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 XP_009101333.1
Common NameRGA1
Organism
Brassica rapa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family GRAS
Protein Properties Length: 573aa    MW: 62511.6 Da    PI: 5.7879
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009101333.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS446.71.5e-1362085681374
            GRAS   1 lvelLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppset.seknsseelaalklfsevsPilkfs 94 
                     lv++L++cAeav+s++l+la+al++++  la +++ +m+++a+yf+eALa+r++r        l+p +t  +++ s++l++   f+e++P+lkf+
  XP_009101333.1 208 LVHALMACAEAVQSSNLTLAEALVKQIGFLAVSQAGAMRKVATYFAEALARRIYR--------LSPPQTqIDHSLSDTLQM--HFYETCPYLKFA 292
                     689****************************************************........444444043445555444..5*********** PP

            GRAS  95 hltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesgskeeleetgerLakfAeelgvpfefnvlvakrledl 189
                     h+taNqaIlea+eg++rvH+iDf+++qGlQWpaL+qaLa R++gpps+R+Tg+g+p++++++ l+e+g +La++Ae+++v+fe++ +va++l+dl
  XP_009101333.1 293 HFTANQAILEAFEGKKRVHVIDFSMNQGLQWPALMQALALREGGPPSFRLTGIGPPAADNSDHLHEVGCKLAQLAEAIHVEFEYRGFVANSLADL 387
                     *********************************************************************************************** PP

            GRAS 190 eleeLrvkp..gEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfdsleaklpreseer 282
                     + ++L+++p   Ea+aVn+v++lh+ll +++ +e+    v  +vk+++P +++vveqe++hn++ Fl+rf+e+l+yys+lfdsle      s+++
  XP_009101333.1 388 DASMLELRPseTEAVAVNSVFELHKLLGRTGGIEK----VFGVVKQIKPVIFTVVEQESNHNGPVFLDRFTESLHYYSTLFDSLEGA---PSSQD 475
                     ********9999***************99999999....*********************************************999...79999 PP

            GRAS 283 ikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvk.sdgyrveeesgslvlgWkdrpLvsvSaWr 374
                     +++++++lg++i+n+vaceg +r+erhetl++W++r++++GF p++l+++a kqa++ll+ ++ ++gyrvee++g+l+l W++rpL+++SaW+
  XP_009101333.1 476 KVMSEVYLGKQICNLVACEGPDRVERHETLSQWSNRFGSSGFAPAHLGSNAFKQASTLLALFNgGEGYRVEENNGCLMLSWHTRPLITTSAWK 568
                     ********************************************************************************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM011298.2E-3942115No hitNo description
PfamPF120414.8E-3342109IPR021914Transcriptional factor DELLA, N-terminal
PROSITE profilePS5098565.846182547IPR005202Transcription factor GRAS
PfamPF035145.2E-134208568IPR005202Transcription 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:0009867Biological Processjasmonic acid mediated signaling pathway
GO:0009938Biological Processnegative regulation of gibberellic acid mediated signaling pathway
GO:0010187Biological Processnegative regulation of seed germination
GO:0010218Biological Processresponse to far red light
GO:0042176Biological Processregulation of protein catabolic process
GO:0042538Biological Processhyperosmotic salinity response
GO:2000033Biological Processregulation of seed dormancy process
GO:2000377Biological Processregulation of reactive oxygen species metabolic process
GO:0005634Cellular Componentnucleus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0044212Molecular Functiontranscription regulatory region DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 573 aa     Download sequence    Send to blast
MKRDLHQFQG PNHGTSIAGS STSSPAVFGK DKMMMVKEEE DDELLGVLGY KVRSSEMAEV  60
ALKLEQLETM MGNAQEDGLA HLATDTVHYN PAELYSWLDN MLTELNPPAA TTGSNALNPE  120
INNNNNNNSF FTGGDLKAIP GNAVCRRSNQ FAFAVDSSSN KRLKPSSSPD SMVTSPSPAG  180
VIGTTVTTVT ESTRPLILVD SQDNGVRLVH ALMACAEAVQ SSNLTLAEAL VKQIGFLAVS  240
QAGAMRKVAT YFAEALARRI YRLSPPQTQI DHSLSDTLQM HFYETCPYLK FAHFTANQAI  300
LEAFEGKKRV HVIDFSMNQG LQWPALMQAL ALREGGPPSF RLTGIGPPAA DNSDHLHEVG  360
CKLAQLAEAI HVEFEYRGFV ANSLADLDAS MLELRPSETE AVAVNSVFEL HKLLGRTGGI  420
EKVFGVVKQI KPVIFTVVEQ ESNHNGPVFL DRFTESLHYY STLFDSLEGA PSSQDKVMSE  480
VYLGKQICNL VACEGPDRVE RHETLSQWSN RFGSSGFAPA HLGSNAFKQA STLLALFNGG  540
EGYRVEENNG CLMLSWHTRP LITTSAWKLS AVH
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3g_A4e-6321556726378Protein SCARECROW
5b3h_A4e-6321556725377Protein SCARECROW
5b3h_D4e-6321556725377Protein SCARECROW
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bra.60210.0seed
Functional Description ? help Back to Top
Source Description
UniProtProbable transcriptional regulator that acts as a repressor of the gibberellin (GA) signaling pathway. 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. {ECO:0000269|PubMed:15734906}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00611ChIP-seqTransfer from AT2G01570Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009101333.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY9285490.0AY928549.1 Brassica rapa DELLA protein (RGA1) gene, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009101333.10.0PREDICTED: DELLA protein RGA1
RefseqXP_013684839.10.0DELLA protein RGA1
SwissprotQ5BN230.0RGA1_BRACM; DELLA protein RGA1
TrEMBLM4E7W90.0M4E7W9_BRARP; Uncharacterized protein
STRINGBra024875.1-P0.0(Brassica rapa)
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
AT2G01570.10.0GRAS family protein
Publications ? help Back to Top
  1. Muangprom A,Thomas SG,Sun TP,Osborn TC
    A novel dwarfing mutation in a green revolution gene from Brassica rapa.
    Plant Physiol., 2005. 137(3): p. 931-8
    [PMID:15734906]