adam et. al (2001). S.X. H.G.
0.29 30.3 At2g21170 816652 TIM (TRIOSEPHOSPHATE ISOMERASE) Encodes triosephosphate isomerase. 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
10.3 99.2 GSM183512 MYB76_OE_rep2 GSE7570 ATR1_like_Clade_OE_and_miR
7.9 98.9 GSM318627 Apex_BLS>>TCP4_14DAS_2 GSE12691 Knockdown and overexpression of CIN-TCP genes
7.9 98.9 GSM318331 EL_14DAS_2 GSE12676 Arabidopsis thaliana Ler developmental series
6.8 98.7 GSM318330 EL_14DAS_1 GSE12676 Arabidopsis thaliana Ler developmental series
6.2 98.6 GSM183511 MYB76_OE_rep1 GSE7570 ATR1_like_Clade_OE_and_miR
6.2 98.6 E-ATMX-25-raw-cel-1441077420
6.2 98.6 GSM133268 RIKEN-GODA5B-6 GSE5696 AtGenExpress: Effect of brassinosteroids in seedlings
6.0 98.5 GSM184151 ATR1_OE_rep2 GSE7570 ATR1_like_Clade_OE_and_miR
5.8 98.4 GSM133276 RIKEN-GODA9B-6 GSE5696 AtGenExpress: Effect of brassinosteroids in seedlings
5.8 98.4 GSM131498 ATGE_5_A GSE5630 AtGenExpress: Developmental series (leaves)
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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
0.02 2e-1 38 At5g67430 836879 GCN5-related N-acetyltransferase (GNAT) family protein F:N-acetyltransferase activity;P:metabolic process;C:cellular_component unknown;PBA C.G. S.X.
0.01 6e-1 36 At5g57130 835819 protein binding F:protein binding;P:protein metabolic process;C:cellular_component unknown;PBOAM C.G. S.X.
0.02 6e-1 36 At1g76770 844011 heat shock protein-related F:molecular_function unknown;P:biological_process unknown;C:unknown;OMBFPVA C.G. S.X.
0.01 6e-1 36 At1g07725 837287 ATEXO70H6 (exocyst subunit EXO70 family protein H6) A member of EXO70 gene family, putative exocyst subunits, conserved in land plants. Arabidopsis thaliana contains 23 putative EXO70 genes, which can be classified into eight clusters on the phylogenetic tree. C.G. S.X.
0.02 6e-1 36 At1g72890 843620 disease resistance protein (TIR-NBS class), putative F:transmembrane receptor activity, ATP binding;P:signal transduction, defense response, apoptosis, innate immune response;C:intrinsic to membrane;PBMO C.G. S.X.
0.01 3e+0 34 At5g27970 832867 binding F:binding;P:biological_process unknown;C:cellular_component unknown;MFOPB C.G. S.X.
0.01 3e+0 34 At5g02390 830266 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;OMFPBVA C.G. S.X.
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Orthologous genes

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HF Ev BS Species Gene ID Repr. ID Gene Name Functional description Ev AGI code Arabidopsis gene name C.G. S.X. Other DB
0.24 3e-19 97 Glycine max Gma.1742.1.A1_at BI967509 - - 2e-19 At3g58140 phenylalanyl-tRNA synthetase class IIc family protein C.G. S.X.
0.33 2e-20 99 Hordeum vulgare Contig8405_at Contig8405 - - 7e-20 At3g58140 phenylalanyl-tRNA synthetase class IIc family protein C.G. S.X.
0.28 4e-19 97 Oryza sativa Os.27772.2.S1_at - - - 0 C.G. S.X.
0.41 2e-75 284 Populus trichocarpa PtpAffx.132845.1.S1_at CN523811 hypothetical protein - 1e-75 At3g58140 phenylalanyl-tRNA synthetase class IIc family protein C.G. S.X.
0.18 9e-25 115 Triticum aestivum TaAffx.102021.1.S1_at CA656613 - - 7e-25 At3g58140 phenylalanyl-tRNA synthetase class IIc family protein C.G. S.X.
0.15 3e-28 125 Vitis vinifera 1620553_at CF211773 hypothetical protein LOC100265994 - 4e-28 At3g58140 phenylalanyl-tRNA synthetase class IIc family protein C.G. S.X.
0.25 9e-23 107 Zea mays Zm.10591.1.S1_at BQ479053 hypothetical protein LOC100194290 - 3e-22 At3g58140 phenylalanyl-tRNA synthetase class IIc family 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
C GO:0006432 The process of coupling phenylalanine to phenylalanyl-tRNA, catalyzed by phenylalanyl-tRNA synthetase. In tRNA aminoacylation, the amino acid is first activated by linkage to AMP and then transferred to either the 2'- or the 3'-hydroxyl group of the 3'-adenosine residue of the tRNA.
L GO:0006412 The cellular metabolic process by which a protein is formed, using the sequence of a mature mRNA molecule to specify the sequence of amino acids in a polypeptide chain. Translation is mediated by the ribosome, and begins with the formation of a ternary complex between aminoacylated initiator methionine tRNA, GTP, and initiation factor 2, which subsequently associates with the small subunit of the ribosome and an mRNA. Translation ends with the release of a polypeptide chain from the ribosome.
L GO:0006418 The synthesis of aminoacyl tRNA by the formation of an ester bond between the 3'-hydroxyl group of the most 3' adenosine of the tRNA, to be used in ribosome-mediated polypeptide synthesis.
L GO:0008033 The process by which a pre-tRNA molecule is converted to a mature tRNA, ready for addition of an aminoacyl group.
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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
00067 tRNA-charging-pathway

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
00970 Aminoacyl-tRNA biosynthesis
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