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_01442.1_g00001.1
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: 464aa    MW: 51142.8 Da    PI: 5.0736
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_01442.1_g00001.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS176.91.4e-541312911172
                     GRAS   1 lvelLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalkl.fs 85 
                              lv++Ll+cAeav++++l+la+ l++++  las+++ +m+++a+yf+e+La+r++r    +y   p  +      s+    l++ f+
  Rsa1.0_01442.1_g00001.1 131 LVHALLACAEAVQQNNLKLADVLVKHVGLLASSQAGAMRKVATYFAEGLARRIYR----IY---PHDDVG---LSSFSDTLQIhFY 206
                              689****************************************************....55...222222...33333334444** PP

                     GRAS  86 evsPilkfshltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesgskeeleetgerLakfAee 171
                              e +P+lkf+h+taNqaIle+++++e+vH+iD++++qGlQWpaL+qaLa Rp+gpp +R+Tg++s  s   ++++e+g++L ++A++
  Rsa1.0_01442.1_g00001.1 207 ESCPYLKFAHFTANQAILESFATAEKVHVIDLGLNQGLQWPALIQALALRPGGPPDFRLTGIDS--SLTGQSIQEVGWKLGQLANA 290
                              ****************************************************************..5699**************87 PP

                     GRAS 172 l 172
                              +
  Rsa1.0_01442.1_g00001.1 291 V 291
                              5 PP
2GRAS2116.7e-65292459200374
                     GRAS 200 EalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfdsleaklpreseerikv 285
                              E++aVn+v++lhrll++++s+++    +L ++ks++P++++vveqeadhn++ Fl+rf+e+l+yys+lfdsle       ++++++
  Rsa1.0_01442.1_g00001.1 292 ESIAVNSVFELHRLLAHPGSIDN----ILFTIKSIKPDIITVVEQEADHNGSVFLDRFTESLHYYSSLFDSLEGP----PSQDRVM 369
                              99****************99999....*********************************************999....4667778 PP

                     GRAS 286 ErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvk.sdgyrveeesgslvlgWkdrpLvsv 370
                              ++ +lgr+i n+vaceg++r+erhetl +Wr+r+++ GFkpv+++++a+kqa++ll+ ++  dgy+vee++g+l+lgW++rpL+++
  Rsa1.0_01442.1_g00001.1 370 SELYLGRQILNLVACEGEDRVERHETLVQWRNRFSMGGFKPVNIGSYAYKQASMLLALYAgADGYKVEEHEGCLLLGWQTRPLIAT 455
                              8888********************************************************************************** PP

                     GRAS 371 SaWr 374
                              SaWr
  Rsa1.0_01442.1_g00001.1 456 SAWR 459
                              ***8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM011292.5E-361281No hitNo description
PfamPF120411.6E-321274IPR021914Transcriptional factor DELLA, N-terminal
PROSITE profilePS5098547.027105438IPR005202Transcription factor GRAS
PfamPF035145.0E-52131291IPR005202Transcription factor GRAS
PfamPF035142.3E-62292459IPR005202Transcription 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:0009863Biological Processsalicylic acid mediated signaling pathway
GO:0009867Biological Processjasmonic acid mediated signaling pathway
GO:0009938Biological Processnegative regulation of gibberellic acid mediated signaling pathway
GO:0042538Biological Processhyperosmotic salinity response
GO:2000377Biological Processregulation of reactive oxygen species metabolic process
GO:0005634Cellular Componentnucleus
Sequence ? help Back to Top
Protein Sequence    Length: 464 aa     Download sequence    Send to blast
MTANKEEAGG FDELLVVLGY KVRSSDMADV AHKLEQLEMV LDDGISHLSD DTVHYNPSDL  60
SGWVDSLLFD LNPTCDQVKP DQDSEYELSA IPGSAAYPPG KRTRTGSNSP TTTTTTRSMV  120
VLDSQETGVR LVHALLACAE AVQQNNLKLA DVLVKHVGLL ASSQAGAMRK VATYFAEGLA  180
RRIYRIYPHD DVGLSSFSDT LQIHFYESCP YLKFAHFTAN QAILESFATA EKVHVIDLGL  240
NQGLQWPALI QALALRPGGP PDFRLTGIDS SLTGQSIQEV GWKLGQLANA VESIAVNSVF  300
ELHRLLAHPG SIDNILFTIK SIKPDIITVV EQEADHNGSV FLDRFTESLH YYSSLFDSLE  360
GPPSQDRVMS ELYLGRQILN LVACEGEDRV ERHETLVQWR NRFSMGGFKP VNIGSYAYKQ  420
ASMLLALYAG ADGYKVEEHE GCLLLGWQTR PLIATSAWRL NRVG
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3g_A1e-5712645814378Protein SCARECROW
5b3h_A1e-5712645813377Protein SCARECROW
5b3h_D1e-5712645813377Protein 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. Has overlapping but distinct roles in GA signaling compared to RGA and GAI. Regulates the floral development. May also participate in seed germination and in ovule and anther development. Its activity is probably regulated by other phytohormones such as auxin and ethylene. {ECO:0000269|PubMed:11826301, ECO:0000269|PubMed:11877383, ECO:0000269|PubMed:12610625, ECO:0000269|PubMed:14615596, ECO:0000269|PubMed:14973286, ECO:0000269|PubMed:15128937, ECO:0000269|PubMed:16034591}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_01442.1_g00001.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Not up-regulated upon GA treatment.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1892231e-156AC189223.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB010O09, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018447161.10.0PREDICTED: LOW QUALITY PROTEIN: DELLA protein RGL1
SwissprotQ9C8Y30.0RGL1_ARATH; DELLA protein RGL1
TrEMBLA0A078JY940.0A0A078JY94_BRANA; BnaCnng68300D protein
STRINGBra039762.1-P0.0(Brassica rapa)
STRINGBo2g052880.10.0(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
AT1G66350.10.0RGA-like 1
Publications ? help Back to Top
  1. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  2. Yan A, et al.
    AtEXP2 is involved in seed germination and abiotic stress response in Arabidopsis.
    PLoS ONE, 2014. 9(1): p. e85208
    [PMID:24404203]
  3. 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]
  4. 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]
  5. Shahnejat-Bushehri S,Tarkowska D,Sakuraba Y,Balazadeh S
    Arabidopsis NAC transcription factor JUB1 regulates GA/BR metabolism and signalling.
    Nat Plants, 2016. 2: p. 16013
    [PMID:27249348]
  6. Li W,Wang H,Yu D
    Arabidopsis WRKY Transcription Factors WRKY12 and WRKY13 Oppositely Regulate Flowering under Short-Day Conditions.
    Mol Plant, 2016. 9(11): p. 1492-1503
    [PMID:27592586]
  7. Li Y,Wang H,Li X,Liang G,Yu D
    Two DELLA-interacting proteins bHLH48 and bHLH60 regulate flowering under long-day conditions in Arabidopsis thaliana.
    J. Exp. Bot., 2017. 68(11): p. 2757-2767
    [PMID:28591805]
  8. Chen L,Xiang S,Chen Y,Li D,Yu D
    Arabidopsis WRKY45 Interacts with the DELLA Protein RGL1 to Positively Regulate Age-Triggered Leaf Senescence.
    Mol Plant, 2017. 10(9): p. 1174-1189
    [PMID:28735023]
  9. Zhang L,Chen L,Yu D
    Transcription Factor WRKY75 Interacts with DELLA Proteins to Affect Flowering.
    Plant Physiol., 2018. 176(1): p. 790-803
    [PMID:29133369]