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 GSBRNA2T00109567001
Common NameGSBRNA2T00109567001, LOC106402092, LOC106428184
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: 498aa    MW: 55776.7 Da    PI: 7.2351
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00109567001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS451.65e-1381254972374
                 GRAS   2 velLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPil 91 
                          +  L++cA+a+s++dl +a++++++l+ ++s +g+p+qRl ay++e+L a+la+s+s++yk+l+  +++   s e l+++++++ev+P++
  GSBRNA2T00109567001 125 RADLVSCAKAMSENDLMMANSMMEKLRLMVSVSGEPIQRLGAYLLEGLVAQLASSGSSIYKSLNRCPEP--ASNELLSYMHILYEVCPYF 212
                          678************************************************************666665..49999************** PP

                 GRAS  92 kfshltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesg..skeeleetgerLakfAeelgvpfefn 179
                          kf+++ aN aI ea+++e+rvHiiDf+i+qG QW++L+qa+a+Rp+gpp +RiTg+++++s   +   l+ +g+rLak+A++++vpfefn
  GSBRNA2T00109567001 213 KFGYMSANGAIAEAMKNENRVHIIDFQIGQGSQWVTLIQAFAERPGGPPWIRITGIDDMASAyaRGGGLSIVGNRLAKLAKKFNVPFEFN 302
                          **********************************************************999899999*********************** PP

                 GRAS 180 vl.vakrledleleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalf 268
                           + v+ +++++++++L v++gEalaVn+++ lh+++desvs+e++rd++L++vk+lsPkvv++veqe+++n++ F+ rf+e+++yy a+f
  GSBRNA2T00109567001 303 SVsVSVSVAEVKPNNLGVRSGEALAVNFAFVLHHMPDESVSTENHRDRLLRMVKGLSPKVVTLVEQESNTNTAAFFPRFMETMDYYDAMF 392
                          *95555************************************************************************************ PP

                 GRAS 269 dsleaklpreseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvksdgyrveeesgsl 358
                          +s++++lpr++++ri+vE+++l+r++vn++acega+r+erhe l+kWr r+++aGF+p+pls  +++++k+llr+++++ yr+ee++g+l
  GSBRNA2T00109567001 393 ESIDVTLPRNHKQRINVEQHCLARDVVNIIACEGADRVERHELLGKWRLRFGMAGFTPYPLSPLVNSTIKRLLRNYSDK-YRLEERDGAL 481
                          *****************************************************************************55.********** PP

                 GRAS 359 vlgWkdrpLvsvSaWr 374
                          +lgW++r Lv+ +aW+
  GSBRNA2T00109567001 482 YLGWMKRDLVASCAWK 497
                          ***************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098568.44898478IPR005202Transcription factor GRAS
PfamPF035141.7E-135125497IPR005202Transcription factor GRAS
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
Sequence ? help Back to Top
Protein Sequence    Length: 498 aa     Download sequence    Send to blast
MYKHPRQGIE AYSLPPFEAN SVGKLRYIPV NNSRKRYCML EPSSSSPDST VLVSNNNNNS  60
THEDTSASCV TDDFNDKIKE LETAMMGPDC LDLALYYNDS FVSTPCQVTN SWRSTLEAVS  120
RRDLRADLVS CAKAMSENDL MMANSMMEKL RLMVSVSGEP IQRLGAYLLE GLVAQLASSG  180
SSIYKSLNRC PEPASNELLS YMHILYEVCP YFKFGYMSAN GAIAEAMKNE NRVHIIDFQI  240
GQGSQWVTLI QAFAERPGGP PWIRITGIDD MASAYARGGG LSIVGNRLAK LAKKFNVPFE  300
FNSVSVSVSV AEVKPNNLGV RSGEALAVNF AFVLHHMPDE SVSTENHRDR LLRMVKGLSP  360
KVVTLVEQES NTNTAAFFPR FMETMDYYDA MFESIDVTLP RNHKQRINVE QHCLARDVVN  420
IIACEGADRV ERHELLGKWR LRFGMAGFTP YPLSPLVNST IKRLLRNYSD KYRLEERDGA  480
LYLGWMKRDL VASCAWK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5hyz_A2e-621284978375GRAS family transcription factor containing protein, expressed
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in phytochrome A (phyA) signal transduction. {ECO:0000269|PubMed:10817761}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00109567001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1893050.0AC189305.1 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB031O20, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013698197.10.0scarecrow-like transcription factor PAT1
RefseqXP_013698198.10.0scarecrow-like transcription factor PAT1
RefseqXP_013698199.10.0scarecrow-like transcription factor PAT1
RefseqXP_013698200.10.0scarecrow-like transcription factor PAT1
RefseqXP_013724389.10.0scarecrow-like transcription factor PAT1
RefseqXP_013724390.10.0scarecrow-like transcription factor PAT1
RefseqXP_013724391.10.0scarecrow-like transcription factor PAT1
RefseqXP_013724392.10.0scarecrow-like transcription factor PAT1
RefseqXP_013724393.10.0scarecrow-like transcription factor PAT1
RefseqXP_022559391.10.0scarecrow-like transcription factor PAT1
RefseqXP_022559400.10.0scarecrow-like transcription factor PAT1
SwissprotQ9LDL70.0PAT1_ARATH; Scarecrow-like transcription factor PAT1
TrEMBLA0A3P6DA430.0A0A3P6DA43_BRAOL; Uncharacterized protein
STRINGBo9g009260.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM62128141
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G48150.20.0GRAS family protein
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. 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]
  4. Heyman J, et al.
    The heterodimeric transcription factor complex ERF115-PAT1 grants regeneration competence.
    Nat Plants, 2016. 2(11): p. 16165
    [PMID:27797356]