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 488615
Common NameARALYDRAFT_488615
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: 507aa    MW: 55116.1 Da    PI: 4.4959
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
488615genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS430.61.2e-1311404991374
    GRAS   1 lvelLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPilkfshltaNqaIl 103
             lv++L++cAeav++++l+la+al++r+  la++++ +m ++a+yf+eALa+r++r        ++ps+++ + s ee+     f++ +P+lkf+h+taNqaIl
  488615 140 LVQALVACAEAVQHENLSLADALVKRVGSLAASQAGAMGKVATYFAEALARRIYR--------IHPSSAAIDPSFEEILQ-MNFYDSCPYLKFAHFTANQAIL 233
             689****************************************************........55555554445555444.46******************** PP

    GRAS 104 eavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesgskeeleetgerLakfAeelgvpfefnvlvakrledleleeLrvkp.gEalaVn 205
             eav +++ vH+iD++++qG+QWpaL+qaLa Rp+gpps+R+Tgvg p+  +++ ++e+g +La++A+++gv+fef+ l+++rl+dle+++++++p  E+l+Vn
  488615 234 EAVTTSRGVHVIDLGLNQGMQWPALMQALALRPGGPPSFRLTGVGTPS--NRDGIQELGGKLAQLAHAIGVEFEFSGLTTERLSDLEPDMFETRPdSETLVVN 334
             **********************************************88..9********************************************99****** PP

    GRAS 206 lvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfdsleaklpreseerikvErellgreivnvvacegaerrer 308
             +v++lh +l++++s+e+    +L +v+ ++P +v+vveqea+hn++ Fl+rf eal+yys+lfdsle ++   s++r+ +++++lgr+i nvva+eg +r+er
  488615 335 SVFELHPVLSQPGSIEK----LLATVNAVKPGLVTVVEQEANHNGAGFLDRFNEALHYYSSLFDSLEDGVVIPSQDRV-MSEVYLGRQILNVVAAEGIDRIER 432
             *****************....************************************************988888776.56677******************* PP

    GRAS 309 hetlekWrerleeaGFkpvplsekaakqaklllrkvk.sdgyrveeesgslvlgWkdrpLvsvSaWr 374
             hetl++Wr+r+e+aGF pv+l+++a kqa+lll+  + +dgyrvee++gsl+l W+++pL+++SaW+
  488615 433 HETLAQWRKRMENAGFDPVNLGSDAFKQASLLLALSGgGDGYRVEENDGSLMLAWQTKPLIAASAWK 499
             ******************************************************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF120416.7E-321884IPR021914Transcriptional factor DELLA, N-terminal
SMARTSM011296.9E-381890No hitNo description
PROSITE profilePS5098564.122114478IPR005202Transcription factor GRAS
PfamPF035144.3E-129140499IPR005202Transcription factor GRAS
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009739Biological Processresponse to gibberellin
Sequence ? help Back to Top
Protein Sequence    Length: 507 aa     Download sequence    Send to blast
MTEKLEGSGC GGGDDNMDEL LAVLGYKVRS SDMADVAQKL EQLEMVLSND ICPSNNALND  60
TVHYNPSDLS GWAHSMLSEL NYYPDLDPTR ICDLRPIQDD DECCSSSNSN KRIRLGPWSD  120
SVSSDSTRSV VLIEETGVRL VQALVACAEA VQHENLSLAD ALVKRVGSLA ASQAGAMGKV  180
ATYFAEALAR RIYRIHPSSA AIDPSFEEIL QMNFYDSCPY LKFAHFTANQ AILEAVTTSR  240
GVHVIDLGLN QGMQWPALMQ ALALRPGGPP SFRLTGVGTP SNRDGIQELG GKLAQLAHAI  300
GVEFEFSGLT TERLSDLEPD MFETRPDSET LVVNSVFELH PVLSQPGSIE KLLATVNAVK  360
PGLVTVVEQE ANHNGAGFLD RFNEALHYYS SLFDSLEDGV VIPSQDRVMS EVYLGRQILN  420
VVAAEGIDRI ERHETLAQWR KRMENAGFDP VNLGSDAFKQ ASLLLALSGG GDGYRVEEND  480
GSLMLAWQTK PLIAASAWKL AAELRR*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3g_A1e-6313449813378Protein 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. Its activity may be regulated by phytohormones such as auxin and ethylene (By similarity). {ECO:0000250, ECO:0000269|PubMed:12610625, ECO:0000269|PubMed:14615596}.
Cis-element ? help Back to Top
SourceLink
PlantRegMap488615
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1172260.0AK117226.1 Arabidopsis thaliana At5g17490 mRNA for RGA-like protein, complete cds, clone: RAFL16-78-A02.
GenBankAL3911500.0AL391150.1 Arabidopsis thaliana DNA chromosome 5, BAC clone K3M16 (ESSA project).
GenBankBT0059050.0BT005905.1 Arabidopsis thaliana At5g17490 gene, complete cds.
GenBankCP0026880.0CP002688.1 Arabidopsis thaliana chromosome 5 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_020878075.10.0DELLA protein RGL3
SwissprotQ9LF530.0RGL3_ARATH; DELLA protein RGL3
TrEMBLD7LX130.0D7LX13_ARALL; Uncharacterized protein
STRINGfgenesh2_kg.6__1749__AT5G17490.10.0(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
AT5G17490.10.0RGA-like protein 3
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. Wild M,Achard P
    The DELLA protein RGL3 positively contributes to jasmonate/ethylene defense responses.
    Plant Signal Behav, 2013. 8(4): p. e23891
    [PMID:23425858]
  3. Shi H,Wei Y,Wang Q,Reiter RJ,He C
    Melatonin mediates the stabilization of DELLA proteins to repress the floral transition in Arabidopsis.
    J. Pineal Res., 2016. 60(3): p. 373-9
    [PMID:26887824]
  4. Shi H,Liu W,Wei Y,Ye T
    Integration of auxin/indole-3-acetic acid 17 and RGA-LIKE3 confers salt stress resistance through stabilization by nitric oxide in Arabidopsis.
    J. Exp. Bot., 2017. 68(5): p. 1239-1249
    [PMID:28158805]
  5. Huang KC,Lin WC,Cheng WH
    Salt hypersensitive mutant 9, a nucleolar APUM23 protein, is essential for salt sensitivity in association with the ABA signaling pathway in Arabidopsis.
    BMC Plant Biol., 2018. 18(1): p. 40
    [PMID:29490615]