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 Cagra.0860s0005.1.p
Organism
Capsella grandiflora
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family GRAS
Protein Properties Length: 483aa    MW: 54039.7 Da    PI: 6.2798
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cagra.0860s0005.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS531.72.3e-162544791374
                 GRAS   1 lvelLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPi 90 
                          l++lLl+cA++v+sg+l++a+a+L++ls+laspdgd+mqR+aayfteALa+r+++s+++lykal++++t+++n+see+++++lf+e++Pi
  Cagra.0860s0005.1.p  54 LIHLLLTCANHVASGSLQNANAALEQLSHLASPDGDTMQRIAAYFTEALANRILKSWPGLYKALNATQTRTNNVSEEIHVRRLFFEMFPI 143
                          689*************************************************************************************** PP

                 GRAS  91 lkfshltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesgskeeleetgerLakfAeelgvpfefnv 180
                          lk+s+l++N+aIlea+ege++vH+iD+d+s+++QW+aL+qa++sRpegpp+lRiTgv++    +ke l ++++rL + Ae+l++pf+fn+
  Cagra.0860s0005.1.p 144 LKVSYLLTNRAILEAMEGEKMVHVIDLDASEPAQWLALIQAFNSRPEGPPHLRITGVHH----QKEVLDQMAHRLIEEAEKLDIPFQFNP 229
                          ***********************************************************....9************************** PP

                 GRAS 181 lvakrledleleeLrvkpgEalaVnlvlqlhrll.......................................................d 215
                           v++rl++l++e+Lrvk+gEalaV++vlqlh++l                                                       +
  Cagra.0860s0005.1.p 230 -VVSRLDCLNVEQLRVKTGEALAVSSVLQLHTFLasdddlmrkncalrfqnnpsgidlqrvlmmshgstaeapeneisnnngyspsgdsA 318
                          .7*************************************************************************************996 PP

                 GRAS 216 esvsles..erdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfdsleaklpreseerikvErellgreivnvvacega 303
                          +s++l s  ++d++L+++++lsPk++vv+eq++dhn+++++er+le+l++y+alfd+le+k+pr+s++rikvE++l+g+ei+n++aceg+
  Cagra.0860s0005.1.p 319 SSLPLLSsgRTDSFLNAIWGLSPKIMVVTEQDSDHNGSTLMERLLESLYTYAALFDCLETKVPRTSQDRIKVEKMLFGEEIKNIIACEGS 408
                          6666666679******************************************************************************** PP

                 GRAS 304 errerhetlekWrerleeaGFkpvplsekaakqaklllrkvksdgyrveeesgslvlgWkdrpLvsvSaWr 374
                          errerhe+lekW++r++ aGF++vpls++a+ qa++ll+ +++dgyr++eesg++v++W+drpL+svSaWr
  Cagra.0860s0005.1.p 409 ERRERHEKLEKWSQRIDLAGFGNVPLSYYAMLQARRLLQGCGFDGYRIKEESGCAVICWQDRPLYSVSAWR 479
                          **********************************************************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098560.38528459IPR005202Transcription factor GRAS
PfamPF035147.8E-16054479IPR005202Transcription 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: 483 aa     Download sequence    Send to blast
MVAMLQEDNG TSSVASSPLQ VFSTMSLNRP TLLASSSPFH CLKDLKPEER GLYLIHLLLT  60
CANHVASGSL QNANAALEQL SHLASPDGDT MQRIAAYFTE ALANRILKSW PGLYKALNAT  120
QTRTNNVSEE IHVRRLFFEM FPILKVSYLL TNRAILEAME GEKMVHVIDL DASEPAQWLA  180
LIQAFNSRPE GPPHLRITGV HHQKEVLDQM AHRLIEEAEK LDIPFQFNPV VSRLDCLNVE  240
QLRVKTGEAL AVSSVLQLHT FLASDDDLMR KNCALRFQNN PSGIDLQRVL MMSHGSTAEA  300
PENEISNNNG YSPSGDSASS LPLLSSGRTD SFLNAIWGLS PKIMVVTEQD SDHNGSTLME  360
RLLESLYTYA ALFDCLETKV PRTSQDRIKV EKMLFGEEIK NIIACEGSER RERHEKLEKW  420
SQRIDLAGFG NVPLSYYAML QARRLLQGCG FDGYRIKEES GCAVICWQDR PLYSVSAWRC  480
RK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_A2e-62374811380Protein SCARECROW
5b3h_D2e-62374811380Protein SCARECROW
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in plant development. {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCagra.0860s0005.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC0125610.0AC012561.2 Arabidopsis thaliana chromosome I BAC F11F12 genomic sequence, complete sequence.
GenBankAY0561540.0AY056154.1 Arabidopsis thaliana putative scarecrow 3 protein (At1g50420) mRNA, complete cds.
GenBankAY0912600.0AY091260.1 Arabidopsis thaliana putative scarecrow 3 protein (At1g50420) mRNA, complete cds.
GenBankCP0026840.0CP002684.1 Arabidopsis thaliana chromosome 1 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006307373.10.0scarecrow-like protein 3
RefseqXP_006307374.10.0scarecrow-like protein 3
SwissprotQ9LPR80.0SCL3_ARATH; Scarecrow-like protein 3
TrEMBLR0GWE70.0R0GWE7_9BRAS; Uncharacterized protein
STRINGCagra.0860s0005.1.p0.0(Capsella grandiflora)
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]