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 XP_009138823.1
Organism
Brassica rapa
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: 550aa    MW: 60310.6 Da    PI: 4.438
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009138823.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS293.74.8e-901985493374
            GRAS   3 elLlecAeavssgdle...laqalLarlselaspdgd....pmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPi 90 
                     e+L+++A  ++  d++   laq +Larl+++ s++ +    p+qR+a+y+te L++ l++         +ps   +++   ++aa+++fse+sP+
  XP_009138823.1 198 EQLFNAAAELTGTDNNspvLAQGILARLNHNLSNNLNnpkpPFQRAAFYVTESLQSLLQD--------SQPS---PHSLLLKIAAYRAFSETSPF 281
                     67777777777655555889***********77666446779*****************9........3344...445999************** PP

            GRAS  91 lkfshltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesg.skeeleetgerLakfAeelgvpfefnvlvak 184
                     l+f ++taNq+Ile++++ +r+Hi+Dfd+++G+QW +L+q+La+R+ +  sl+iT ++sp+++ ++ el+ t+e+L+ fA e+gv+fe ++l ++
  XP_009138823.1 282 LQFVNFTANQTILESLDRFDRIHIVDFDVGYGGQWSSLIQELANRS-SLSSLKITSFSSPSTVsDEFELRFTEENLRAFAGETGVTFEMEMLNME 375
                     *********************************************6.5689**********9999***************************999 PP

            GRAS 185 rledleleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfdsleaklpres 279
                     +l +  l+ +r +++Ea+aVnl ++             + + +L+++k++sP+vvv+++      +++F + +++al+yy+++++sle+   + +
  XP_009138823.1 376 TLLNPPLSLIRSSEKEAIAVNLPISSVIS--------GYLPLILRFLKQISPNVVVCSDT---IPDAPFPNAVVDALQYYTSFLESLESP-NSSQ 458
                     ***********************954443........36677***************986...5778********************988.5666 PP

            GRAS 280 eerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvksdgyrveeesgslvlgWkdrpLvsvSaWr 374
                     e+ +++Er++++++ + +++++ ++    +e+   Wr+ ++++GF++v++s++a++qa++ll++ +++g+++++++ slvl+W++r+Lv+vSaW+
  XP_009138823.1 459 EAVTSIERFCVQPWMQRLLTNRYRW----MEKSPPWRSLFGQCGFTAVAMSQTAETQAEYLLQRNPMRGFHLDKRQSSLVLCWQKRELVAVSAWK 549
                     88999********************....*****************************************************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098536.206171529IPR005202Transcription factor GRAS
PfamPF035141.7E-87198549IPR005202Transcription factor GRAS
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0048768Biological Processroot hair cell tip growth
GO:0051301Biological Processcell division
Sequence ? help Back to Top
Protein Sequence    Length: 550 aa     Download sequence    Send to blast
MPLPFEELQG LGFSYGTRED LCCVVGVNNG SSEPTSVLDS SRSPSPFLSS STTTLSSSHG  60
GPGAAAGKCN QMTFEDLDGV LSGSPGQEQS IFRLIMSDPG SEFTGFDPGS GSDPNPLFGY  120
GFPLDEPPPP PEEEDVKFQI TADPDPDPCF FSGGSSPPAK RLNSGQPVSH HWGFPFSDPG  180
HDPPQKLAGP ESTAVITEQL FNAAAELTGT DNNSPVLAQG ILARLNHNLS NNLNNPKPPF  240
QRAAFYVTES LQSLLQDSQP SPHSLLLKIA AYRAFSETSP FLQFVNFTAN QTILESLDRF  300
DRIHIVDFDV GYGGQWSSLI QELANRSSLS SLKITSFSSP STVSDEFELR FTEENLRAFA  360
GETGVTFEME MLNMETLLNP PLSLIRSSEK EAIAVNLPIS SVISGYLPLI LRFLKQISPN  420
VVVCSDTIPD APFPNAVVDA LQYYTSFLES LESPNSSQEA VTSIERFCVQ PWMQRLLTNR  480
YRWMEKSPPW RSLFGQCGFT AVAMSQTAET QAEYLLQRNP MRGFHLDKRQ SSLVLCWQKR  540
ELVAVSAWKC
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3g_A2e-2824154857378Protein SCARECROW
5b3h_A2e-2824154856377Protein SCARECROW
5b3h_D2e-2824154856377Protein SCARECROW
Search in ModeBase
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
PlantRegMapXP_009138823.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009138823.10.0PREDICTED: scarecrow-like protein 22
SwissprotQ9M0000.0SCL22_ARATH; Scarecrow-like protein 22
TrEMBLA0A397ZGY40.0A0A397ZGY4_BRACM; Uncharacterized protein
STRINGBo4g104900.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM150661619
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G60630.10.0GRAS family protein
Publications ? help Back to Top
  1. Gustafson AM, et al.
    ASRP: the Arabidopsis Small RNA Project Database.
    Nucleic Acids Res., 2005. 33(Database issue): p. D637-40
    [PMID:15608278]
  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. Xue XY, et al.
    Interaction between two timing microRNAs controls trichome distribution in Arabidopsis.
    PLoS Genet., 2014. 10(4): p. e1004266
    [PMID:24699192]