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 Carubv10008997m
Common NameCARUB_v10008999mg
Organism
Capsella rubella
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: 54073.7 Da    PI: 6.2798
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10008997mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS533.28.2e-163544791374
             GRAS   1 lvelLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPilkfs 94 
                      l++lLl+cA++v+sg+l++a+a+L++ls+laspdgd+mqR+aayfteALa+r+++s+++lykal++++t+++n+see+++++lf+e++Pilk+s
  Carubv10008997m  54 LIHLLLTCANHVASGSLQNANAALEQLSHLASPDGDTMQRIAAYFTEALANRILKSWPGLYKALNATQTRTNNVSEEIHVRRLFFEMFPILKVS 147
                      689******************************************************************************************* PP

             GRAS  95 hltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesgskeeleetgerLakfAeelgvpfefnvlvakrled 188
                      +l++N+aIlea+ege++vH+iDfd+s+++QW+aL+qa++sRpegpp+lRiTgv++    +ke l ++++rL + Ae+l++pf+fn+ v++rl++
  Carubv10008997m 148 YLLTNRAILEAMEGEKMVHVIDFDASEPAQWLALIQAFNSRPEGPPHLRITGVHH----QKEVLDQMAHRLIEEAEKLDIPFQFNP-VVSRLDC 236
                      *******************************************************....9**************************.7****** PP

             GRAS 189 leleeLrvkpgEalaVnlvlqlhrll.......................................................desvsles..erd 225
                      l++e+Lrvk+gEalaV++vlqlh++l                                                       ++s++l s  ++d
  Carubv10008997m 237 LNVEQLRVKTGEALAVSSVLQLHTFLasdddlmrkncalrfqnnpsgidlqrvlmmshgstaeapeneisnnngyspsgdsASSLPLLSsgRTD 330
                      *******************************************************************************9966666666679** PP

             GRAS 226 evLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfdsleaklpreseerikvErellgreivnvvacegaerrerhetlekWrerl 319
                      ++L+++++lsPk++vv+eq++dhn+++++er+le+l++y+alfd+le+k+pr+s++rikvE++l+g+ei+n++aceg+errerhe+lekW++r+
  Carubv10008997m 331 SFLNAIWGLSPKIMVVTEQDSDHNGSTLMERLLESLYTYAALFDCLETKVPRTSQDRIKVEKMLFGEEIKNIIACEGSERRERHEKLEKWSQRI 424
                      ********************************************************************************************** PP

             GRAS 320 eeaGFkpvplsekaakqaklllrkvksdgyrveeesgslvlgWkdrpLvsvSaWr 374
                      + aGF++vpls++a+ qa++ll+ +++dgyr++eesg++v++W+drpL+svSaWr
  Carubv10008997m 425 DLAGFGNVPLSYYAMLQARRLLQGCGFDGYRIKEESGCAVICWQDRPLYSVSAWR 479
                      ******************************************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098560.78528459IPR005202Transcription factor GRAS
PfamPF035142.8E-16054479IPR005202Transcription factor GRAS
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
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 GEKMVHVIDF 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_A6e-62374811380Protein SCARECROW
5b3h_D6e-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
PlantRegMapCarubv10008997m
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
STRINGXP_006307373.10.0(Capsella rubella)
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]