CoP: Co-expressed Biological Processes

Gene omics information

Query gene ID At4g38890

Gene name dihydrouridine synthase 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
0.71 84.2 At4g38890 830044 dihydrouridine synthase family protein F:tRNA dihydrouridine synthase activity, FAD binding, catalytic activity;P:oxidation reduction, tRNA processing, metabolic process;C:vacuole;BOMFPA S.X. H.G.
0.96 97.3 At3g62330 825406 zinc knuckle (CCHC-type) family protein F:zinc ion binding, nucleic acid binding;P:biological_process unknown;C:cellular_component unknown;MOFPBV S.X. H.G.
0.93 96.4 At2g21195 816656 unknown protein F:molecular_function unknown;P:response to oxidative stress;C:cellular_component unknown;P S.X. H.G.
0.93 96.4 At4g01570 828133 pentatricopeptide (PPR) repeat-containing protein F:unknown;P:biological_process unknown;C:unknown;POFMBA S.X. H.G.
0.93 96.4 At5g18570 831975 GTP1/OBG family protein F:GTP binding, nucleotide binding;P:unknown;C:intracellular, chloroplast;BOMFAPV S.X. H.G.
0.92 96.0 At2g20740 816603 - F:molecular_function unknown;P:biological_process unknown;C:endomembrane system, integral to membrane;PO S.X. H.G.
0.92 96.0 At5g32450 833204 RNA recognition motif (RRM)-containing protein F:oxidoreductase activity, nucleotide binding, nucleic acid binding;P:oxidation reduction;C:unknown;PFMO S.X. H.G.
0.90 95.1 At1g07970 837312 unknown protein F:molecular_function unknown;P:biological_process unknown;C:unknown;MPFOB S.X. H.G.
0.90 95.1 At1g15080 838072 LPP2 (LIPID PHOSPHATE PHOSPHATASE 2) Encodes phosphatidic acid phosphatase. Involved in ABA signaling. Functions as a negative regulator upstream of ABI4. Expressed during germination and seed development. Expressed overall in young seedlings, in roots, hypocotyls, and vascular cells of cotyledons and leaves of 10 day-old seedlings, in flower filaments and stem elongation zones. Not expressed in anthers, pollen nor petals. S.X. H.G.
0.90 95.1 At2g38880 818472 NF-YB1 (NUCLEAR FACTOR Y, SUBUNIT B1) Encodes a transcription factor from the nuclear factor Y (NF-Y) family, AtNF-YB1. Confers drought tolerance. 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
540.9 100.0 GSM133757 Lindsey_1-8_heart-stage-cotyledon_Rep2_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
38.0 99.8 GSM133770 Lindsey_1-22_torpedo-apical_Rep4_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
24.7 99.6 GSM265418 Arabidopsis, root, longitudinal zone 1, standard conditions, rep 1 GSE10497 Expression analysis of root developmental zones after iron deficiency (-Fe) treatment
22.9 99.6 GSM133767 Lindsey_1-19_torpedo-basal_Rep4_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
21.0 99.6 GSM133975 Birnbaum_1-5_StageI-2_Rep2_ATH1 GSE5749 A gene expression map of the Arabidopsis root
20.0 99.6 GSM265426 Arabidopsis, root, longitudinal zone 1, -Fe conditions, rep 1 GSE10497 Expression analysis of root developmental zones after iron deficiency (-Fe) treatment
20.0 99.6 GSM252685 Arabidopsis Root from tip to 130 mm proximal to tip (cut 8dpg) rep2 GSE9996 Organ regeneration in plants is independent of stem cell niche activity
19.5 99.6 GSM265419 Arabidopsis, root, longitudinal zone 1, standard conditions, rep 2 GSE10497 Expression analysis of root developmental zones after iron deficiency (-Fe) treatment
18.6 99.5 GSM133769 Lindsey_1-21_torpedo-basal_Rep6_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
18.4 99.5 GSM252688 Regenerating Stump of Root Tip Cut at 130 mm first and then Recut after 0 hrs Taking 70 mm of Stump (8 dpg) rep2 GSE9996 Organ regeneration in plants is independent of stem cell niche activity
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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 3e-1 38 At5g19420 832062 Ran GTPase binding / chromatin binding / zinc ion binding F:chromatin binding, zinc ion binding, Ran GTPase binding;P:unknown;C:unknown;MOPBFAV C.G. S.X.
0.01 3e-1 38 At3g27310 822350 PUX1 (PLANT UBX DOMAIN-CONTAINING PROTEIN 1) encodes a protein that contains a UBX domain and regulates AtCDC48 by inhibiting its ATPase activity and by promoting the disassembly of the active hexamer. Phenotypic analysis of pux1 plants revealed that the loss of PUX1 accelerated the growth of various plant organs including roots and inflorescence shoots. AtCDC48 and SYP31 colocalize at the division plane during cytokinesis and to interact in vitro and in vivo. C.G. S.X.
0.01 3e-1 38 At1g74690 843808 IQD31 (IQ-domain 31) F:calmodulin binding;P:biological_process unknown;C:cytosol, plasma membrane;MOFPBVA C.G. S.X.
0.01 1e+0 36 At3g59160 825085 - F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P C.G. S.X.
0.02 1e+0 36 At2g32360 817797 ubiquitin family protein F:molecular_function unknown;P:protein modification process;C:cellular_component unknown;MOFPVBA C.G. S.X.
0.01 1e+0 36 At2g44110 819017 MLO15 (MILDEW RESISTANCE LOCUS O 15) A member of a large family of seven-transmembrane domain proteins specific to plants, homologs of the barley mildew resistance locus o (MLO) protein. The Arabidopsis genome contains 15 genes encoding MLO proteins, with localization in plasma membrane. Phylogenetic analysis revealed four clades of closely-related AtMLO genes. ATMLO15 belongs to the clade II, with ATMLO13 and ATMLO15. The gene is expressed during early seedling growth, in root tips and flower (papillae, anthers and pollen grains), as shown by GUS activity patterns. The expression of several phylogenetically closely-related AtMLO genes showed similar or overlapping tissue specificity and analogous responsiveness to external stimuli, suggesting functional redundancy, co-function, or antagonistic function(s). C.G. S.X.
0.01 1e+0 36 At1g54820 841921 protein kinase family protein F:protein serine/threonine kinase activity, protein tyrosine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:unknown;MPOBFVA C.G. S.X.
0.01 1e+0 36 At1g05140 839307 membrane-associated zinc metalloprotease, putative F:protein binding, metalloendopeptidase activity;P:proteolysis;C:chloroplast, plastid;BOPAMF 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 5e-19 97 Glycine max Gma.3912.1.S1_at CD417964 - - 1e-19 At4g38890 dihydrouridine synthase family protein C.G. S.X.
0.01 2e+0 34 Hordeum vulgare rbaak34i24_s_at rbaak34i24 - - 3e-1 At5g59870 HTA6 C.G. S.X.
0.17 2e-19 99 Oryza sativa Os04g0117600 AK111699.1 - Dihydrouridine synthase, DuS family protein 1e-19 At4g38890 dihydrouridine synthase family protein C.G. S.X.
0.17 2e-30 135 Populus trichocarpa Ptp.8031.1.A1_at DN485987 hypothetical protein - 5e-31 At4g38890 dihydrouridine synthase family protein C.G. S.X.
0.04 3e-1 38 Triticum aestivum Ta.25338.1.A1_at CD454629 - - 9e-2 At4g38890 dihydrouridine synthase family protein C.G. S.X.
0.01 3e-1 36 Vitis vinifera 1615187_at CB001773 hypothetical protein LOC100253047 - 6e-3 At5g58003 CPL4 (C-TERMINAL DOMAIN PHOSPHATASE-LIKE 4) C.G. S.X.
0.01 5e-1 36 Zea mays Zm.16963.1.S1_at CF635658 voltage-gated potassium channel beta subunit - 2e-4 At1g04690 KAB1 (POTASSIUM CHANNEL BETA SUBUNIT) 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
L GO:0008033 The process by which a pre-tRNA molecule is converted to a mature tRNA, ready for addition of an aminoacyl group.
L GO:0008152 The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.
L GO:0055114 The process of removal or addition of one or more electrons with or without the concomitant removal or addition of a proton or protons.
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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
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