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 GSBRNA2T00014243001
Common NameGSBRNA2T00014243001
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: 55707.3 Da    PI: 6.7358
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00014243001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS450.89.1e-1381264972374
                 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++
  GSBRNA2T00014243001 126 RADLVSCAQALSENDLMMAHSMMEKLRQMVSVSGEPIQRLGAYLLEGLVAKLASSGSSIYKSLNRFPEP--ASTELLSYMHILYEVCPYF 213
                          678************************************************************988887..599**************** PP

                 GRAS  92 kfshltaNqaIleavegeervHiiDfdis.qGlQWpaLlqaLasRpegppslRiTgvgspesg..skeeleetgerLakfAeelgvpfef 178
                          kf+++ aN aI ea+++e+rvHiiDf+i+ qG QW++L+qa+a+Rp+gpp++RiTg+++ +s   +   l+ +g+rLak+A++++vpfef
  GSBRNA2T00014243001 214 KFGYMSANGAIAEAMKEENRVHIIDFQIGtQGSQWVTLIQAFAARPGGPPRIRITGIDDTTSAyaRGGGLSIVGNRLAKLAKQFNVPFEF 303
                          ****************************659****************************998899999********************** PP

                 GRAS 179 nvlvakrledleleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalf 268
                          n  v+ + ++++l++L v+ gEalaVn+++ lhr++desvs+e++rd++L++vkslsPkvv++veqe+++n++sF+ rf e+++yy a+f
  GSBRNA2T00014243001 304 NS-VSASASEVKLKDLGVRAGEALAVNFAFVLHRMPDESVSTENHRDRLLRMVKSLSPKVVTLVEQESNTNTASFFPRFKETMDYYDAMF 392
                          **.7999*********************************************************************************** PP

                 GRAS 269 dsleaklpreseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvksdgyrveeesgsl 358
                          +s++++lpr++++ri+vE+++l+r++vn++acega+r+erhe l+kWr+r+e+aGF+++pls  +++++k+llr+++++ yr+ee++g+l
  GSBRNA2T00014243001 393 ESIDVTLPRNHKQRINVEQHCLARDVVNIIACEGADRVERHELLGKWRSRFEMAGFSSYPLSPLVNSTIKSLLRNYSDK-YRLEERDGAL 481
                          *****************************************************************************55.********** PP

                 GRAS 359 vlgWkdrpLvsvSaWr 374
                          +lgW++r Lv+ +aW+
  GSBRNA2T00014243001 482 YLGWMQRDLVASCAWK 497
                          ***************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098568.74999478IPR005202Transcription factor GRAS
PfamPF035143.1E-135126497IPR005202Transcription 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
MYKHPRQKTE AYTLPPFEAS SVGKLRYIPA HNSLKRYCML EPSSSSLVSP AYAVLSNANS  60
SAHEDTSGSC VTDDFNDKIK ELETVMMGPD SLDLVFDYND SFDSTSCQET NSWRSTLEAI  120
SRRDLRADLV SCAQALSEND LMMAHSMMEK LRQMVSVSGE PIQRLGAYLL EGLVAKLASS  180
GSSIYKSLNR FPEPASTELL SYMHILYEVC PYFKFGYMSA NGAIAEAMKE ENRVHIIDFQ  240
IGTQGSQWVT LIQAFAARPG GPPRIRITGI DDTTSAYARG GGLSIVGNRL AKLAKQFNVP  300
FEFNSVSASA SEVKLKDLGV RAGEALAVNF AFVLHRMPDE SVSTENHRDR LLRMVKSLSP  360
KVVTLVEQES NTNTASFFPR FKETMDYYDA MFESIDVTLP RNHKQRINVE QHCLARDVVN  420
IIACEGADRV ERHELLGKWR SRFEMAGFSS YPLSPLVNST IKSLLRNYSD KYRLEERDGA  480
LYLGWMQRDL VASCAWK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5hyz_A2e-621294978375GRAS family transcription factor containing protein, expressed
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bna.214110.0root
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
PlantRegMapGSBRNA2T00014243001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK3525330.0AK352533.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-04-F03.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013593626.10.0PREDICTED: scarecrow-like transcription factor PAT1 isoform X1
RefseqXP_013593627.10.0PREDICTED: scarecrow-like transcription factor PAT1 isoform X1
RefseqXP_013593629.10.0PREDICTED: scarecrow-like transcription factor PAT1 isoform X1
RefseqXP_013593630.10.0PREDICTED: scarecrow-like transcription factor PAT1 isoform X1
RefseqXP_013593631.10.0PREDICTED: scarecrow-like transcription factor PAT1 isoform X1
RefseqXP_013593632.10.0PREDICTED: scarecrow-like transcription factor PAT1 isoform X1
RefseqXP_013593633.10.0PREDICTED: scarecrow-like transcription factor PAT1 isoform X1
RefseqXP_013593634.10.0PREDICTED: scarecrow-like transcription factor PAT1 isoform X1
RefseqXP_013593635.10.0PREDICTED: scarecrow-like transcription factor PAT1 isoform X1
SwissprotQ9LDL70.0PAT1_ARATH; Scarecrow-like transcription factor PAT1
TrEMBLA0A078IZC40.0A0A078IZC4_BRANA; BnaC07g49170D protein
STRINGBo7g089080.10.0(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]