Gene omics information

Query gene ID At1g25540
Gene name PFT1 (PHYTOCHROME AND FLOWERING TIME 1)
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
1.00100.0At1g25540839141PFT1 (PHYTOCHROME AND FLOWERING TIME 1)Encodes a nuclear protein that acts in a phyB pathway (but downstream of phyB) and induces flowering in response to suboptimal light conditions. Mutants are hypo-responsive to far-red and hyper-responsive to red light and flower late under long day conditions.S.X.H.G.
0.5065.3At1g61850842482galactolipase/ phospholipaseEncodes a non-specific lipase that hydrolyzes phospholipids as well as galactolipids, at both sn-1 and sn-2 positions. Involved in basal jasmonic acid biosynthesis by releasing the precursor fatty acid from membrane lipids. Mutant plants were impacted in resistance to fungus B. cinerea.S.X.H.G.
0.3846.7At1g54170841857CID3 (CTC-Interacting Domain 3)ataxin-2-related, similar to SCA2 (GI:1770390) (Homo sapiens); similar to ataxin-2 (GI:3005020) (Mus musculus). Member of a family of PAM2 motif containing proteins.S.X.H.G.
0.3643.6At1g07470837259transcription factor IIA large subunit, putative / TFIIA large subunit, putativeF:RNA polymerase II transcription factor activity, transcription factor activity;P:transcription initiation from RNA polymerase II promoter, transcription;C:transcription factor TFIIA complex;MFPOBVS.X.H.G.
0.3643.6At4g19600827702CYCT1Encodes a cyclin T partner CYCT1;4. Plays important roles in infection with Cauliflower mosaic virus (CaMV).S.X.H.G.
0.3541.6At4g18260827552cytochrome B561-relatedF:unknown;P:unknown;C:membrane;OPMFBVS.X.H.G.
0.3338.1At3g12570820437FYDF:unknown;P:unknown;C:chloroplast envelope;PS.X.H.G.
0.3032.1At5g55100835601SWAP (Suppressor-of-White-APricot)/surp domain-containing proteinF:RNA binding;P:RNA processing;C:cellular_component unknown;MOFPBVAS.X.H.G.
0.2930.3At4g24680828570-F:molecular_function unknown;P:unknown;C:unknown;OMFBPVAS.X.H.G.
0.2930.3At2g24830817020zinc finger (CCCH-type) family protein / D111/G-patch domain-containing proteinF:zinc ion binding, nucleic acid binding;P:biological_process unknown;C:intracellular;MFPOBS.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
479.7100.0GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
339.4100.0GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
316.2100.0GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
224.1100.0GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
176.4100.0GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
80.999.9GSM284394Arabidopsis GCE3GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
41.799.8GSM284389Arabidopsis GMPE2GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
41.099.8GSM284392Arabidopsis GCE1GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
40.699.8GSM142735DH001_ATH1_A2-BCP1GSE6162Transcriptome analysis of Arabidopsis microgametogenesis
39.199.8GSM142738DH001_ATH1_A5-BCP2GSE6162Transcriptome analysis of Arabidopsis microgametogenesis
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Homologous genes



Paralogous genes



Click Gene ID to show a list of homologous genes.

HFEvBSGene IDRepr. IDGene NameFunctional descriptionC.G.S.X.Other DB
0.015e-344At4g22470828342protease inhibitor/seed storage/lipid transfer protein (LTP) family proteinF:lipid binding;P:lipid transport;C:endomembrane system;MBOPFVAC.G.S.X.
0.018e-240At1g22300838837GRF10 (GENERAL REGULATORY FACTOR 10)Encodes a 14-3-3 protein. This protein is reported to interact with the BZR1 transcription factor involved in brassinosteroid signaling and may affect the nucleocytoplasmic shuttling of BZR1C.G.S.X.
0.013e-138At3g26120822211TEL1 (TERMINAL EAR1-LIKE 1)Similar to terminal ear1 in Zea mays. A member of mei2-like gene family; phylogenetic analysis revealed that TEL1 belongs to the third clade of mei2-like proteins (TEL clade), with conserved two N-terminal RNA recognition motifs (RRM), in addition to the C-terminal RRM, shared among all mei2-like proteins.C.G.S.X.
0.011e+036At5g61660836288glycine-rich proteinF:molecular_function unknown;P:biological_process unknown;C:endomembrane system;BMOPFVAC.G.S.X.
0.011e+036At3g13880820601pentatricopeptide (PPR) repeat-containing proteinF:unknown;P:biological_process unknown;C:unknown;POMFBC.G.S.X.
0.011e+036At1g11710837715pentatricopeptide (PPR) repeat-containing proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POMFBAC.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
0.222e-34149Glycine maxGmaAffx.85901.1.S1_atBF069141--3e-35At1g25540PFT1 (PHYTOCHROME AND FLOWERING TIME 1)C.G.S.X.
0.131e-1481Hordeum vulgareContig13671_atContig13671--1e-14At1g25540PFT1 (PHYTOCHROME AND FLOWERING TIME 1)C.G.S.X.
0.013e+036Oryza sativaOsAffx.9687.1.S1_at---0C.G.S.X.
0.212e-77291Populus trichocarpaPtpAffx.208968.1.S1_s_atpmrna17776hypothetical protein-1e-77At1g25540PFT1 (PHYTOCHROME AND FLOWERING TIME 1)C.G.S.X.
0.052e-861Triticum aestivumTaAffx.122320.1.S1_atBQ620251--2e-8At1g25540PFT1 (PHYTOCHROME AND FLOWERING TIME 1)C.G.S.X.
0.014e-136Vitis vinifera1614966_atBQ796346similar to pumilio domain-containing protein PPD1-1e-9At2g29190APUM2 (Arabidopsis Pumilio 2)C.G.S.X.
0.032e-654Zea maysZm.4762.1.A1_atBG874087--2e-6At1g25540PFT1 (PHYTOCHROME AND FLOWERING TIME 1)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.

ECCGO IDProcess Name
XGO:0009585The sequence of reactions within a cell required to convert absorbed photons from red or far-red light into a molecular signal; the red, far-red light range is defined as having a wavelength within the range 660-730 nm.
XGO:0010218A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of far red light stimulus. Far red light is electromagnetic radiation of wavelength 700-800nm. An example of this response is seen at the beginning of many plant species developmental stages. These include germination, and the point when cotyledon expansion is triggered. In certain species these processes take place in response to absorption of red light by the pigment molecule phytochrome, but the signal can be reversed by exposure to far red light. During the initial phase the phytochrome molecule is only present in the red light absorbing form, but on absorption of red light it changes to a far red light absorbing form, triggering progress through development. An immediate short period of exposure to far red light entirely returns the pigment to its initial state and prevents triggering of the developmental process. A thirty minute break between red and subsequent far red light exposure renders the red light effect irreversible, and development then occurs regardless of whether far red light exposure subsequently occurs.
XGO:0010114A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a red light stimulus. Red light is electromagnetic radiation of wavelength of 580-700nm. An example of this response is seen at the beginning of many plant species developmental stages. These include germination, and the point when cotyledon expansion is triggered. In certain species these processes take place in response to absorption of red light by the pigment molecule phytochrome, but the signal can be reversed by exposure to far red light. During the initial phase the phytochrome molecule is only present in the red light absorbing form, but on absorption of red light it changes to a far red light absorbing form, triggering progress through development. An immediate short period of exposure to far red light entirely returns the pigment to its initial state and prevents triggering of the developmental process. A thirty minute break between red and subsequent far red light exposure renders the red light effect irreversible, and development then occurs regardless of whether far red light exposure subsequently occurs.
XGO:0045941Any process that activates or increases the frequency, rate or extent of transcription.
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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.

KEGG PATHWAY IDLink to KEGG PATHWAYPathway Name
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