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 Rsa1.0_00724.1_g00003.1
Organism
Raphanus sativus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family GRAS
Protein Properties Length: 575aa    MW: 62731.9 Da    PI: 5.4341
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_00724.1_g00003.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS447.49.6e-1372105701374
                     GRAS   1 lvelLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppset.seknsseelaalklfs 85 
                              lv++L++cAeav+sg+l+la+al++++  la +++ +m+++a+yf+eALa+r++r        l+p +t  +++ s++l++   f+
  Rsa1.0_00724.1_g00003.1 210 LVHALMACAEAVQSGNLTLAEALVKQIGFLAVSQAGAMRKVATYFAEALARRIYR--------LSPPQTqIDHSLSDTLQM--HFY 285
                              689****************************************************........444444043445555444..5** PP

                     GRAS  86 evsPilkfshltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesgskeeleetgerLakfAee 171
                              e++P+lkf+h+taNqaIlea+eg++rvH+iDf++ qGlQWpaL+qaLa R++gpps+R+Tg+g+p++++++ l+e+g +La++Ae+
  Rsa1.0_00724.1_g00003.1 286 ETCPYLKFAHFTANQAILEAFEGKKRVHVIDFSMDQGLQWPALMQALALREGGPPSFRLTGIGPPAADNSDHLHEVGCKLAQLAEA 371
                              ************************************************************************************** PP

                     GRAS 172 lgvpfefnvlvakrledleleeLrvkp..gEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFle 255
                              ++v+fe++ +va++l+dl+ ++L+++p   Ea+aVn+v++lh+ll +++++e+    v  +vk+++P +++vveqe++hn++ Fl+
  Rsa1.0_00724.1_g00003.1 372 IHVEFEYRGFVANSLADLDASMLELRPseTEAVAVNSVFELHKLLGRPGAIEK----VFGVVKQIKPVIFTVVEQESSHNGPVFLD 453
                              **************************9999*********************99....***************************** PP

                     GRAS 256 rflealeyysalfdsleaklpreseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklll 341
                              rf+e+l+yys+lfdsle      s++++++++++lg++i+n+vacega+r+erhetl++W++r++++GF p++l+++a kqa++ll
  Rsa1.0_00724.1_g00003.1 454 RFTESLHYYSTLFDSLEGA---PSSQDKVMSEVYLGKQICNLVACEGADRVERHETLSQWSNRFGSSGFAPAHLGSNAFKQASTLL 536
                              ****************999...79999*********************************************************** PP

                     GRAS 342 rkvk.sdgyrveeesgslvlgWkdrpLvsvSaWr 374
                              + ++ ++gyrvee++g+l+lgW++rpL+++SaW+
  Rsa1.0_00724.1_g00003.1 537 ALFNgGEGYRVEENNGCLMLGWHTRPLITTSAWK 570
                              *********************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF120419.0E-3344111IPR021914Transcriptional factor DELLA, N-terminal
SMARTSM011294.1E-3944117No hitNo description
PROSITE profilePS5098566.124184549IPR005202Transcription factor GRAS
PfamPF035143.3E-134210570IPR005202Transcription factor GRAS
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
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: 575 aa     Download sequence    Send to blast
MKRDLHQFQA PNHGTSIAGS STSSPAVFGK DKMMMVKEEE EEDDELLGVL GYKVRSSEMA  60
EVALKLEQLE TMMGNVQEDG LAHLATDTVH YNPAELYSWL DNMLTELNPP ATTGSNGLNQ  120
INNSFFTGGG DYDLKAIPGS AICQRSNSSS TPNQYNKRLK PCPSPDSMVT SPSQAIQIGG  180
IVGTTVTTTT VSESTRPLIL VDSQDNGVRL VHALMACAEA VQSGNLTLAE ALVKQIGFLA  240
VSQAGAMRKV ATYFAEALAR RIYRLSPPQT QIDHSLSDTL QMHFYETCPY LKFAHFTANQ  300
AILEAFEGKK RVHVIDFSMD QGLQWPALMQ ALALREGGPP SFRLTGIGPP AADNSDHLHE  360
VGCKLAQLAE AIHVEFEYRG FVANSLADLD ASMLELRPSE TEAVAVNSVF ELHKLLGRPG  420
AIEKVFGVVK QIKPVIFTVV EQESSHNGPV FLDRFTESLH YYSTLFDSLE GAPSSQDKVM  480
SEVYLGKQIC NLVACEGADR VERHETLSQW SNRFGSSGFA PAHLGSNAFK QASTLLALFN  540
GGEGYRVEEN NGCLMLGWHT RPLITTSAWK LSAVH
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3g_A6e-6221756926378Protein SCARECROW
5b3h_A6e-6221756925377Protein SCARECROW
5b3h_D6e-6221756925377Protein 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. 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
PlantRegMapRsa1.0_00724.1_g00003.1
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_018483997.10.0PREDICTED: LOW QUALITY PROTEIN: DELLA protein RGA1
SwissprotQ5BN230.0RGA1_BRACM; DELLA protein RGA1
TrEMBLA0A3P6EEM40.0A0A3P6EEM4_BRAOL; Uncharacterized protein
STRINGBo7g078550.10.0(Brassica oleracea)
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