CoP: Co-expressed Biological Processes

Gene omics information

Query gene ID At3g03710

Gene name RIF10 (resistant to inhibition with FSM 10)

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
0.55 70.6 At3g03710 821181 RIF10 (resistant to inhibition with FSM 10) Mutants impaired in the expression of this gene have been selected through their resistance to fosmidomycin, a strong inhibitor of DXR, an enzyme of the methylerythritol-dependent IPP biosynthesis pathway. The pathway enzymes were upregulated in the mutant seedlings. S.X. H.G.
0.67 81.6 At3g04340 819589 emb2458 (embryo defective 2458) F:nucleoside-triphosphatase activity, ATPase activity, metalloendopeptidase activity, nucleotide binding, ATP binding;P:embryonic development ending in seed dormancy;C:chloroplast, chloroplast envelope;OBMFPAV S.X. H.G.
0.60 75.7 At1g79560 844294 FTSH12 (FTSH PROTEASE 12) encodes an FtsH protease that is localized to the chloroplast S.X. H.G.
0.57 73.8 At3g16290 820876 EMB2083 (embryo defective 2083) F:in 8 functions;P:embryonic development ending in seed dormancy;C:chloroplast, chloroplast envelope;OBMFPAV S.X. H.G.
0.49 63.5 At5g64580 836579 AAA-type ATPase family protein F:nucleoside-triphosphatase activity, metalloendopeptidase activity, nucleotide binding, zinc ion binding, ATP binding;P:unknown;C:chloroplast, chloroplast envelope;BOMFPAV S.X. H.G.
0.41 52.4 At5g16715 831533 EMB2247 (embryo defective 2247) F:valine-tRNA ligase activity, nucleotide binding, aminoacyl-tRNA ligase activity, ATP binding;P:embryonic development ending in seed dormancy, tRNA aminoacylation for protein translation;C:chloroplast stroma, chloroplast;OBMAFP S.X. H.G.
0.37 45.0 At3g48110 823966 EDD1 (EMBRYO-DEFECTIVE-DEVELOPMENT 1) glycine-tRNA ligase S.X. H.G.
0.31 33.8 At1g55490 841996 CPN60B (CHAPERONIN 60 BETA) encodes the beta subunit of the chloroplast chaperonin 60, a homologue of bacterial GroEL. Mutants in this gene develops lesions on its leaves, expresses systemic acquired resistance (SAR) and develops accelerated cell death to heat shock stress. The protein has molecular chaperone activity for suppressing protein aggregation in vitro. S.X. H.G.
0.31 33.8 At4g20130 827759 PTAC14 (PLASTID TRANSCRIPTIONALLY ACTIVE14) F:unknown;P:unknown;C:plastid chromosome, chloroplast, nucleoid;PFMO S.X. H.G.
0.29 30.3 At3g59040 825073 pentatricopeptide (PPR) repeat-containing protein F:molecular_function unknown;P:biological_process unknown;C:chloroplast;POMFBA 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
19.2 99.6 GSM184152 35S:ATR1_like_miR_rep2 GSE7570 ATR1_like_Clade_OE_and_miR
19.0 99.5 GSM318621 Apex_mir-3TCP_14DAS_2 GSE12691 Knockdown and overexpression of CIN-TCP genes
15.4 99.5 GSM318619 Apex_Col_14DAS_2 GSE12691 Knockdown and overexpression of CIN-TCP genes
15.1 99.4 GSM131471 ATGE_7_A2 GSE5629 AtGenExpress: Developmental series (seedlings and whole plants)
14.6 99.4 GSM317619 Apex_14DAS_1 GSE12676 Arabidopsis thaliana Ler developmental series
13.2 99.4 GSM183513 MYB29_OE_rep1 GSE7570 ATR1_like_Clade_OE_and_miR
13.0 99.4 GSM183514 MYB29_OE_rep2 GSE7570 ATR1_like_Clade_OE_and_miR
12.3 99.3 GSM318331 EL_14DAS_2 GSE12676 Arabidopsis thaliana Ler developmental series
12.1 99.3 E-MEXP-300-raw-cel-460515139
12.0 99.3 GSM183516 MYB51_OE_rep1 GSE7570 ATR1_like_Clade_OE_and_miR
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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
0.15 1e-161 571 At2g47220 819335 3' exoribonuclease family domain 1 protein-related F:3'-5'-exoribonuclease activity, oxidoreductase activity, RNA binding;P:metabolic process, RNA processing;C:unknown;BOPMAFV C.G. S.X.
0.01 9e-2 40 At1g21050 838699 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P C.G. S.X.
0.01 3e-1 38 At5g05700 830454 ATE1 (ARGININE-TRNA PROTEIN TRANSFERASE 1) Encodes an arginyl-tRNA:protein transferase (ATE1), a component of the N-end rule pathway that targets protein degradation through the identity of the amino-terminal residue of specific protein substrates. Arabidopsis contains two ATE genes: At5g05700/ATE1, At3g11240/ATE2. Another component of the N-end rule pathway is At5g02310/PROTEOLYSIS6 (PRT6). PRT6 and ATE were shown to regulate seed after-ripening, seedling sugar sensitivity, seedling lipid breakdown, and abscisic acid (ABA) sensitivity of germination. Mutants of ATE1 also display delayed leaf senescence. C.G. S.X.
0.01 3e-1 38 At4g35120 829664 kelch repeat-containing F-box family protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPVBOFA C.G. S.X.
0.01 3e-1 38 At2g19090 816426 unknown protein F:molecular_function unknown;P:N-terminal protein myristoylation;C:cellular_component unknown;PMOFBV C.G. S.X.
0.01 3e-1 38 At1g04520 839502 PDLP2 (PLASMODESMATA-LOCATED PROTEIN 2) F:molecular_function unknown;P:N-terminal protein myristoylation, plasmodesmata-mediated intercellular transport;C:plasmodesma;PBFMO C.G. S.X.
0.01 3e-1 38 At1g14610 838023 TWN2 (TWIN 2) Required for proper proliferation of basal cells. C.G. S.X.
0.01 1e+0 36 At5g55660 835660 - F:unknown;P:unknown;C:mitochondrion;MOFBPVA C.G. S.X.
0.01 1e+0 36 At5g56950 835797 NAP1 Encodes a member of a small gene family of proteins with similarity to nucleosome assembly proteins.May function in nucleotide excision repair. Loss of function mutations have no obvious visible phenotypes but do seem to affect transcription of NER related genes. 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
0.01 1e-1 40 Glycine max GmaAffx.4452.1.S1_at BE657843 stress-induced receptor-like kinase 2 - 1e-7 At3g21340 leucine-rich repeat protein kinase, putative C.G. S.X.
0.01 7e-1 36 Hordeum vulgare AF427791_CDS-9_at AF427791_CDS-9 - - 2e-3 At1g73500 MKK9 (MAP KINASE KINASE 9) C.G. S.X.
0.22 2e-25 119 Oryza sativa Os07g0168000 AK065622.1 - Polyribonucleotide phophorylase (Fragment) 1e-25 At3g03710 RIF10 (resistant to inhibition with FSM 10) C.G. S.X.
0.43 2e-52 208 Populus trichocarpa PtpAffx.211100.1.S1_at pmrna21804 hypothetical protein - 2e-52 At3g03710 RIF10 (resistant to inhibition with FSM 10) C.G. S.X.
0.06 4e-10 67 Triticum aestivum Ta.15858.1.S1_at CA498869 - - 8e-11 At3g03710 RIF10 (resistant to inhibition with FSM 10) C.G. S.X.
0.01 4e-1 36 Vitis vinifera 1609773_at CB978867 hypothetical protein LOC100261732 - 1e+0 At3g11600 unknown protein C.G. S.X.
0.02 6e-1 36 Zea mays Zm.15507.1.A1_at CA405254 - - 1e+0 At4g38170 FRS9 (FAR1-related sequence 9) 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
X GO:0010323 Any process that stops, prevents or reduces the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of isopentenyl diphosphate produced via the methylerythritol (MEP) pathway (mevalonate-independent).
X GO:0015995 The chemical reactions and pathways resulting in the formation of chlorophyll, any compound of magnesium complexed in a porphyrin (tetrapyrrole) ring and which functions as a photosynthetic pigment, from less complex precursors.
X GO:0016120 The chemical reactions and pathways resulting in the formation of carotenes, hydrocarbon carotenoids.
X GO:0016123 The chemical reactions and pathways resulting in the formation of xanthophylls, oxygen-containing carotenoids.
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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
00230 Purine metabolism
00240 Pyrimidine metabolism
03018 RNA degradation
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