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 GSBRNA2T00100141001
Common NameGSBRNA2T00100141001, LOC106411496, LOC106411497, SCL1
Organism
Brassica napus
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: 462aa    MW: 51220.1 Da    PI: 4.9236
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00100141001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS322.21.1e-981004602374
                 GRAS   2 velLlecAeavssgdlelaqalLarlsel.aspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPi 90 
                          +e L++++++++s++l+la+ +L++l+++ ++++g+p+qR+a+yf+eAL + l++       + + +  s+++ ++++ a k fs +sPi
  GSBRNA2T00100141001 100 IEDLIRVVDCIESDELHLAHVVLSQLNQRlQTSAGRPLQRAAFYFKEALGSLLTG-------TNRNQLFSWSDIVQKIRAIKEFSGISPI 182
                          678*************************9899999********************.......66888888899***************** PP

                 GRAS  91 lkfshltaNqaIleavege...ervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesgskeeleetgerLakfAeelgvpfe 177
                          + fsh+taNqaIl++++++     vH++Df+i+ G+Q+++L++++a+++++   lR+T+v++  ++ + e++ ++e+L++fA+e++++f+
  GSBRNA2T00100141001 183 PLFSHFTANQAILDSLSSQsssPFVHVVDFEIGFGGQYASLMREIAEKSANGGFLRVTAVVA--EDCAVETRLVKENLTQFAAEMKIRFQ 270
                          ****************99977789**************************************..55************************ PP

                 GRAS 178 fnvlvakrledleleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqe..adh.nsesFlerflealeyy 264
                          ++++++k++e l+++++r+  gE ++V ++ +++r +     +     e+++ + ++sP+vvv+v++e  +++ +s+sF ++f++a+e+y
  GSBRNA2T00100141001 271 IEFVLMKTFEILSFKAIRFVDGERTVVLISPAIFRRV---IGI----AEFVNNLGRVSPNVVVFVDSEgcTETaGSGSFRREFVSAFEFY 353
                          ***********************************99...444....56*******************754557899************* PP

                 GRAS 265 salfdsleaklpreseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvksdgyrveee 354
                          +++++sl+a +p+ +  ++ vE +ll+++i+ +v ++ ++   r    ++Wre+l +aG++pv+ls++a  qa++ll+k +++g++v ++
  GSBRNA2T00100141001 354 TMVLESLDAAAPPGDLVKKIVETFLLRPKISAAVETAANR---RSAGQMTWREMLCAAGMRPVQLSQFADFQAECLLEKAQVRGFHVAKR 440
                          ***********************************99998...899999***************************************** PP

                 GRAS 355 sgslvlgWkdrpLvsvSaWr 374
                          +g+lvl+W++r+Lv++SaWr
  GSBRNA2T00100141001 441 QGELVLCWHGRALVATSAWR 460
                          *******************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098539.7273440IPR005202Transcription factor GRAS
PfamPF035143.7E-96100460IPR005202Transcription factor GRAS
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 462 aa     Download sequence    Send to blast
MKLQASSPQD NQPSNTTNNS TDSNHLSMDE HAMRSMDWDS IMKELEVDDD SAPYQLQPSS  60
FNLPVFPDID SSDVYPGPNQ ITGYGFNSLD SVDNGGFDYI EDLIRVVDCI ESDELHLAHV  120
VLSQLNQRLQ TSAGRPLQRA AFYFKEALGS LLTGTNRNQL FSWSDIVQKI RAIKEFSGIS  180
PIPLFSHFTA NQAILDSLSS QSSSPFVHVV DFEIGFGGQY ASLMREIAEK SANGGFLRVT  240
AVVAEDCAVE TRLVKENLTQ FAAEMKIRFQ IEFVLMKTFE ILSFKAIRFV DGERTVVLIS  300
PAIFRRVIGI AEFVNNLGRV SPNVVVFVDS EGCTETAGSG SFRREFVSAF EFYTMVLESL  360
DAAAPPGDLV KKIVETFLLR PKISAAVETA ANRRSAGQMT WREMLCAAGM RPVQLSQFAD  420
FQAECLLEKA QVRGFHVAKR QGELVLCWHG RALVATSAWR F*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3g_A2e-249345913378Protein SCARECROW
5b3h_A1e-249345912377Protein SCARECROW
5b3h_D1e-249345912377Protein SCARECROW
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bna.23390.0microspore
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in seedlings, roots, leaves and flowers. {ECO:0000269|PubMed:18500650}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in plant development. {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00100141001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY6644050.0AY664405.1 Brassica napus SCARECROW-like protein (SCL1) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001303178.10.0HVA22-like protein k
RefseqXP_022561077.10.0HVA22-like protein k isoform X1
SwissprotO232100.0SCL15_ARATH; Scarecrow-like protein 15
TrEMBLQ6DLS10.0Q6DLS1_BRANA; SCARECROW-like protein
STRINGBo7g118110.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM42912857
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G36710.10.0GRAS family protein
Publications ? help Back to Top
  1. Gao MJ,Parkin I,Lydiate D,Hannoufa A
    An auxin-responsive SCARECROW-like transcriptional activator interacts with histone deacetylase.
    Plant Mol. Biol., 2004. 55(3): p. 417-31
    [PMID:15604690]
  2. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  3. Chalhoub B, et al.
    Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome.
    Science, 2014. 345(6199): p. 950-3
    [PMID:25146293]