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_009107220.1
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: 445aa    MW: 49740.8 Da    PI: 6.4498
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009107220.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS525.32.1e-160564421374
            GRAS   1 lvelLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPilkfsh 95 
                     l++lLl+cA++v+sg+l++a+a+L++ls l+spdgd+mqR+aayfteALa+r+++s+++lykal++++t+++n+see+++++lf++++Pilk+s+
  XP_009107220.1  56 LIHLLLTCANHVASGSLQNANAALEQLSLLSSPDGDTMQRVAAYFTEALANRILKSWPGLYKALNATQTRTSNVSEEVHVRRLFFDMFPILKVSY 150
                     689******************************************************************************************** PP

            GRAS  96 ltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesgskeeleetgerLakfAeelgvpfefnvlvakrledle 190
                     l++N+aIlea+ege++vH+iD+d+s+++QW+aL+qa++sRpegpp+lRiTgv++    +ke l ++++rL + Ae+l++pf+fn+ v+++l++l+
  XP_009107220.1 151 LLTNRAILEAMEGEKMVHVIDLDASEPAQWLALIQAFNSRPEGPPHLRITGVHH----QKEVLDQMAHRLIEEAEKLDIPFQFNP-VVSSLQCLN 240
                     ******************************************************....9**************************.799****** PP

            GRAS 191 leeLrvkpgEalaVnlvlqlhrll................desvsles..erdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysal 267
                     +e+Lrvk+gEalaV++vlqlh+ll                ++s++l++  ++d++L+++++lsPk++vv+eq++dhn+++ +er+le+l++y+al
  XP_009107220.1 241 VEQLRVKTGEALAVSSVLQLHNLLasdvtsnnghslsgdsASSLPLSNsgKIDSFLNAIWGLSPKIMVVTEQDSDHNGSTVMERLLESLYTYAAL 335
                     **************************************9966666665569999***************************************** PP

            GRAS 268 fdsleaklpreseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvksdgyrveeesgslvlgW 362
                     fd+le+k+pr+s++r+kvE++l+g+ei+n++aceg+errerhe+lekW++r++ aGF++vpls++a+ qa++ll+ +++dgyr++eesg++v++W
  XP_009107220.1 336 FDCLETKVPRTSQDRMKVEKMLFGEEIKNIIACEGSERRERHEKLEKWSQRIDLAGFGNVPLSYYAMLQARRLLQGYGFDGYRIKEESGCAVICW 430
                     *********************************************************************************************** PP

            GRAS 363 kdrpLvsvSaWr 374
                     +drpL+svSaWr
  XP_009107220.1 431 QDRPLYSVSAWR 442
                     ***********8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098561.75330422IPR005202Transcription factor GRAS
PfamPF035147.2E-15856442IPR005202Transcription factor GRAS
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009739Biological Processresponse to gibberellin
GO:0005634Cellular Componentnucleus
Sequence ? help Back to Top
Protein Sequence    Length: 445 aa     Download sequence    Send to blast
MVAMFQEDNG TSSVASSPLQ VFSTMSLTRP TLLPSPSSSP FHSLKDLKPE ERGLYLIHLL  60
LTCANHVASG SLQNANAALE QLSLLSSPDG DTMQRVAAYF TEALANRILK SWPGLYKALN  120
ATQTRTSNVS EEVHVRRLFF DMFPILKVSY LLTNRAILEA MEGEKMVHVI DLDASEPAQW  180
LALIQAFNSR PEGPPHLRIT GVHHQKEVLD QMAHRLIEEA EKLDIPFQFN PVVSSLQCLN  240
VEQLRVKTGE ALAVSSVLQL HNLLASDVTS NNGHSLSGDS ASSLPLSNSG KIDSFLNAIW  300
GLSPKIMVVT EQDSDHNGST VMERLLESLY TYAALFDCLE TKVPRTSQDR MKVEKMLFGE  360
EIKNIIACEG SERRERHEKL EKWSQRIDLA GFGNVPLSYY AMLQARRLLQ GYGFDGYRIK  420
EESGCAVICW QDRPLYSVSA WRCRK
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_A2e-71394441380Protein SCARECROW
5b3h_D2e-71394441380Protein SCARECROW
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bra.3460.0bud| silique
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in seedlings, root epidermis, leaves, flowers and siliques. {ECO:0000269|PubMed:10341448, 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_009107220.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1893010.0AC189301.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB030D08, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009107220.10.0PREDICTED: scarecrow-like protein 3
SwissprotQ9LPR80.0SCL3_ARATH; Scarecrow-like protein 3
TrEMBLA0A397YC940.0A0A397YC94_BRACM; Uncharacterized protein
TrEMBLM4DCN50.0M4DCN5_BRARP; Uncharacterized protein
STRINGBra014251.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM40982759
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G50420.10.0scarecrow-like 3
Publications ? help Back to Top
  1. Gong X, et al.
    SEUSS Integrates Gibberellin Signaling with Transcriptional Inputs from the SHR-SCR-SCL3 Module to Regulate Middle Cortex Formation in the Arabidopsis Root.
    Plant Physiol., 2016. 170(3): p. 1675-83
    [PMID:26818732]
  2. Lee SA, et al.
    Interplay between ABA and GA Modulates the Timing of Asymmetric Cell Divisions in the Arabidopsis Root Ground Tissue.
    Mol Plant, 2016. 9(6): p. 870-84
    [PMID:26970019]
  3. Choi JW,Lim J
    Control of Asymmetric Cell Divisions during Root Ground Tissue Maturation.
    Mol. Cells, 2016. 39(7): p. 524-9
    [PMID:27306644]