Gene omics information

Query gene ID At5g17790
Gene name VAR3 (VARIEGATED 3)
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%ileGene/Probe IDRepr.IDGene NameFunctional DescriptionS.X.H.G.Other DB
1.00100.0At5g17790831647VAR3 (VARIEGATED 3)Encodes a 85.9 kDa protein containing novel repeats and zinc fingers described as protein interaction domains. VAR3 is a part of a protein complex required for normal chloroplast and palisade cell development. Mutants display a variegated phenotype due to somatic areas lacking or containing developmentally retarded chloroplasts and greatly reduced numbers of palisade cells.S.X.H.G.
0.4558.3At3g23020821876pentatricopeptide (PPR) repeat-containing proteinF:binding;P:biological_process unknown;C:chloroplast;POMFBAS.X.H.G.
0.3948.4At5g39710833967EMB2745 (EMBRYO DEFECTIVE 2745)F:unknown;P:embryonic development ending in seed dormancy;C:unknown;POMFBAS.X.H.G.
0.3745.0At1g17850838364-F:molecular_function unknown;P:biological_process unknown;C:chloroplast;OBPMFS.X.H.G.
0.3643.6At4g14605827109-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMOS.X.H.G.
0.3133.8At4g30000829123dihydropterin pyrophosphokinase, putative / dihydropteroate synthase, putative / DHPS, putativeF:2-amino-4-hydroxy-6-hydroxymethyldihydropteridine diphosphokinase activity, dihydropteroate synthase activity;P:cellular metabolic process, folic acid and derivative biosynthetic process;C:unknown;BOFAPMS.X.H.G.
0.2830.3At4g14510827098RNA bindingF:RNA binding;P:biological_process unknown;C:chloroplast;POMFBVAS.X.H.G.
0.2830.3At1g09820837514pentatricopeptide (PPR) repeat-containing proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POMFBAS.X.H.G.
0.2726.2At2g38570818439-F:molecular_function unknown;P:biological_process unknown;C:unknown;BPOS.X.H.G.
0.2624.4At4g15820827263-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;OMFPBVS.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%ileGSM IDAssay NameGSE IDExperiment Title
187.1100.0GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis root
136.499.9GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
129.999.9GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1
110.599.9GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
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Homologous genes

Paralogous genes

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HFEvBSGene IDRepr. IDGene NameFunctional descriptionC.G.S.X.Other DB
0.013e-138At3g27410822362unknown proteinF:molecular_function unknown;P:biological_process unknown;C:anchored to membrane;PC.G.S.X.
0.011e+036At4g37180829872myb family transcription factormyb family transcription factor, contains Pfam domain, PF00249: Myb-like DNA-binding domain l; also isolated as a putative cytoskeletal protein in a yeast screenC.G.S.X.
0.011e+036At4g21120827860AAT1 (AMINO ACID TRANSPORTER 1)Encodes a member of the cationic amino acid transporter (CAT) subfamily of amino acid polyamine choline transporters. Mediates efficient uptake of Lys, Arg and Glu in a yeast system.C.G.S.X.
0.011e+036At3g09560820113lipin family proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;BMOFPVAC.G.S.X.
0.011e+036At1g76680844001OPR1Encodes a a member of an alpha/beta barrel fold family of FMN-containing oxidoreductases. One of two closely related 12-oxophytodienoic acid reductases. This enzyme is not expected to participate in jasmonic acid biosynthesis because during in vitro assays, it shows very little activity with the naturally occurring OPDA isomer. Up-regulated by senescence and jasmonic acid. Induced by salicylic acid. Independent of NPR1 for their induction by salicylic acid.C.G.S.X.
0.011e+036At1g68050843133FKF1 (FLAVIN-BINDING, KELCH REPEAT, F BOX 1)Encodes FKF1, a flavin-binding kelch repeat F box protein, is clock-controlled, regulates transition to flowering. Forms a complex with GI on the CO promoter to regulate CO expression.C.G.S.X.
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Orthologous genes

Click Gene ID to show a list of orthologous genes.

HFEvBSSpeciesGene IDRepr. IDGene NameFunctional descriptionEvAGI codeArabidopsis gene nameC.G.S.X.Other DB
0.083e-861Glycine maxGmaAffx.69683.1.S1_atCA799656--7e-9At5g17790VAR3 (VARIEGATED 3)C.G.S.X.
0.016e-136Hordeum vulgareContig25150_atContig25150--3e-1At3g23400plastid-lipid associated protein PAP / fibrillin family proteinC.G.S.X.
0.056e-1067Oryza sativaOs01g0815700AK073519.1-Zn-finger, Ran-binding domain containing protein5e-10At5g17790VAR3 (VARIEGATED 3)C.G.S.X.
0.066e-344Populus trichocarpaPtpAffx.158573.1.S1_atCX658654hypothetical protein-1e-3At5g17790VAR3 (VARIEGATED 3)C.G.S.X.
0.021e+036Triticum aestivumTa.18833.1.S1_atCA642739--2e+0At5g19260unknown proteinC.G.S.X.
0.107e-21101Vitis vinifera1617399_atCB342525hypothetical protein LOC100262132-5e-21At5g17790VAR3 (VARIEGATED 3)C.G.S.X.
0.013e-240Zea maysZm.12657.1.A1_atCA826570--1e-1At1g11580PMEPCRA (METHYLESTERASE PCR A)C.G.S.X.
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Biological processes

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ECCGO IDProcess Name
XGO:0009658A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of the chloroplast.
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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 IDLink to Kappa-ViewPathway Name

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

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