PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID 477591
Common NameARALYDRAFT_477591
Organism
Arabidopsis lyrata
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Family GRAS
Protein Properties Length: 546aa    MW: 60110.5 Da    PI: 4.6739
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
477591genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS451.94e-1381745361374
    GRAS   1 lvelLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPilkfshltaNqaIl 103
             lv++L++cAea+++++l+la+al++r+ +la++++ +m ++a+yf++ALa+r++r      +  +  et+ +  s e   +  f++ +P+lkf+h+taNqaIl
  477591 174 LVHALVACAEAIQQENLNLADALVKRVGTLAASQAGAMGKVATYFAQALARRIYR------DYTA--ETDVSGGSFEEVLQMHFYDSCPYLKFAHFTANQAIL 268
             689****************************************************......2222..2222234444444456******************** PP

    GRAS 104 eavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesgskeeleetgerLakfAeelgvpfefnvlvakrledleleeLrvkp.gEalaVn 205
             eav++++rvH+iD++++qG+QWpaL+qaLa Rp+gpps+R+Tg+g+p+++++++l+++g++La+fA+++gv+fef+ l++++l+dle+e+++++p  E+l+Vn
  477591 269 EAVATARRVHVIDLGLNQGMQWPALMQALALRPGGPPSFRLTGIGPPQTENSDSLQQLGWKLAQFAQNMGVEFEFKGLATESLSDLEPEMFETRPdSETLVVN 371
             ***********************************************************************************************99****** PP

    GRAS 206 lvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfdsleaklpreseerikvErellgreivnvvacegaerrer 308
             +v++lhrll++s+s+e+    +L++vk ++P +++vveqea+hn+  Fl+rf eal+yys+lfdsle + ++  ++++++++++lgr+i nvva+eg++r+er
  477591 372 SVFELHRLLARSGSIEK----LLNTVKAIKPSIITVVEQEANHNGIVFLDRFNEALHYYSSLFDSLEDS-GSLPSQDRVMSEVYLGRQILNVVAAEGSDRVER 469
             *****************....*********************************************999.55567778889999******************* PP

    GRAS 309 hetlekWrerleeaGFkpvplsekaakqaklllrkvk.sdgyrveeesgslvlgWkdrpLvsvSaWr 374
             het+++Wr r+++aGF pv+l+++a kqa++ll+ ++ +dgyrvee++g+l++gW++rpL+++SaW+
  477591 470 HETVAQWRIRMKSAGFDPVHLGSSAFKQASMLLSLYAtGDGYRVEENDGCLMIGWQTRPLITTSAWK 536
             ******************************************************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF120412.0E-3438103IPR021914Transcriptional factor DELLA, N-terminal
SMARTSM011291.7E-3938109No hitNo description
PROSITE profilePS5098567.392148515IPR005202Transcription factor GRAS
PfamPF035141.4E-135174536IPR005202Transcription factor GRAS
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009723Biological Processresponse to ethylene
GO:0009737Biological Processresponse to abscisic acid
GO:0009740Biological Processgibberellic acid mediated signaling pathway
GO:0009863Biological Processsalicylic acid mediated signaling pathway
GO:0009867Biological Processjasmonic acid mediated signaling pathway
GO:0010187Biological Processnegative regulation of seed germination
GO:0042538Biological Processhyperosmotic salinity response
GO:0090378Biological Processseed trichome elongation
GO:2000033Biological Processregulation of seed dormancy process
GO:2000273Biological Processpositive regulation of receptor activity
GO:2000377Biological Processregulation of reactive oxygen species metabolic process
GO:0005634Cellular Componentnucleus
Sequence ? help Back to Top
Protein Sequence    Length: 546 aa     Download sequence    Send to blast
MKRGHGETWD PPPASRSREG PSMADKKKVA DDNNNMDDEL LAVLGYKVRS SEMAEVAQKL  60
EQLEMVLSND DVGSTVLNDT VHYNPSDLST WVESMLSELN NPTSSDLDPT RSCVDRSEYD  120
LRAIPGLSAF PKEEEVFDEE ASSKRIRLGS WCESAGESTR SVVLVDSQET GVRLVHALVA  180
CAEAIQQENL NLADALVKRV GTLAASQAGA MGKVATYFAQ ALARRIYRDY TAETDVSGGS  240
FEEVLQMHFY DSCPYLKFAH FTANQAILEA VATARRVHVI DLGLNQGMQW PALMQALALR  300
PGGPPSFRLT GIGPPQTENS DSLQQLGWKL AQFAQNMGVE FEFKGLATES LSDLEPEMFE  360
TRPDSETLVV NSVFELHRLL ARSGSIEKLL NTVKAIKPSI ITVVEQEANH NGIVFLDRFN  420
EALHYYSSLF DSLEDSGSLP SQDRVMSEVY LGRQILNVVA AEGSDRVERH ETVAQWRIRM  480
KSAGFDPVHL GSSAFKQASM LLSLYATGDG YRVEENDGCL MIGWQTRPLI TTSAWKLAGG  540
GESRR*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3g_A1e-6418153526378Protein SCARECROW
5b3h_A1e-6418153525377Protein SCARECROW
5b3h_D1e-6418153525377Protein SCARECROW
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcriptional regulator that acts as a repressor of the gibberellin (GA) signaling pathway. No effect of the BOI proteins on its stability. Probably acts by participating in large multiprotein complexes that repress transcription of GA-inducible genes. Upon GA application, it is degraded by the proteasome, allowing the GA signaling pathway. Acts as a major GA-response repressor of seed germination, including seed thermoinhibition. Promotes the biosynthesis of abscisic acid (ABA), especially in seed coats to maintain seed dormancy. Delays flowering and adult leaf production. Also regulates the floral development, petal, stamen and anther development, by repressing the continued growth of floral organs. Its activity is probably regulated by other phytohormones such as auxin and ethylene. Involved in the regulation of seed dormancy and germination, including glucose-induced delay of seed germination. Promotes salt tolerance. Acts as a repressor of positive regulators of trichome initiation. Required during the flagellin-derived peptide flg22-mediated growth inhibition. Contributes to the susceptibility to the biotrophic pathogen P.syringae pv. tomato and to the resistance to the necrotrophic pathogens B.cinerea A.brassicicola, probably by repressing the SA-defense pathway and preventing cell death. Prevents stress-induced reactive oxygen species (ROS) accumulation (e.g. salt stress) by acting on the ROS scavenging system, and delays ROS-induced cell death, thus promoting stress tolerance. {ECO:0000269|PubMed:11877383, ECO:0000269|PubMed:12610625, ECO:0000269|PubMed:14615596, ECO:0000269|PubMed:14973286, ECO:0000269|PubMed:15128937, ECO:0000269|PubMed:16034591, ECO:0000269|PubMed:16400150, ECO:0000269|PubMed:16916886, ECO:0000269|PubMed:17141619, ECO:0000269|PubMed:17384169, ECO:0000269|PubMed:17704233, ECO:0000269|PubMed:18162586, ECO:0000269|PubMed:18450450, ECO:0000269|PubMed:18450451, ECO:0000269|PubMed:18941053, ECO:0000269|PubMed:20093430, ECO:0000269|PubMed:20956298}.
Cis-element ? help Back to Top
SourceLink
PlantRegMap477591
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Up-regulated transiently following seed imbibition to decline rapidly as germination proceeds; this induction is delayed at supraoptimal temperature conditions (e.g. 34 degrees Celsius). Accumulates in seed coats of dormant seeds where germination does not occur after imbibition. Increased levels upon abscisic acid (ABA) treatment. Down-regulated by norflurazon (NF), an ABA biosynthesis inhibitor. Induced by stress such as glucose, salt or mannitol treatment. {ECO:0000269|PubMed:11877383, ECO:0000269|PubMed:16916886, ECO:0000269|PubMed:17384169, ECO:0000269|PubMed:18162586, ECO:0000269|PubMed:18450450, ECO:0000269|PubMed:18941053, ECO:0000269|PubMed:20956298}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankGQ1777590.0GQ177759.1 Arabidopsis thaliana ecotype Cvi-0 RGL2 gene, complete sequence.
GenBankGQ1777600.0GQ177760.1 Arabidopsis thaliana ecotype C24 RGL2 gene, complete sequence.
GenBankGQ1777610.0GQ177761.1 Arabidopsis thaliana ecotype Sorbo RGL2 gene, complete sequence.
GenBankGQ1777650.0GQ177765.1 Arabidopsis thaliana ecotype Bay-0 RGL2 gene, complete sequence.
GenBankGQ1777720.0GQ177772.1 Arabidopsis thaliana ecotype Kas-2 RGL2 gene, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_020888663.10.0DELLA protein RGL2
SwissprotQ8GXW10.0RGL2_ARATH; DELLA protein RGL2
TrEMBLD7L0H60.0D7L0H6_ARALL; Uncharacterized protein
STRINGfgenesh2_kg.3__292__AT3G03450.10.0(Arabidopsis lyrata)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM83728121
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G03450.10.0RGA-like 2
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  2. Gallego-Giraldo C, et al.
    Role of the gibberellin receptors GID1 during fruit-set in Arabidopsis.
    Plant J., 2014. 79(6): p. 1020-1032
    [PMID:24961590]
  3. Fukazawa J, et al.
    DELLAs function as coactivators of GAI-ASSOCIATED FACTOR1 in regulation of gibberellin homeostasis and signaling in Arabidopsis.
    Plant Cell, 2014. 26(7): p. 2920-38
    [PMID:25035403]
  4. Hauvermale AL,Tuttle KM,Takebayashi Y,Seo M,Steber CM
    Loss of Arabidopsis thaliana Seed Dormancy is Associated with Increased Accumulation of the GID1 GA Hormone Receptors.
    Plant Cell Physiol., 2015. 56(9): p. 1773-85
    [PMID:26136598]
  5. Ibarra SE, et al.
    Molecular mechanisms underlying the entrance in secondary dormancy of Arabidopsis seeds.
    Plant Cell Environ., 2016. 39(1): p. 213-21
    [PMID:26177669]
  6. Zhong C, et al.
    Gibberellic Acid-Stimulated Arabidopsis6 Serves as an Integrator of Gibberellin, Abscisic Acid, and Glucose Signaling during Seed Germination in Arabidopsis.
    Plant Physiol., 2015. 169(3): p. 2288-303
    [PMID:26400990]
  7. Dave A,Vaistij FE,Gilday AD,Penfield SD,Graham IA
    Regulation of Arabidopsis thaliana seed dormancy and germination by 12-oxo-phytodienoic acid.
    J. Exp. Bot., 2016. 67(8): p. 2277-84
    [PMID:26873978]
  8. Kazachkova Y, et al.
    Salt Induces Features of a Dormancy-Like State in Seeds of Eutrema (Thellungiella) salsugineum, a Halophytic Relative of Arabidopsis.
    Front Plant Sci, 2016. 7: p. 1071
    [PMID:27536302]
  9. Liu X, et al.
    The NF-YC-RGL2 module integrates GA and ABA signalling to regulate seed germination in Arabidopsis.
    Nat Commun, 2016. 7: p. 12768
    [PMID:27624486]
  10. Ravindran P,Verma V,Stamm P,Kumar PP
    A Novel RGL2-DOF6 Complex Contributes to Primary Seed Dormancy in Arabidopsis thaliana by Regulating a GATA Transcription Factor.
    Mol Plant, 2017. 10(10): p. 1307-1320
    [PMID:28917589]