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_009104096.1
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: 607aa    MW: 66931 Da    PI: 5.217
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009104096.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS306.94.6e-942366062374
            GRAS   2 velLlecAeavssgdle.....laqalLarlselaspdgd........pmqRlaayfteALaarlarsvselykalppsetseknsseelaalkl 83 
                     +e+L+++Ae + +++++     laq +Larl+++ s + +        p+qR+a+++te L + +++         +p   s++n + ++aa+++
  XP_009104096.1 236 IEQLFNAAELIGNNNNNgdhtaLAQGILARLNHHLSYSNNnnnnnknpPFQRAASHITESLLSLINN--------ASPPLISPENLILRIAAYRT 322
                     6899******9997766666669**********955555445678899******************9........4444555678********** PP

            GRAS  84 fsevsPilkfshltaNqaIleavege...ervHiiDfdisqGlQWpaLlqaLasRp.egppslRiTgvgspesg..skeeleetgerLakfAeel 172
                     fse+sP+l+f ++taNq Ile+ + e   +r+HiiDfd+++G+QW +L+q+LasR+ + + sl+iT++++p s+  ++ el+ t+e+L++fA e+
  XP_009104096.1 323 FSETSPFLQFVNFTANQSILESCNDElgfDRIHIIDFDVGYGGQWSSLMQELASRRrNRASSLKITVFAPPPSTvsDEFELRFTEENLRSFAGEV 417
                     ************************99999************************99857778*********9988899****************** PP

            GRAS 173 gvpfefnvlvakrledlele..eLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerflealeyys 265
                     ++pfe+++l  + l +  ++  +Lr +++Ea+aVnl ++             + + +L+++k++sP+vvv++++ +d+n+++F + +++al+y++
  XP_009104096.1 418 KIPFEIELLSLELLLNPAYWpvSLRSSEKEAVAVNLPVNSVVSG--------YLPLILRFLKQISPNVVVCSDRGCDRNDAPFPNAVIHALQYHT 504
                     ********96666666566611566666*********9655554........5677*************************************** PP

            GRAS 266 alfdsleaklpreseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvksdgyrveeesgslvl 360
                     +l++sl+a+   + +e+ +vEr++++++i++++++++++     e+   Wr+ + ++GF+p++ls++a++qa++ll++  ++g+ ve+++gslv+
  XP_009104096.1 505 TLLESLDAN---QGHEDESVERFWVQPSIEKLLMKRHRW----IERSPPWRSLFAQCGFSPASLSQTAEAQAECLLQRSLVRGFYVEKRQGSLVM 592
                     *********...679999*********************....89999*********************************************** PP

            GRAS 361 gWkdrpLvsvSaWr 374
                     +W++++Lv+vSaW+
  XP_009104096.1 593 CWQRKELVTVSAWK 606
                     *************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098541.767209586IPR005202Transcription factor GRAS
PfamPF035141.6E-91236606IPR005202Transcription factor GRAS
Sequence ? help Back to Top
Protein Sequence    Length: 607 aa     Download sequence    Send to blast
MPLSFERFQG EGVFGVVSSL YSDPQKTWFN QDKTGAEQDL GYVVGGVLPE PTSVLDALRS  60
PSPLASHSST TTTMTLSSSH GGGGGPPPPP PHTAGDDKCS QMGLNDLDDG GQEQSILRLI  120
MDPGSGFGVF DPGFGFGSGS VPVNPLLSSS FPYQEELTFS NPPSSPPAKR FNSGSHQPVF  180
PFPDPDPGHD PFLVRRQQQF QFPFQFHQQQ QLPSSSSSLP PVPPPGTAGD DQTVIIEQLF  240
NAAELIGNNN NNGDHTALAQ GILARLNHHL SYSNNNNNNN KNPPFQRAAS HITESLLSLI  300
NNASPPLISP ENLILRIAAY RTFSETSPFL QFVNFTANQS ILESCNDELG FDRIHIIDFD  360
VGYGGQWSSL MQELASRRRN RASSLKITVF APPPSTVSDE FELRFTEENL RSFAGEVKIP  420
FEIELLSLEL LLNPAYWPVS LRSSEKEAVA VNLPVNSVVS GYLPLILRFL KQISPNVVVC  480
SDRGCDRNDA PFPNAVIHAL QYHTTLLESL DANQGHEDES VERFWVQPSI EKLLMKRHRW  540
IERSPPWRSL FAQCGFSPAS LSQTAEAQAE CLLQRSLVRG FYVEKRQGSL VMCWQRKELV  600
TVSAWKC
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5hyz_A1e-2832060680375GRAS family transcription factor containing protein, expressed
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in seedlings, roots, cotyledons, 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_009104096.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1894450.0AC189445.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB070L01, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009104096.10.0PREDICTED: LOW QUALITY PROTEIN: scarecrow-like protein 27
SwissprotQ7XJM80.0SCL27_ARATH; Scarecrow-like protein 27
TrEMBLM4CGH80.0M4CGH8_BRARP; Uncharacterized protein
STRINGBra003311.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM134171828
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G45160.10.0GRAS family protein
Publications ? help Back to Top
  1. Xue XY, et al.
    Interaction between two timing microRNAs controls trichome distribution in Arabidopsis.
    PLoS Genet., 2014. 10(4): p. e1004266
    [PMID:24699192]
  2. Huo X,Wang C,Teng Y,Liu X
    Identification of miRNAs associated with dark-induced senescence in Arabidopsis.
    BMC Plant Biol., 2015. 15: p. 266
    [PMID:26530097]
  3. Takanashi H, et al.
    miRNAs control HAM1 functions at the single-cell-layer level and are essential for normal embryogenesis in Arabidopsis.
    Plant Mol. Biol., 2018. 96(6): p. 627-640
    [PMID:29574557]