Information report for AT4G16250
Gene Details
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Functional Descriptions
- PO:0009005 — root — raíz (Spanish, exact), radices (exact, plural), radix (exact), 根 (Japanese, exact), aerial root (narrow), climbing root (narrow)
- GO:0006355 — involved in — regulation of DNA-templated transcription
- GO:0042802 — enables — identical protein binding
- GO:0009883 — enables — red or far-red light photoreceptor activity
- GO:0009585 — involved in — red, far-red light phototransduction
- GO:0009584 — involved in — detection of visible light
- GO:0005515 — enables — protein binding
- GO:0010017 — acts upstream of or within — red or far-red light signaling pathway
- GO:0005886 — located in — plasma membrane
- GO:0005634 — is active in — nucleus
- GO:0005634 — located in — nucleus
- GO:0042803 — enables — protein homodimerization activity
- GO:0000155 — enables — phosphorelay sensor kinase activity
Functional Keywords
Literature and News
- Phytochromes, cryptochromes, phototropin: photoreceptor interactions in plants. DOI: 10.1562/0031-8655(2000)071<0001:pcppii>2.0.co;2 ; PMID: 10649883
- Functional interaction of cryptochrome 1 and phytochrome D. DOI: 10.1046/j.1365-313x.1999.t01-1-00599.x ; PMID: 10571889
- Characterization of the gene encoding the apoprotein of phytochrome B2 in tomato, and identification of molecular lesions in two mutant alleles. DOI: 10.1007/s004380051037 ; PMID: 10485280
- Phytochrome D acts in the shade-avoidance syndrome in Arabidopsis by controlling elongation growth and flowering time. DOI: 10.1104/pp.119.3.909 ; PMID: 10069829
- Phytochrome E influences internode elongation and flowering time in Arabidopsis. DOI: 10.1105/tpc.10.9.1479 ; PMID: 9724694
- Coordination of phytochrome levels in phyB mutants of Arabidopsis as revealed by apoprotein-specific monoclonal antibodies. DOI: 10.1093/genetics/149.2.523 ; PMID: 9611171
- Differential patterns of expression of the Arabidopsis PHYB, PHYD, and PHYE phytochrome genes. DOI: 10.1104/pp.115.3.959 ; PMID: 9390432
- A deletion in the PHYD gene of the Arabidopsis Wassilewskija ecotype defines a role for phytochrome D in red/far-red light sensing. DOI: 10.1105/tpc.9.8.1317 ; PMID: 9286109
- Computer analysis of phytochrome sequences and reevaluation of the phytochrome secondary structure by Fourier transform infrared spectroscopy. DOI: 10.1016/s0167-4838(97)00050-2 ; PMID: 9252112
- The phytochrome gene family in grasses (Poaceae): a phylogeny and evidence that grasses have a subset of the loci found in dicot angiosperms. DOI: 10.1093/oxfordjournals.molbev.a025677 ; PMID: 8865668
- Impaired splicing of phytochrome B pre-mRNA in a novel phyB mutant of Arabidopsis. DOI: 10.1007/BF00020886 ; PMID: 7539307
- Tomato contains two differentially expressed genes encoding B-type phytochromes, neither of which can be considered an ortholog of Arabidopsis phytochrome B. DOI: 10.1007/BF00239958 ; PMID: 7580861
- The phytochrome apoprotein family in Arabidopsis is encoded by five genes: the sequences and expression of PHYD and PHYE. DOI: 10.1007/BF00043870 ; PMID: 8049367
- Negative interference of endogenous phytochrome B with phytochrome A function in Arabidopsis. DOI: 10.1104/pp.125.2.1036 ; PMID: 11161059
- Molecular and phenotypic specificity of an antisense PHYB gene in Arabidopsis. DOI: 10.1023/a:1010686805488 ; PMID: 11437253
- shl, a New set of Arabidopsis mutants with exaggerated developmental responses to available red, far-red, and blue light. DOI: 10.1104/pp.127.1.295 ; PMID: 11553757
- Phytochromes A and B mediate red-light-induced positive phototropism in roots. DOI: 10.1104/pp.013847 ; PMID: 12644690
- Signaling activities among the Arabidopsis phyB/D/E-type phytochromes: a major role for the central region of the apoprotein. DOI: 10.1046/j.1365-313x.2003.01722.x ; PMID: 12713538
- Differential activities of the Arabidopsis phyB/D/E phytochromes in complementing phyB mutant phenotypes. DOI: 10.1023/a:1023901718508 ; PMID: 12825695
- Isolation and characterization of phyC mutants in Arabidopsis reveals complex crosstalk between phytochrome signaling pathways. DOI: 10.1105/tpc.012971 ; PMID: 12953104
- Constitutive photomorphogenesis 1 and multiple photoreceptors control degradation of phytochrome interacting factor 3, a transcription factor required for light signaling in Arabidopsis. DOI: 10.1105/tpc.021568 ; PMID: 15155879
- Heterodimerization of type II phytochromes in Arabidopsis. DOI: 10.1073/pnas.0404286101 ; PMID: 15273290
- The roles of phytochromes in elongation and gravitropism of roots. DOI: 10.1093/pcp/pci038 ; PMID: 15695459
- Analysis of the function of the photoreceptors phytochrome B and phytochrome D in Nicotiana plumbaginifolia and Arabidopsis thaliana. DOI: 10.1093/pcp/pci073 ; PMID: 15753105
- Changes in photoperiod or temperature alter the functional relationships between phytochromes and reveal roles for phyD and phyE. DOI: 10.1104/pp.102.018135 ; PMID: 12692350
- phyA dominates in transduction of red-light signals to rapidly responding genes at the initiation of Arabidopsis seedling de-etiolation. DOI: 10.1111/j.1365-313X.2006.02914.x ; PMID: 17076805
- Phytochrome A is an irradiance-dependent red light sensor. DOI: 10.1111/j.1365-313X.2007.03036.x ; PMID: 17346261
- Diversification of phytochrome contributions to germination as a function of seed-maturation environment. DOI: 10.1111/j.1469-8137.2007.02281.x ; PMID: 18028293
- Light-induced phosphorylation and degradation of the negative regulator PHYTOCHROME-INTERACTING FACTOR1 from Arabidopsis depend upon its direct physical interactions with photoactivated phytochromes. DOI: 10.1105/tpc.108.060020 ; PMID: 18539749
- Obligate heterodimerization of Arabidopsis phytochromes C and E and interaction with the PIF3 basic helix-loop-helix transcription factor. DOI: 10.1105/tpc.108.065227 ; PMID: 19286967
- Blue light induces degradation of the negative regulator phytochrome interacting factor 1 to promote photomorphogenic development of Arabidopsis seedlings. DOI: 10.1534/genetics.108.099887 ; PMID: 19255368
- Phytochromes differentially regulate seed germination responses to light quality and temperature cues during seed maturation. DOI: 10.1111/j.1365-3040.2009.01998.x ; PMID: 19453482
- Phylogenetic relationships of B-related phytochromes in the Brassicaceae: Redundancy and the persistence of phytochrome D. DOI: 10.1016/j.ympev.2008.07.026 ; PMID: 18768161
- Arabidopsis PHYTOCHROME INTERACTING FACTOR proteins promote phytochrome B polyubiquitination by COP1 E3 ligase in the nucleus. DOI: 10.1105/tpc.109.072520 ; PMID: 20605855
- PFT1, the MED25 subunit of the plant Mediator complex, promotes flowering through CONSTANS dependent and independent mechanisms in Arabidopsis. DOI: 10.1111/j.1365-313X.2011.04815.x ; PMID: 21985558
- The light-response BTB1 and BTB2 proteins assemble nuclear ubiquitin ligases that modify phytochrome B and D signaling in Arabidopsis. DOI: 10.1104/pp.112.199109 ; PMID: 22732244
- Comparative functional analysis of full-length and N-terminal fragments of phytochrome C, D and E in red light-induced signaling. DOI: 10.1111/nph.12364 ; PMID: 23772959
- Functional diversity of phytochrome family in the control of light and gibberellin-mediated germination in Arabidopsis. DOI: 10.1111/pce.12286 ; PMID: 24471455
- In response to partial plant shading, the lack of phytochrome A does not directly induce leaf senescence but alters the fine-tuning of chlorophyll biosynthesis. DOI: 10.1093/jxb/eru060 ; PMID: 24604733
- Mutants of phospholipase A (pPLA-I) have a red light and auxin phenotype. DOI: 10.1111/pce.12278 ; PMID: 24433169
- FHY3 and FAR1 Act Downstream of Light Stable Phytochromes. DOI: 10.3389/fpls.2016.00175 ; PMID: 26941752
- PHYD prevents secondary dormancy establishment of seeds exposed to high temperature and is associated with lower PIL5 accumulation. DOI: 10.1093/jxb/ery140 ; PMID: 29648603
- Differential phosphorylation of the N-terminal extension regulates phytochrome B signaling. DOI: 10.1111/nph.16243 ; PMID: 31596952
- Photoreceptors' gene expression of Arabidopsis thaliana grown with biophilic LED-sourced lighting systems. DOI: 10.1371/journal.pone.0269868 ; PMID: 35687579
- Phytochromes and Their Role in Diurnal Variations of ROS Metabolism and Plant Proteome. DOI: 10.3390/ijms232214134 ; PMID: 36430613
- Functional Mapping of Genes Modulating Plant Shade Avoidance Using Leaf Traits. DOI: 10.3390/plants12030608 ; PMID: 36771692
- Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. DOI: 10.1093/molbev/msj051 ; PMID: 16280546
Gene Resources
- UniProt: A0A654FPT9
- EMBL: CACRSJ010000109, CACSHJ010000095
- AlphaFoldDB: A0A654FPT9
- EnsemblPlants: AT4G16250.1
- Gramene: AT4G16250.1
- KEGG: ath:AT4G16250
- Orthologous matrix: GWPRSEV
- ExpressionAtlas: AT4G16250
- InterPro: IPR000014, IPR001294, IPR003018
- PANTHER: PTHR47876, PTHR47876:SF3
- SUPFAM: SSF55781, SSF55785, SSF55874
- PROSITE: PS00245, PS50046, PS50109
- Gene3D: 3.30.450.20, 3.30.450.270, 3.30.450.40
- OrthoDB: A0A654FPT9
- SWISS-MODEL: A0A654FPT9
- Conserved Domain Database: cd00082, cd00130, cd16932
Sequences
cDNA Sequence
- >AT4G16250.1
AAGTTTTTGGAACTTTTAACGAAATTTTAATAGACGAGGGAGTCAAATCATAAAGAGAACAAGGTCATCGTCTTCTTTAATCCTTGAGTTCACCACCTCTTCTGCTTCATTTTAATTGGTTTTTGAGAGCCTTAAGAAAAATTCAAATTGGTTTCTGTTTTATCATTTTACAAACTTCGCCGTTAAGCTAGCGACGGTGATAATTCAAGCTTCCCAAAAATCCTTATGAGTATCATTTTTGAGCTCTTACAGTGAAGATTTGTGAAAGTGTGGTTTCGAATCCAATGATTGAAGAAGATTTTCTTCGTCTCTCGCACTAATTCTTTGAAATTCCAAAACCATTAACTGAGAAAAATGGTCTCCGGAGGTGGTAGCAAAACCAGCGGTGGAGAGGCAGCTTCCTCAGGCCATCGCCGAAGTCGTCACACCAGCGCTGCAGAACAAGCTCAGTCGTCAGCAAACAAAGCCCTAAGGTCACAGAATCAGCAGCCACAAAACCACGGTGGCGGAACAGAGTCCACAAACAAAGCTATTCAACAGTACACTGTCGACGCGAGACTCCACGCCGTCTTCGAACAATCCGGAGAGTCAGGTAAGTCGTTTGATTACTCACAGTCTCTTAAAACGGCGCCGTACGATTCCTCCGTACCAGAGCAGCAGATCACAGCTTATCTCTCCCGGATCCAACGCGGTGGCTATACCCAGCCTTTTGGCTGCTTGATCGCCGTCGAAGAATCCACTTTCACAATCATCGGTTACAGTGAAAATGCGCGGGAAATGCTAGGGCTCATGTCTCAATCTGTACCAAGCATCGAGGACAAATCAGAGGTTTTAACGATTGGTACGGATTTGCGATCTCTCTTCAAGTCATCGAGCTACCTTCTCCTCGAGCGCGCGTTCGTGGCTCGAGAGATCACGCTTCTGAATCCTATTTGGATTCACTCTAACAACACTGGTAAACCTTTCTACGCGATTCTCCACAGGGTTGATGTTGGAATTTTGATCGATTTAGAGCCGGCTCGAACCGAAGATCCGGCACTTTCAATCGCCGGAGCAGTCCAATCGCAGAAACTTGCGGTACGTGCGATTTCTCATTTACAATCGTTGCCTAGCGGCGACATTAAGCTTCTATGTGACACTGTTGTGGAAAGCGTTAGAGATCTTACTGGCTACGACCGCGTTATGGTGTACAAGTTTCATGAAGATGAACATGGTGAAGTCGTAGCCGAGAGTAAACGGAACGATTTAGAGCCTTACATTGGTCTGCATTATCCCGCTACTGATATTCCTCAGGCATCTCGGTTCTTGTTCAAGCAAAACCGTGTTAGGATGATAGTAGATTGCTATGCGTCACCGGTTCGTGTGGTTCAAGACGATAGGCTCACGCAGTTTATATGCTTGGTGGGTTCGACTTTGCGAGCTCCTCATGGCTGTCATGCTCAATACATGACTAACATGGGCTCTATTGCGTCGTTAGCTATGGCAGTTATAATAAATGGAAACGAAGAAGATGGTAATGGGGTTAATACTGGAGGAAGAAACTCGATGAGGCTTTGGGGTTTAGTTGTTTGCCATCACACATCAGCTCGTTGCATACCTTTTCCTTTGAGGTACGCTTGTGAGTTTCTTATGCAGGCCTTTGGCTTACAGCTAAACATGGAGTTGCAGTTAGCCTTGCAGGTGTCTGAAAAACGCGTTCTGAGAATGCAGACACTATTATGTGATATGCTTCTACGTGACTCACCAGCGGGGATTGTCACGCAGAGGCCTAGTATCATGGATTTAGTAAAATGTAATGGTGCGGCATTTCTTTACCAAGGGAAGTATTATCCGTTGGGTGTGACTCCAACTGATTCTCAGATTAATGACATTGTGGAGTGGTTGGTTGCTAACCATTCTGATTCTACCGGGTTAAGCACAGATAGTTTAGGCGATGCGGGTTATCCTCGGGCAGCTGCTTTGGGAGATGCTGTGTGCGGTATGGCAGTCGCGTGTATCACAAAAAGGGACTTCCTTTTCTGGTTTCGGTCTCATACTGAGAAAGAAATCAAATGGGGAGGGGCTAAGCACCATCCTGAGGACAAAGATGATGGTCAGCGGATGAATCCGCGTTCTTCGTTCCAGACTTTTCTCGAAGTTGTTAAGAGCCGATGTCAGCCATGGGAAACTGCTGAAATGGACGCCATTCACTCGCTCCAGCTTATTCTAAGAGACTCTTTCAAAGAGTCTGAAGCGATGGACTCTAAAGCTGCTGCAGCTGGGGCGGTTCAGCCACATGGAGATGATATGGTACAGCAAGGGATGCAGGAGATAGGTGCAGTTGCAAGAGAGATGGTTAGGCTCATTGAGACTGCGACGGTTCCTATATTTGCTGTGGACATAGACGGTTGCATCAATGGGTGGAACGCCAAGATCGCAGAGCTGACCGGTCTTTCTGTTGAAGACGCTATGGGAAAGTCGCTGGTTCGCGAATTGATATACAAAGAGTACAAAGAAACAGTTGATAGGCTTCTTTCTTGTGCTCTCAAAGGGGATGAAGGCAAGAATGTGGAGGTCAAGCTGAAAACTTTTGGTTCCGAGCTACAAGGAAAAGCAATGTTTGTGGTTGTCAACGCATGTTCAAGCAAGGACTACTTAAACAACATCGTTGGAGTCTGCTTTGTTGGACAAGATGTAACTGGTCATAAAATTGTTATGGACAAGTTCATCAACATACAAGGTGATTACAAGGCCATCATCCATAGCCCGAACCCTCTGATCCCTCCAATCTTTGCAGCGGATGAGAATACGTGCTGCCTTGAGTGGAACACTGCAATGGAAAAGCTCACAGGCTGGCCTCGCAGCGAAGTGATTGGAAAATTACTTGTTAGGGAAGTATTTGGGAGCTATTGCAGACTAAAGGGTCCTGATGCGTTAACTAAGTTCATGATCGTCTTGCATAACGCGATCGGTGGCCAAGATACTGATAAATTCCCATTCCCGTTCTTTGATCGCAAAGGGGAATTCATTCAGGCTCTCCTGACTTTGAACAAACGGGTCAGCATCGATGGCAAAATCATTGGGGCTTTCTGTTTTTTGCAGATACCGAGTCCCGAGCTGCAGCAAGCTCTAGAAGTTCAGAGGAGGCAGGAGAGTGAATATTTCTCAAGGAGGAAAGAGTTGGCTTACATTTTCCAAGTTATAAAGAATCCATTGAGTGGATTGCGTTTCACAAATTCATTGCTGGAAGACATGGATTTAAACGAGGATCAGAAGCAGCTTCTTGAAACGAGTGTTTCATGTGAGAAGCAGATCTCAAAGATTGTAGGAGACATGGACGTCAAAAGCATAGATGACGGTTCATTTCTGCTAGAGAGAACAGAGTTCTTCATTGGCAATGTCACAAATGCAGTGGTAAGCCAAGTCATGTTGGTGGTGAGAGAGAGAAATCTCCAGCTGATCCGTAACATTCCCACGGAGGTCAAATCCATGGCTGTCTACGGTGACCAGATAAGGCTCCAACAGGTTCTCGCAGAATTTCTGCTAAGTATTGTCCGTTATGCACCCATGGAAGGCTCGGTAGAGCTCCATCTATGCCCGACTCTGAACCAAATGGCTGACGGATTCTCCGCTGTACGTTTGGAGTTCAGAATGGCGTGTGCAGGGGAAGGTGTGCCGCCAGAGAAAGTGCAAGACATGTTCCATAGTAGCCGATGGACAAGTCCAGAAGGATTAGGACTAAGCGTTTGCAGAAAGATTTTGAAGCTGATGAACGGAGGGGTTCAGTACATAAGAGAATTCGAACGCTCTTATTTCCTAATCGTTATCGAACTCCCGGTTCCTCTAATGATGATGATGCCCTCTTCATGAGTGGCATTGAATGTTTTGATTTTGGTCCGGGTAGGTTTAGAAGGAAGTACTTTTGCTACGGGGTACATGTAAGAGTAGTAGTTATAGTTGGGAACTTTTTTGGTTGATTCCCTTACGCTGTGTATATTATTATAGTCTCAGACTCTCAGTCATAGAATGTGAGAGTAGTTGTTTGTGATAATGTAATATCTTTCCTCTGCGTATAGCTGGTTCGTGAGGCTTCTAAAACACAAGATCATGACGAAGATAAAATGTGGAAGTCTGATTTCGATTATGTAGAAAACATTGGAGCGTTAGAGATACTAAAATAAAAAAACAAAACTGATATCAATGAATCAAATTTATGCATGCAGAT
CDS Sequence
Protein Sequence