CoP: Co-expressed Biological Processes

Gene omics information

Query gene ID At1g66530

Gene name arginyl-tRNA synthetase, putative / arginine--tRNA ligase, putative

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
1.00 100.0 At1g66530 842971 arginyl-tRNA synthetase, putative / arginine--tRNA ligase, putative F:aminoacyl-tRNA ligase activity, nucleotide binding, arginine-tRNA ligase activity, ATP binding;P:arginyl-tRNA aminoacylation, translation, tRNA aminoacylation for protein translation;C:cytoplasm;OBMAFPV S.X. H.G.
0.67 81.6 At4g29830 829105 VIP3 (vernalization independence 3) The protein is composed of repeats of WD motif which is involved in protein complex formation. The gene is involved in flower timing and flower development. This gene is predicted to encode a protein with a DWD motif. It can bind to DDB1a in Y2H assays, and DDB1b in co-IP assays, and may be involved in the formation of a CUL4-based E3 ubiquitin ligase. Loss of gene function leads to a redistribution of H3K4me3 and K3K36me2 modifications within genes but not a change in the overall abundance of these modifications within chromatin. S.X. H.G.
0.30 32.1 At3g60830 825254 ATARP7 (ACTIN-RELATED PROTEIN 7) Encodes an actin-related protein required for normal embryogenesis, plant architecture and floral organ abscission. S.X. H.G.
0.23 19.3 At1g04190 839442 tetratricopeptide repeat (TPR)-containing protein F:binding;P:biological_process unknown;C:cellular_component unknown;OBMPFA S.X. H.G.
0.22 17.5 At3g62940 825469 OTU-like cysteine protease family protein F:cysteine-type peptidase activity;P:biological_process unknown;C:cellular_component unknown;OMFBPVA S.X. H.G.
0.20 14.4 At1g25350 839120 OVA9 (ovule abortion 9) F:glutamine-tRNA ligase activity;P:glutamyl-tRNA aminoacylation, translation, ovule development;C:cytosol;BOMFAP S.X. H.G.
0.18 11.4 At5g51120 835186 PABN1 (POLYADENYLATE-BINDING PROTEIN 1) Encodes a homolog of the protein PABN1, a polyadenylation factor subunit. S.X. H.G.
0.14 6.8 At1g24510 839066 T-complex protein 1 epsilon subunit, putative / TCP-1-epsilon, putative / chaperonin, putative F:unfolded protein binding, protein binding, ATP binding;P:protein folding, cellular protein metabolic process;C:plasma membrane;BOMFPA S.X. H.G.
Click here to hide the above table.

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
40.1 99.8 GSM133756 Lindsey_1-10_heart-stage-root_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
34.7 99.7 GSM133768 Lindsey_1-20_torpedo-basal_Rep5_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
32.1 99.7 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
26.6 99.7 GSM133755 Lindsey_1-7_heart-stage-cotyledon_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
15.4 99.5 GSM133774 Lindsey_1-26_torpedo-meristem_Rep2_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
14.6 99.4 GSM133763 Lindsey_1-15_torpedo-cotyledon_Rep2_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
14.3 99.4 E-MEXP-1797-raw-cel-1669768039
13.6 99.4 GSM133772 Lindsey_1-24_torpedo-apical_Rep6_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
13.3 99.4 E-MEXP-1797-raw-cel-1669768057
13.3 99.4 GSM142737 DH001_ATH1_A4-UNM2 GSE6162 Transcriptome analysis of Arabidopsis microgametogenesis
Click here to hide the above table.

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
0.85 0 2030 At4g26300 828736 emb1027 (embryo defective 1027) F:nucleotide binding, aminoacyl-tRNA ligase activity, arginine-tRNA ligase activity, ATP binding;P:embryonic development ending in seed dormancy, arginyl-tRNA aminoacylation;C:mitochondrion, chloroplast;OBMAFPV C.G. S.X.
0.01 9e-1 36 At4g10930 826692 unknown protein F:unknown;P:unknown;C:cellular_component unknown;MOFBP C.G. S.X.
0.01 9e-1 36 At3g22450 821816 structural constituent of ribosome F:structural constituent of ribosome;P:translation;C:mitochondrion, ribosome, intracellular;PBOM C.G. S.X.
0.01 4e+0 34 At5g52882 5008305 ATP binding / nucleoside-triphosphatase/ nucleotide binding F:nucleoside-triphosphatase activity, nucleotide binding, ATP binding;P:biological_process unknown;C:endomembrane system;BOMFPAV C.G. S.X.
0.01 4e+0 34 At5g55740 835668 CRR21 (chlororespiratory reduction 21) Encodes a member of the E+ subgroup of the PPR protein family, containing the E and E+ motifs following a tandem array of PPR motifs. It also contains an unknown motif consisting of 15 aa, which is highly conserved in some PPR proteins, including CRR4. CRR21 is involved in RNA editing of the site 2 of ndhD (ndhD-2),which encodes a subunit of the NDH complex. The RNA editing changes aa 128 from Ser to Leu. Mutants have impaired NDH complex activity. C.G. S.X.
0.01 4e+0 34 At5g23570 832422 SGS3 (SUPPRESSOR OF GENE SILENCING 3) Required for posttranscriptional gene silencing and natural virus resistance.SGS3 is a member of an 'unknown' protein family. Members of this family have predicted coiled coiled domains suggesting oligomerization and a potential zinc finger domain. Involved in the production of trans-acting siRNAs, through direct or indirect stabilization of cleavage fragments of the primary ta-siRNA transcript. Acts before RDR6 in this pathway. C.G. S.X.
0.01 4e+0 34 At5g58380 835951 SIP1 (SOS3-INTERACTING PROTEIN 1) Encodes a CBL-interacting protein kinase with similarity to SOS protein kinase. C.G. S.X.
0.01 4e+0 34 At4g14570 827104 acylaminoacyl-peptidase-related F:serine-type peptidase activity;P:proteolysis;C:chloroplast, vacuole;BOMFPA C.G. S.X.
0.01 4e+0 34 At4g35970 829751 APX5 (ASCORBATE PEROXIDASE 5) Encodes a microsomal ascorbate peroxidase APX5. Ascorbate peroxidases are enzymes that scavenge hydrogen peroxide in plant cells. Eight types of APX have been described for Arabidopsis: three cytosolic (APX1, APX2, APX6), two chloroplastic types (stromal sAPX, thylakoid tAPX), and three microsomal (APX3, APX4, APX5) isoforms. C.G. S.X.
Click here to hide the above table.

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 2e-8 61 Glycine max Gma.10893.1.S1_at BE659457 arginyl-tRNA synthetase - 7e-20 At4g26300 emb1027 (embryo defective 1027) C.G. S.X.
0.18 1e-22 107 Hordeum vulgare Contig9377_at Contig9377 - - 4e-27 At4g26300 emb1027 (embryo defective 1027) C.G. S.X.
0.20 9e-18 93 Oryza sativa Os05g0163000 AK066161.1 - Arginyl-tRNA synthetase, class Ic family protein 2e-20 At4g26300 emb1027 (embryo defective 1027) C.G. S.X.
0.31 6e-18 93 Populus trichocarpa Ptp.1743.1.A1_a_at CV271562 hypothetical protein - 3e-45 At4g26300 emb1027 (embryo defective 1027) C.G. S.X.
0.21 1e-18 95 Triticum aestivum Ta.2176.1.S1_at CK206562 - - 1e-25 At4g26300 emb1027 (embryo defective 1027) C.G. S.X.
0.02 3e-1 36 Vitis vinifera 1611954_at CF516533 hypothetical protein LOC100250957 - 1e+0 At4g08260 protein phosphatase 2C, putative / PP2C, putative C.G. S.X.
0.09 2e-6 54 Zea mays Zm.7543.1.A1_at CD997722 hypothetical protein LOC100192002 - 4e-6 At1g66530 arginyl-tRNA synthetase, putative / arginine--tRNA ligase, putative C.G. S.X.
Click here to hide the above table.

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:0006420 The process of coupling arginine to arginyl-tRNA, catalyzed by arginyl-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.
Click here to hide the above table.

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
Click here to hide the above table.

Back to the CoP portal site

Back to the KAGIANA project homepage